Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold22
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1926927
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.27
Warning! 314813 characters in sequence are not A, C, G, or T
File 7 of 11
Found at i:1255623 original size:44 final size:44
Alignment explanation
Indices: 1255560--1255663 Score: 190
Period size: 44 Copynumber: 2.4 Consensus size: 44
1255550 AATATAGCTA
*
1255560 GCCTTGAATCAGCACATTGGCACTTTTCTTATCTTTAAGCCCAG
1 GCCTTGAATCAACACATTGGCACTTTTCTTATCTTTAAGCCCAG
1255604 GCCTTGAATCAACACATTGGCACTTTTCTTATCTTTAAGCCCAG
1 GCCTTGAATCAACACATTGGCACTTTTCTTATCTTTAAGCCCAG
*
1255648 GCCTTGAATCTACACA
1 GCCTTGAATCAACACA
1255664 CAAGCACATC
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
44 58 1.00
ACGTcount: A:0.25, C:0.28, G:0.14, T:0.33
Consensus pattern (44 bp):
GCCTTGAATCAACACATTGGCACTTTTCTTATCTTTAAGCCCAG
Found at i:1256463 original size:7 final size:8
Alignment explanation
Indices: 1256446--1256473 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
1256436 TATTCGATAT
1256446 AAAATCAA
1 AAAATCAA
1256454 AAAATCAA
1 AAAATCAA
1256462 AAAATCAA
1 AAAATCAA
1256470 AAAA
1 AAAA
1256474 AATAAAGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.79, C:0.11, G:0.00, T:0.11
Consensus pattern (8 bp):
AAAATCAA
Found at i:1256474 original size:17 final size:17
Alignment explanation
Indices: 1256446--1256505 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 17
1256436 TATTCGATAT
1256446 AAAATC-AAAAAATCAA
1 AAAATCAAAAAAATCAA
1256462 AAAATCAAAAAAAAT-AA
1 AAAATC-AAAAAAATCAA
1256479 AGAATCATCAAAAAAATTCAA
1 A-AA--ATCAAAAAAA-TCAA
1256500 TAAAAT
1 -AAAAT
1256506 AATAAATTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
16 6 0.17
17 3 0.08
18 9 0.25
19 9 0.25
20 4 0.11
21 4 0.11
22 1 0.03
ACGTcount: A:0.72, C:0.10, G:0.02, T:0.17
Consensus pattern (17 bp):
AAAATCAAAAAAATCAA
Found at i:1257177 original size:95 final size:95
Alignment explanation
Indices: 1257006--1257178 Score: 274
Period size: 95 Copynumber: 1.8 Consensus size: 95
1256996 TGCAGCAAAC
* *
1257006 AAAATGCAAAGGGAGACAAAACATGCAACAAGCAACGTGCAAAGCAAGAAGAAATGTGTAGCACG
1 AAAATGCAAAGGGAGACAAAACATGCAACAAGCAACGTGCAAAGCAAGAAGAAATATGCAGCACG
* ** *
1257071 TGGGCAGCATGGAAAGGATGATTATTAAAA
66 CGCACAACATGGAAAGGATGATTATTAAAA
* *
1257101 AAAATGCAATGGGAGACAAAACATGCAACAAGCAATGTGCAAAGCAAGAAGAAATATGCAGCACG
1 AAAATGCAAAGGGAGACAAAACATGCAACAAGCAACGTGCAAAGCAAGAAGAAATATGCAGCACG
1257166 CGCACAACATGGA
66 CGCACAACATGGA
1257179 GAGAGGGAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
95 70 1.00
ACGTcount: A:0.47, C:0.16, G:0.25, T:0.12
Consensus pattern (95 bp):
AAAATGCAAAGGGAGACAAAACATGCAACAAGCAACGTGCAAAGCAAGAAGAAATATGCAGCACG
CGCACAACATGGAAAGGATGATTATTAAAA
Found at i:1272853 original size:21 final size:21
Alignment explanation
Indices: 1272827--1272900 Score: 89
Period size: 21 Copynumber: 3.6 Consensus size: 21
1272817 ACAATTCAAA
1272827 GTATCGATACATGAAAAAAAT
1 GTATCGATACATGAAAAAAAT
****
1272848 GTATCGATACATG-TTGCAAT
1 GTATCGATACATGAAAAAAAT
1272868 GTATCGATACAT-AAAAAAGAT
1 GTATCGATACATGAAAAAA-AT
1272889 GTATCGATACAT
1 GTATCGATACAT
1272901 TTCTTGGCAG
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 16 0.37
21 27 0.63
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.28
Consensus pattern (21 bp):
GTATCGATACATGAAAAAAAT
Found at i:1277046 original size:15 final size:15
Alignment explanation
Indices: 1277026--1277056 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1277016 TAAAAATGTC
*
1277026 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1277041 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1277056 C
1 C
1277057 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1279153 original size:13 final size:13
Alignment explanation
Indices: 1279135--1279173 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1279125 ACATTTTTCC
1279135 TTGTATCGATACA
1 TTGTATCGATACA
1279148 TTGTATCGATACA
1 TTGTATCGATACA
*
1279161 CTGTATCGATACA
1 TTGTATCGATACA
1279174 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1281068 original size:48 final size:48
Alignment explanation
Indices: 1281014--1281109 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
1281004 GGGGAGATAA
1281014 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
1 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
1281062 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
1 AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
1281110 CGTAAAATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.38, C:0.08, G:0.29, T:0.25
Consensus pattern (48 bp):
AGGAGAGAATGCGTGAATTACCTTATTAAGGGGGAGAATGTACAAATT
Found at i:1281687 original size:20 final size:20
Alignment explanation
Indices: 1281661--1281733 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
1281651 ACAATTCAAA
1281661 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
* ****
1281681 GTTTCGATACATGAAAAAAAT
1 GTATCGATACATG-TTGCAAT
1281702 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1281722 GTATCGATACAT
1 GTATCGATACAT
1281734 AAAAAAGATG
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.33
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1281708 original size:21 final size:21
Alignment explanation
Indices: 1281678--1281754 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
1281668 TACATGTTGC
*
1281678 AATGTTTCGATACATGAAAAA
1 AATGTATCGATACATGAAAAA
****
1281699 AATGTATCGATACATG-TTGC
1 AATGTATCGATACATGAAAAA
1281719 AATGTATCGATACAT-AAAAA
1 AATGTATCGATACATGAAAAA
1281739 AGATGTATCGATACAT
1 A-ATGTATCGATACAT
1281755 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.30
Consensus pattern (21 bp):
AATGTATCGATACATGAAAAA
Found at i:1281709 original size:41 final size:41
Alignment explanation
Indices: 1281661--1281754 Score: 163
Period size: 41 Copynumber: 2.3 Consensus size: 41
1281651 ACAATTCAAA
*
1281661 GTATCGATACATGTTGCAATGTTTCGATACATGAAAAAA-AT
1 GTATCGATACATGTTGCAATGTATCGATACAT-AAAAAAGAT
1281702 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1281743 GTATCGATACAT
1 GTATCGATACAT
1281755 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 6 0.12
41 45 0.88
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:1281811 original size:13 final size:13
Alignment explanation
Indices: 1281793--1281818 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1281783 TACAGCAAGT
1281793 ATGTATCGATACA
1 ATGTATCGATACA
1281806 ATGTATCGATACA
1 ATGTATCGATACA
1281819 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1287641 original size:22 final size:21
Alignment explanation
Indices: 1287613--1287682 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 21
1287603 GCATCCTCCT
1287613 AAAAAAAAAACAAAAGAAAAAC
1 AAAAAAAAAACAAAA-AAAAAC
1287635 AAAAAAACAAAC-AAAAAAAAC
1 AAAAAAA-AAACAAAAAAAAAC
* *
1287656 AAAAAAAATAATAAAAAACAAC
1 AAAAAAAA-AACAAAAAAAAAC
1287678 AAAAA
1 AAAAA
1287683 GGGTCCGGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 1 0.02
21 15 0.35
22 23 0.53
23 4 0.09
ACGTcount: A:0.86, C:0.10, G:0.01, T:0.03
Consensus pattern (21 bp):
AAAAAAAAAACAAAAAAAAAC
Found at i:1287646 original size:23 final size:20
Alignment explanation
Indices: 1287613--1287682 Score: 86
Period size: 21 Copynumber: 3.2 Consensus size: 20
1287603 GCATCCTCCT
1287613 AAAAAAAAAACAAAAGAAAAAC
1 AAAAAAAAAAC-AAA-AAAAAC
1287635 AAAAAAACAAACAAAAAAAAC
1 AAAAAAA-AAACAAAAAAAAC
*
1287656 AAAAAAAATAATAAAAAACAAC
1 AAAAAAAA-AACAAAAAA-AAC
1287678 AAAAA
1 AAAAA
1287683 GGGTCCGGAT
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
20 1 0.02
21 21 0.48
22 18 0.41
23 4 0.09
ACGTcount: A:0.86, C:0.10, G:0.01, T:0.03
Consensus pattern (20 bp):
AAAAAAAAAACAAAAAAAAC
Found at i:1287656 original size:32 final size:31
Alignment explanation
Indices: 1287615--1287682 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 31
1287605 ATCCTCCTAA
1287615 AAAAAAAACAAAAGAAAA-ACA-AAAAAACAAAC
1 AAAAAAAACAAAA-AAAATA-ATAAAAAAC-AAC
1287647 AAAAAAAACAAAAAAAATAATAAAAAACAAC
1 AAAAAAAACAAAAAAAATAATAAAAAACAAC
1287678 AAAAA
1 AAAAA
1287683 GGGTCCGGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
31 13 0.38
32 21 0.62
ACGTcount: A:0.85, C:0.10, G:0.01, T:0.03
Consensus pattern (31 bp):
AAAAAAAACAAAAAAAATAATAAAAAACAAC
Found at i:1287682 original size:1 final size:1
Alignment explanation
Indices: 1287613--1287673 Score: 50
Period size: 1 Copynumber: 61.0 Consensus size: 1
1287603 GCATCCTCCT
* * * * * * * *
1287613 AAAAAAAAAACAAAAGAAAAACAAAAAAACAAACAAAAAAAACAAAAAAAATAATAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1287674 CAACAAAAAG
Statistics
Matches: 44, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.87, C:0.08, G:0.02, T:0.03
Consensus pattern (1 bp):
A
Found at i:1288747 original size:37 final size:37
Alignment explanation
Indices: 1288697--1288777 Score: 153
Period size: 37 Copynumber: 2.2 Consensus size: 37
1288687 TGCCACAATC
*
1288697 ATGCATTTGTGACATTCATAACATTTTATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
1288734 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
1288771 ATGCATT
1 ATGCATT
1288778 CGTGCTTCAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (37 bp):
ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
Found at i:1289182 original size:29 final size:29
Alignment explanation
Indices: 1289139--1289586 Score: 143
Period size: 29 Copynumber: 15.7 Consensus size: 29
1289129 GACATTCCTC
*
1289139 ATTTTCCAAAGCCCACAAGTCAATGGCAT
1 ATTTTCAAAAGCCCACAAGTCAATGGCAT
* *
1289168 ATTTTCAAAATCCCACAAGTCAGTGGCA-
1 ATTTTCAAAAGCCCACAAGTCAATGGCAT
** * * * * * *
1289196 ACCTTCAGAAGACCAAAAATCGATGGCACCC
1 ATTTTCAAAAGCCCACAAGTCAATGGCA--T
*** * *
1289227 CCGTT--AAAGCTCACAAGTCAATGGCACC
1 ATTTTCAAAAGCCCACAAGTCAATGGCA-T
*
1289255 CTTTTCAAAAGCCCACAAGT-AAGTGGCA-
1 ATTTTCAAAAGCCCACAAGTCAA-TGGCAT
** * * * *
1289283 ACCTTCAGAAGCCCACAAATCGATGGCACC
1 ATTTTCAAAAGCCCACAAGTCAATGGCA-T
* * * *
1289313 CTCTTC-AAAGCCCACAAGTCAGTGGCACC
1 ATTTTCAAAAGCCCACAAGTCAATGGCA-T
* * *
1289342 CTTTTCAAAAGCCCACAAGTTAGTGGCA-
1 ATTTTCAAAAGCCCACAAGTCAATGGCAT
** * * ** *
1289370 ACCTTCAGAAGCCCACAAATCGGTGGCACC
1 ATTTTCAAAAGCCCACAAGTCAATGGCA-T
*** *
1289400 CCCTTC-AAAGCCCACAAGTCAATGGCACC
1 ATTTTCAAAAGCCCACAAGTCAATGGCA-T
* * * **
1289429 CTTTTC-AAAGCCCATAAGTCAGTGGTGT
1 ATTTTCAAAAGCCCACAAGTCAATGGCAT
* * * * *
1289457 CTTTTCAAAAACCCATAAGTCAGTGGCAC
1 ATTTTCAAAAGCCCACAAGTCAATGGCAT
* * * *
1289486 CTTTTC-AAAGCCCATAAGTCAGTAGCA-
1 ATTTTCAAAAGCCCACAAGTCAATGGCAT
** * *
1289513 ACCTTCAAAAGCCCACAAGTTAGTGGCA-
1 ATTTTCAAAAGCCCACAAGTCAATGGCAT
* *
1289541 ACTTTTC-AAAGTCCACAAGTCAGTGGCA-
1 A-TTTTCAAAAGCCCACAAGTCAATGGCAT
**
1289569 ACCTTC-AAAGCCCACAAG
1 ATTTTCAAAAGCCCACAAG
1289587 GTAGTGGCAA
Statistics
Matches: 329, Mismatches: 75, Indels: 32
0.75 0.17 0.07
Matches are distributed among these distances:
27 17 0.05
28 129 0.39
29 134 0.41
30 46 0.14
31 3 0.01
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (29 bp):
ATTTTCAAAAGCCCACAAGTCAATGGCAT
Found at i:1289291 original size:87 final size:87
Alignment explanation
Indices: 1289145--1289586 Score: 483
Period size: 87 Copynumber: 5.1 Consensus size: 87
1289135 CCTCATTTTC
** * *
1289145 CAAAGCCCACAAGTCAATGGCA-TATTTTCAAAATCCCACAAGTCAGTGGCAACCTTCAGAAGAC
1 CAAAGCCCACAAGTCAATGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAGAAGCC
*
1289209 CAAAAATCGATGGCACCCCCGTT
66 CACAAATCGATGGCACCCCC-TT
* *
1289232 -AAAGCTCACAAGTCAATGGCACCCTTTTCAAAAGCCCACAAGTAAGTGGCAACCTTCAGAAGCC
1 CAAAGCCCACAAGTCAATGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAGAAGCC
*
1289296 CACAAATCGATGGCACCCTCTT
66 CACAAATCGATGGCACCCCCTT
* *
1289318 CAAAGCCCACAAGTCAGTGGCACCCTTTTCAAAAGCCCACAAGTTAGTGGCAACCTTCAGAAGCC
1 CAAAGCCCACAAGTCAATGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAGAAGCC
*
1289383 CACAAATCGGTGGCACCCCCTT
66 CACAAATCGATGGCACCCCCTT
* *** * * *
1289405 CAAAGCCCACAAGTCAATGGCACCCTTTTC-AAAGCCCATAAGTCAGTGGTGTCTTTTCAAAAAC
1 CAAAGCCCACAAGTCAATGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAAC-CTTCAGAAGC
* * **
1289469 CCATAAGTC-AGTGGCA-CCTTTT
65 CCACAAATCGA-TGGCACCCCCTT
* * * * * * *
1289491 CAAAGCCCATAAGTCAGTAGCAACC--TTCAAAAGCCCACAAGTTAGTGGCAACTTTTCA-AAGT
1 CAAAGCCCACAAGTCAATGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAAC-CTTCAGAAGC
* *
1289553 CCACAAGTC-AGTGGCA--ACCTT
65 CCACAAATCGA-TGGCACCCCCTT
1289574 CAAAGCCCACAAG
1 CAAAGCCCACAAG
1289587 GTAGTGGCAA
Statistics
Matches: 307, Mismatches: 43, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
83 14 0.05
84 20 0.07
85 24 0.08
86 65 0.21
87 184 0.60
ACGTcount: A:0.33, C:0.31, G:0.17, T:0.19
Consensus pattern (87 bp):
CAAAGCCCACAAGTCAATGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTCAGAAGCC
CACAAATCGATGGCACCCCCTT
Found at i:1289298 original size:28 final size:27
Alignment explanation
Indices: 1289145--1289604 Score: 327
Period size: 28 Copynumber: 16.1 Consensus size: 27
1289135 CCTCATTTTC
* **
1289145 CAAAGCCCACAAGTCAATGGCATATTTT
1 CAAAGCCCACAAGTCAGTGGCA-ACCTT
*
1289173 CAAAATCCCACAAGTCAGTGGCAACCTT
1 C-AAAGCCCACAAGTCAGTGGCAACCTT
* * * *
1289201 CAGAAGACCAAAAATC-GATGGCACCCCCGTT
1 CA-AAGCCCACAAGTCAG-TGGCA--ACC-TT
* * *
1289232 -AAAGCTCACAAGTCAATGGCACCCTTTT
1 CAAAGCCCACAAGTCAGTGGCAACC--TT
*
1289260 CAAAAGCCCACAAGTAAGTGGCAACCTT
1 C-AAAGCCCACAAGTCAGTGGCAACCTT
* *
1289288 CAGAAGCCCACAAATC-GATGGCACCCTCTT
1 CA-AAGCCCACAAGTCAG-TGGCA-AC-CTT
*
1289318 CAAAGCCCACAAGTCAGTGGCACCCTTTT
1 CAAAGCCCACAAGTCAGTGGCAACC--TT
*
1289347 CAAAAGCCCACAAGTTAGTGGCAACCTT
1 C-AAAGCCCACAAGTCAGTGGCAACCTT
* * *
1289375 CAGAAGCCCACAAATCGGTGGCACCCCCTT
1 CA-AAGCCCACAAGTCAGTGGCA--ACCTT
* *
1289405 CAAAGCCCACAAGTCAATGGCACCCTTTT
1 CAAAGCCCACAAGTCAGTGGCAACC--TT
* *** *
1289434 CAAAGCCCATAAGTCAGTGGTGTCTTTT
1 CAAAGCCCACAAGTCAGTGGCAAC-CTT
* *
1289462 CAAAAACCCATAAGTCAGTGGC-ACCTTTT
1 C-AAAGCCCACAAGTCAGTGGCAACC--TT
* *
1289491 CAAAGCCCATAAGTCAGTAGCAACCTT
1 CAAAGCCCACAAGTCAGTGGCAACCTT
* *
1289518 CAAAAGCCCACAAGTTAGTGGCAACTTTT
1 C-AAAGCCCACAAGTCAGTGGCAAC-CTT
*
1289547 CAAAGTCCACAAGTCAGTGGCAACCTT
1 CAAAGCCCACAAGTCAGTGGCAACCTT
1289574 CAAAGCCCACAAGGT-AGTGGCAACCTT
1 CAAAGCCCACAA-GTCAGTGGCAACCTT
1289601 CAAA
1 CAAA
1289605 AGCACATAAT
Statistics
Matches: 349, Mismatches: 52, Indels: 63
0.75 0.11 0.14
Matches are distributed among these distances:
27 44 0.13
28 127 0.36
29 119 0.34
30 57 0.16
31 2 0.01
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (27 bp):
CAAAGCCCACAAGTCAGTGGCAACCTT
Found at i:1289631 original size:83 final size:83
Alignment explanation
Indices: 1289258--1289633 Score: 280
Period size: 87 Copynumber: 4.4 Consensus size: 83
1289248 TGGCACCCTT
* * * *
1289258 TTCAAAAGCCCACAAGTAAGTGGCAACC-TTCAGAAGCCCACAAATC-GATGGCACCCTCTTCAA
1 TTCAAAAGCACACAAGTTAGTGGCAACCTTTCA-AAGTCCACAAGTCAG-TGGCA-CCT-TTCAA
* *
1289321 AGCCCACAAGTCAGTGGCACCC
62 AGCCCACAAGTCAGTAGCAACC
* * * * *
1289343 TTTTCAAAAGCCCACAAGTTAGTGGCAACC-TTCAGAAGCCCACAAATCGGTGGCACCCCCTTCA
1 --TTCAAAAGCACACAAGTTAGTGGCAACCTTTCA-AAGTCCACAAGTCAGTGGCA--CCTTTCA
* * *
1289407 AAGCCCACAAGTCAATGGCACCC
61 AAGCCCACAAGTCAGTAGCAACC
* * * *** * ** *
1289430 TTTTC-AAAGCCCATAAGTCAGTGGTGTCTTTTCAAAAACCCATAAGTCAGTGGCACCTTTTCAA
1 --TTCAAAAGCACACAAGTTAGTGGCAACCTTTC-AAAGTCCACAAGTCAGTGGCACC-TTTCAA
*
1289494 AGCCCATAAGTCAGTAGCAACC
62 AGCCCACAAGTCAGTAGCAACC
* *
1289516 TTCAAAAGCCCACAAGTTAGTGGCAACTTTTCAAAGTCCACAAGTCAGTGGCAACC-TTCAAAGC
1 TTCAAAAGCACACAAGTTAGTGGCAACCTTTCAAAGTCCACAAGTCAGTGGC-ACCTTTCAAAGC
*
1289580 CCACAAGGT-AGTGGCAACC
65 CCACAA-GTCAGTAGCAACC
* * *
1289599 TTCAAAAGCACATAATTTGGT-GCAACCCTTTCAAA
1 TTCAAAAGCACACAAGTTAGTGGCAA-CCTTTCAAA
1289634 AGCCCACACA
Statistics
Matches: 247, Mismatches: 33, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
82 4 0.02
83 47 0.19
84 22 0.09
85 28 0.11
86 41 0.17
87 100 0.40
88 5 0.02
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (83 bp):
TTCAAAAGCACACAAGTTAGTGGCAACCTTTCAAAGTCCACAAGTCAGTGGCACCTTTCAAAGCC
CACAAGTCAGTAGCAACC
Found at i:1289838 original size:101 final size:101
Alignment explanation
Indices: 1289658--1290014 Score: 552
Period size: 101 Copynumber: 3.5 Consensus size: 101
1289648 GGTGGCATTT
* *
1289658 TCTTCTAAGTCCAATATCACTGGCCTTGAATCAGCATTTTGGCACCTTTGTCACCTTTAAATCCA
1 TCTT-TAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTGTCACCTTTAAGTCCA
*
1289723 ATGTTGCTGGCCTTAAATCAGCACGTTGGCACCTTCA
65 ATGTTGCTGGCCTTAAATCAGCACATTGGCACCTTCA
* *
1289760 TCTTTAAGTCCAATATCGCTGGCCTTGAATCATCATATTGGCACCTTTGTCACCTTTAAGTCCAA
1 TCTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTGTCACCTTTAAGTCCAA
*
1289825 TGTTGCTGGCCTTAAATCAACACATTGGCACCTTCA
66 TGTTGCTGGCCTTAAATCAGCACATTGGCACCTTCA
* * * * * *
1289861 TCTCTAAGTCCAATATCGCTGGCCTTGAATTAGCATATCGGTACCTTTGTCATCTTTAAGTCCAA
1 TCTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTGTCACCTTTAAGTCCAA
* *
1289926 TGTTGCTGGCCTTGAATCAGCACATTGGCATCTTCA
66 TGTTGCTGGCCTTAAATCAGCACATTGGCACCTTCA
* * *
1289962 TCTTTAAGCCCAATATCACTGGTCTTGAATCAGCATATTGGCACCTTTATCAC
1 TCTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTGTCAC
1290015 TCTTCTCATC
Statistics
Matches: 231, Mismatches: 24, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
101 227 0.98
102 4 0.02
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (101 bp):
TCTTTAAGTCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTGTCACCTTTAAGTCCAA
TGTTGCTGGCCTTAAATCAGCACATTGGCACCTTCA
Found at i:1290121 original size:49 final size:50
Alignment explanation
Indices: 1290033--1290326 Score: 265
Period size: 49 Copynumber: 5.9 Consensus size: 50
1290023 TCTTCATCGC
* * * * * * *
1290033 CTTTAAGCCCAATGTTGCTGGCCTTAAATCAGCACATTGGCACCT-TCCT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTGTCAT
* * ** * *
1290082 CTTTAAGTCTAATATCGCTAGCCTTGAATTTGCATATTGGCACATTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCAC--CTGTCAT
*
1290134 CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTAGCACCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACC--TGTCAT
* * *
1290186 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTAGCACCT-TCAC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTGTCAT
* * * * *
1290235 CTTTAAGTCCAATGTTGCTGGCCTTGAATCAACACATT-GCCATCT-TCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAG-CACCTGTCAT
* * * *
1290284 CTTTAAGCCCAATATCACTGGTCC-TGAATGAGCATATTGGCAC
1 CTTTAAGTCCAATATCGCTGG-CCTTGAATCAGCATATTAGCAC
1290327 TTTTATCACT
Statistics
Matches: 203, Mismatches: 34, Indels: 16
0.80 0.13 0.06
Matches are distributed among these distances:
48 1 0.00
49 110 0.54
50 4 0.02
51 1 0.00
52 87 0.43
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (50 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTGTCAT
Found at i:1290239 original size:101 final size:100
Alignment explanation
Indices: 1290032--1290299 Score: 290
Period size: 101 Copynumber: 2.7 Consensus size: 100
1290022 ATCTTCATCG
* * * * *
1290032 CCTTTAAGCCCAATGTTGCTGGCCTTAAATCAGCACATTGGCACCTTCCTCTTTAAGTCTAATAT
1 CCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTAGCACCTTCATCTTTAAGTCCAATAT
** * * *
1290097 CGCTAGCCTTGAATTTGCATATTGGCACATTTGTCA
66 CGCTAGCCTTGAATCAGCACATTAGCACA-CTGTCA
* * * * *
1290133 TCTTTAAGTCCAATATCGTTGGCCTTGAATCAGCATATTAGCACCTTTGTCATCTTTAAGTCCAA
1 CCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTAGCACC--T-TCATCTTTAAGTCCAA
* *
1290198 TGTCGCTGGCCTTGAATCAGCACATTAGCAC-CT-TCA
63 TATCGCTAGCCTTGAATCAGCACATTAGCACACTGTCA
* * *
1290234 CCTTTAAGTCCAATGTTGCTGGCCTTGAATCAACACATT-GCCATCTTCATCTTTAAGCCCAATA
1 CCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTAG-CACCTTCATCTTTAAGTCCAATA
1290298 TC
65 TC
1290300 ACTGGTCCTG
Statistics
Matches: 137, Mismatches: 26, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
98 18 0.13
99 1 0.01
100 1 0.01
101 76 0.55
102 1 0.01
103 1 0.01
104 39 0.28
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (100 bp):
CCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTAGCACCTTCATCTTTAAGTCCAATAT
CGCTAGCCTTGAATCAGCACATTAGCACACTGTCA
Found at i:1290293 original size:321 final size:320
Alignment explanation
Indices: 1289708--1290383 Score: 973
Period size: 321 Copynumber: 2.1 Consensus size: 320
1289698 GGCACCTTTG
* *
1289708 TCACCTTTAAATCCAATGTTGCTGGCCTTAAATCAGCACGTTGGCACCTTCATCTTTAAGTCCAA
1 TCACCTTTAAGTCCAATGTTGCTGGCCTTAAATCAGCACATTGGCACCTTCATCTTTAAGTCCAA
* * * *
1289773 TATCGCTGGCCTTGAATCATCATATTGGCACCTTTGTCACCTTTAAGTCCAATGTTGCTGGCCTT
66 TATCGCTAGCCTTGAATCATCATATTGGCACATTTGTCACCTTTAAGTCCAATATCGCTGGCCTT
* * * * *
1289838 AAATCAACACATTGGCACCTTCATCTCTAAGTCCAATATCGCTGGCCTTGAATTAGCATATCGGT
131 AAATCAACACATTAGCACCTTCATCTCTAAGTCCAATATCGCTGGCCTTGAATCAGCACATCAGC
* * *
1289903 ACCTTTGTCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTA
196 ACC-TTGTCACCTTTAAGTCCAATGTTGCTGGCCTTGAATCAACACATTGCCATCTTCATCTTTA
*
1289968 AGCCCAATATCACTGGTCTTGAATCAGCATATTGGCACCTTTATCACTCTTCTCATCTTCA
260 AGCCCAATATCACTGGTCCTGAATCAGCATATTGGCACCTTTATCACTCTTCTCATCTTCA
* * * *
1290029 TCGCCTTTAAGCCCAATGTTGCTGGCCTTAAATCAGCACATTGGCACCTTCCTCTTTAAGTCTAA
1 TCACCTTTAAGTCCAATGTTGCTGGCCTTAAATCAGCACATTGGCACCTTCATCTTTAAGTCCAA
* * *
1290094 TATCGCTAGCCTTGAAT-TTGCATATTGGCACATTTGTCATCTTTAAGTCCAATATCGTTGGCCT
66 TATCGCTAGCCTTGAATCAT-CATATTGGCACATTTGTCACCTTTAAGTCCAATATCGCTGGCCT
* * * * *
1290158 TGAATCAGCATATTAGCACCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
130 TAAATCAACACATTAGCACC--T-TCATCTCTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
*
1290223 TAGCACC-T-TCACCTTTAAGTCCAATGTTGCTGGCCTTGAATCAACACATTGCCATCTTCATCT
192 CAGCACCTTGTCACCTTTAAGTCCAATGTTGCTGGCCTTGAATCAACACATTGCCATCTTCATCT
* *
1290286 TTAAGCCCAATATCACTGGTCCTGAATGAGCATATTGGCACTTTTATCACTCTTCTCATCTTCA
257 TTAAGCCCAATATCACTGGTCCTGAATCAGCATATTGGCACCTTTATCACTCTTCTCATCTTCA
* * *
1290350 TCATCTTTAAGTCCAGTGTTG-TAGGCCTTGAATC
1 TCACCTTTAAGTCCAATGTTGCT-GGCCTTAAATC
1290384 TACACACTAG
Statistics
Matches: 315, Mismatches: 35, Indels: 10
0.88 0.10 0.03
Matches are distributed among these distances:
320 2 0.01
321 270 0.86
322 1 0.00
323 1 0.00
324 41 0.13
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (320 bp):
TCACCTTTAAGTCCAATGTTGCTGGCCTTAAATCAGCACATTGGCACCTTCATCTTTAAGTCCAA
TATCGCTAGCCTTGAATCATCATATTGGCACATTTGTCACCTTTAAGTCCAATATCGCTGGCCTT
AAATCAACACATTAGCACCTTCATCTCTAAGTCCAATATCGCTGGCCTTGAATCAGCACATCAGC
ACCTTGTCACCTTTAAGTCCAATGTTGCTGGCCTTGAATCAACACATTGCCATCTTCATCTTTAA
GCCCAATATCACTGGTCCTGAATCAGCATATTGGCACCTTTATCACTCTTCTCATCTTCA
Found at i:1292863 original size:79 final size:79
Alignment explanation
Indices: 1292470--1292997 Score: 526
Period size: 79 Copynumber: 6.8 Consensus size: 79
1292460 GGGTGGAGAA
* * * * *
1292470 TTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAAT--AATC-GGAGTTGGAGTATCCCC
1 TTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCAGG-GTTGGAGTATCCCC
* *
1292532 TTGGAAATAATC-GGA
65 TCGGAAATAA-CGGGG
* * *
1292547 TTGGAGTATTCCCGATTTTAAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCCT
1 TTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCCT
*
1292612 CGAAAATAAC-GGG
66 CGGAAATAACGGGG
* * * ** * * *
1292625 TTGGAGTATCCCCGATTATGAGAAATTAATATTTGGGAAATAAAGCCGGGGTTGCAGTATCCCCT
1 TTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCCT
*
1292690 CGGAAATAACGAGG
66 CGGAAATAACGGGG
* * *
1292704 TTAGAGTAT-CCC--TGATGAAAAATTGATGTTTTAGAAAT-AAACCAGGGTTGGAGTGTCCCCT
1 TTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCCT
* *
1292765 TGGAAATAACGAGG
66 CGGAAATAACGGGG
* * * ** * * *
1292779 TTGGAGTATCCCCGATTATGAGAAATTAATATTTGGGAAATAAAGCCAAGGTTGGAGTATTCCCT
1 TTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCCT
1292844 CGGAAATAACGGGG
66 CGGAAATAACGGGG
* * *
1292858 CTGGAGTATCCCCG---ATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTGTTCCCT
1 TTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCCT
* *
1292920 TGGAAATAACAGGG
66 CGGAAATAACGGGG
* * * * * *
1292934 TTGGAGTATCCCCAATTGTG-AAAAGTCAGTGTTTTGGAAATAAAATC-GGAGTTGGAGTATCCC
1 TTGGAGTATCCCCGATTATGAAAAATTGA-TGTTTTAGAAATAAAACCAGG-GTTGGAGTATCCC
1292997 C
64 C
1292998 GATTATGGAA
Statistics
Matches: 370, Mismatches: 68, Indels: 24
0.80 0.15 0.05
Matches are distributed among these distances:
75 40 0.11
76 87 0.24
77 35 0.09
78 97 0.26
79 109 0.29
80 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (79 bp):
TTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCCT
CGGAAATAACGGGG
Found at i:1292918 original size:76 final size:77
Alignment explanation
Indices: 1292470--1292946 Score: 466
Period size: 78 Copynumber: 6.2 Consensus size: 77
1292460 GGGTGGAGAA
* * * * *
1292470 TTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAAT--AATC-GGAGTTGGAGTATCCCC
1 TTGGAGTATCCCCG--TATGAAAAATTGATGTTTTAGAAATAAAACCAGG-GTTGGAGTATCCCC
* *
1292532 TTGGAAATAATC-GGA
63 TCGGAAATAA-CGGGG
* * *
1292547 TTGGAGTATTCCCGATTTTAAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCCT
1 TTGGAGTATCCCCG--TATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCCT
*
1292612 CGAAAATAAC-GGG
64 CGGAAATAACGGGG
* * * ** * * *
1292625 TTGGAGTATCCCCGATTATGAGAAATTAATATTTGGGAAATAAAGCCGGGGTTGCAGTATCCCCT
1 TTGGAGTATCCCCG--TATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCCT
*
1292690 CGGAAATAACGAGG
64 CGGAAATAACGGGG
* * * *
1292704 TTAGAGTATCCCTG-ATGAAAAATTGATGTTTTAGAAAT-AAACCAGGGTTGGAGTGTCCCCTTG
1 TTGGAGTATCCCCGTATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTCG
*
1292767 GAAATAACGAGG
66 GAAATAACGGGG
* * * ** * * *
1292779 TTGGAGTATCCCCGATTATGAGAAATTAATATTTGGGAAATAAAGCCAAGGTTGGAGTATTCCCT
1 TTGGAGTATCCCCG--TATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCCT
1292844 CGGAAATAACGGGG
64 CGGAAATAACGGGG
* * * *
1292858 CTGGAGTATCCCCG-ATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTGTTCCCTTG
1 TTGGAGTATCCCCGTATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTCG
*
1292922 GAAATAACAGGG
66 GAAATAACGGGG
1292934 TTGGAGTATCCCC
1 TTGGAGTATCCCC
1292947 AATTGTGAAA
Statistics
Matches: 332, Mismatches: 60, Indels: 17
0.81 0.15 0.04
Matches are distributed among these distances:
75 44 0.13
76 83 0.25
77 35 0.11
78 85 0.26
79 83 0.25
80 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.28
Consensus pattern (77 bp):
TTGGAGTATCCCCGTATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTCG
GAAATAACGGGG
Found at i:1292988 original size:155 final size:153
Alignment explanation
Indices: 1292470--1292997 Score: 643
Period size: 154 Copynumber: 3.4 Consensus size: 153
1292460 GGGTGGAGAA
* ** * **
1292470 TTGGAGTATCCCCGATTGTG-GAGAATTGGTGTTTTAGAAAT-AATCGGAGTTGGAGTATCCCCT
1 TTGGAGTATCCCCGATTATGAGA-AATTAATATTTGGGAAATAAATCGGAGTTGGAGTATCCCCT
* * * *
1292533 TGGAAATAATC-GGATTGGAGTATTCCCGATTTTAAAAAATTGATGTTTTAGAAATAAAACCAGG
65 CGGAAATAA-CGGGGTTGGAGTATCCCCGA---TGAAAAATTGATGTTTTAGAAATAAAACCAGG
* * *
1292597 GTTGGAGTATCCCCTCGAAAATAACGGG
126 GTTGGAGTGTCCCCTTGGAAATAACGGG
* * *
1292625 TTGGAGTATCCCCGATTATGAGAAATTAATATTTGGGAAATAAAGCCGGGGTTGCAGTATCCCCT
1 TTGGAGTATCCCCGATTATGAGAAATTAATATTTGGGAAATAAA-TCGGAGTTGGAGTATCCCCT
* * *
1292690 CGGAAATAACGAGGTTAGAGTATCCCTGATGAAAAATTGATGTTTTAGAAAT-AAACCAGGGTTG
65 CGGAAATAACGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTG
1292754 GAGTGTCCCCTTGGAAATAACGAGG
130 GAGTGTCCCCTTGGAAATAACG-GG
* ** *
1292779 TTGGAGTATCCCCGATTATGAGAAATTAATATTTGGGAAATAAAGCCAAGGTTGGAGTATTCCCT
1 TTGGAGTATCCCCGATTATGAGAAATTAATATTTGGGAAATAAATCGGA-GTTGGAGTATCCCCT
*
1292844 CGGAAATAACGGGGCTGGAGTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTG
65 CGGAAATAACGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTG
*
1292909 GAGTGTTCCCTTGGAAATAACAGGG
130 GAGTGTCCCCTTGGAAATAAC-GGG
* * * * * *
1292934 TTGGAGTATCCCCAATTGTGA-AAAGTCAGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
1 TTGGAGTATCCCCGATTATGAGAAA-TTAATATTTGGGAAAT-AAATCGGAGTTGGAGTATCCCC
1292998 GATTATGGAA
Statistics
Matches: 323, Mismatches: 40, Indels: 20
0.84 0.10 0.05
Matches are distributed among these distances:
153 32 0.10
154 132 0.41
155 110 0.34
156 11 0.03
157 38 0.12
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (153 bp):
TTGGAGTATCCCCGATTATGAGAAATTAATATTTGGGAAATAAATCGGAGTTGGAGTATCCCCTC
GGAAATAACGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGG
AGTGTCCCCTTGGAAATAACGGG
Found at i:1293061 original size:51 final size:50
Alignment explanation
Indices: 1292931--1293099 Score: 185
Period size: 51 Copynumber: 3.3 Consensus size: 50
1292921 GGAAATAACA
* * *
1292931 GGGTTGGAGTATCCCCAATTGTGAAAAGTCAGTGTTTTGGAAATAAAATCG
1 GGGTTGGAGTATCCCCGATTATGAAAAAT-AGTGTTTTGGAAATAAAATCG
* * * *
1292982 GAGTTGGAGTATCCCCGATTATGGAAAATGGTTGTTTTAGAAATAAAATCG
1 GGGTTGGAGTATCCCCGATTATGAAAAATAG-TGTTTTGGAAATAAAATCG
* * * * *
1293033 GGGTTGGAGTATCCCCGATTAAGAAAAATTGATGTCTTGGAAATGAAACCG
1 GGGTTGGAGTATCCCCGATTATGAAAAATAG-TGTTTTGGAAATAAAATCG
* *
1293084 GGATTGGAGCATCCCC
1 GGGTTGGAGTATCCCC
1293100 AAGATGAAAA
Statistics
Matches: 99, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
50 1 0.01
51 98 0.99
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (50 bp):
GGGTTGGAGTATCCCCGATTATGAAAAATAGTGTTTTGGAAATAAAATCG
Found at i:1295423 original size:20 final size:21
Alignment explanation
Indices: 1295398--1295439 Score: 77
Period size: 20 Copynumber: 2.0 Consensus size: 21
1295388 AAATGCCTGG
1295398 ATGTATCGATACAT-TGGGTA
1 ATGTATCGATACATCTGGGTA
1295418 ATGTATCGATACATCTGGGTA
1 ATGTATCGATACATCTGGGTA
1295439 A
1 A
1295440 AATTTTCAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATCTGGGTA
Found at i:1295467 original size:13 final size:13
Alignment explanation
Indices: 1295449--1295474 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1295439 AAATTTTCAG
1295449 ATGTATCGATACA
1 ATGTATCGATACA
1295462 ATGTATCGATACA
1 ATGTATCGATACA
1295475 TTTCCTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1295489 original size:21 final size:21
Alignment explanation
Indices: 1295463--1295502 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
1295453 ATCGATACAA
1295463 TGTATCGATACATTTCCTTAT
1 TGTATCGATACATTTCCTTAT
1295484 TGTATCGATACATTTCCTT
1 TGTATCGATACATTTCCTT
1295503 GACAGTATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.20, G:0.10, T:0.47
Consensus pattern (21 bp):
TGTATCGATACATTTCCTTAT
Found at i:1295561 original size:32 final size:32
Alignment explanation
Indices: 1295519--1295587 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
1295509 ATCTTCGTAG
*
1295519 CGATACATTGTATCGATATAGA-ACTTATGTAT
1 CGATACATTGTATCGATACA-ACACTTATGTAT
*
1295551 TGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
1295583 CGATA
1 CGATA
1295588 AATTTACTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 1 0.03
32 32 0.97
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:1296522 original size:62 final size:59
Alignment explanation
Indices: 1296432--1296775 Score: 429
Period size: 55 Copynumber: 5.8 Consensus size: 59
1296422 ATAAAGTGCA
* *
1296432 TCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCGTGTGGGGCTTTGAAAAGGAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGT-GGGCTTT--AAAGGAAAGGCG
1296494 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AA-G--AGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGGAAAGGCG
*
1296549 TCCTGCTCTTTGAGGACTGGAAAATGGCACCAACTTGTGTGGGCTTT-AA-G--AGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGGAAAGGCG
* *
1296604 TCCTACTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT-AAAGG-AAAGGCG
* * * *
1296665 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACCTGTGTGAGCTTTAAAAGAAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT-AAAG-GAAAGGCG
** *
1296727 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAGCTTGTGTGGGCTTTAAA
1 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAA
1296776 AGGCATCTGC
Statistics
Matches: 255, Mismatches: 18, Indels: 21
0.87 0.06 0.07
Matches are distributed among these distances:
55 103 0.40
57 3 0.01
58 3 0.01
59 3 0.01
60 20 0.08
61 36 0.14
62 83 0.33
63 4 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (59 bp):
TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAGGAAAGGCG
Found at i:1296635 original size:172 final size:173
Alignment explanation
Indices: 1296424--1296802 Score: 520
Period size: 172 Copynumber: 2.2 Consensus size: 173
1296414 AGAGGAAAAT
1296424 AAAGTGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGGCTTTGAAAAGG-A
1 AAAG-GCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGT-GGGCTTTG-AAAGGAA
* * *
1296488 AAGGCGTCCTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTGTGGGCTTT-AAG-AGGCGT
63 AAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACCTGTGTGAGCTTTAAAGAAGGCGT
*
1296550 CCTGCTCTTTGAGGACTGGAAAATGGCACCAACTTGTGTGGGCTTTA
128 CCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTA
* * * *
1296597 AGAGGCGTCCTACTCTTTGAGGACTGAAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAA
1 AAAGGCATCCTGCTCTTTGAGGACT-AAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGAAAA
1296661 GGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACCTGTGTGAGCTTTAAAAGAAAAAGGC
65 GGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACCTGTGTGAGCTTT-AAAG---AAGGC
** *
1296726 GTCCTGCTCTTTGAGGACTGAAGGTGCCACCAGCTTGTGTGGGCTTTA
126 GTCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTA
*
1296774 AAAGGCAT-CTGCTTTTTGAGGAC-AAAAAG
1 AAAGGCATCCTGCTCTTTGAGGACTAAAAAG
1296803 GCAAAAGGAG
Statistics
Matches: 181, Mismatches: 15, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
170 5 0.03
171 38 0.21
172 55 0.30
173 8 0.04
174 8 0.04
176 13 0.07
177 31 0.17
178 23 0.13
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (173 bp):
AAAGGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGAAAAG
GCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACCTGTGTGAGCTTTAAAGAAGGCGTCCT
GCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTA
Found at i:1303713 original size:51 final size:51
Alignment explanation
Indices: 1303654--1303764 Score: 186
Period size: 51 Copynumber: 2.2 Consensus size: 51
1303644 ATGGGGTTGG
*
1303654 AGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCCGGGCTTGA
1 AGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGCTTGA
* * *
1303705 AGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGG
1 AGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGCTTGA
1303756 AGTATCCCC
1 AGTATCCCC
1303765 TCAGAAATAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (51 bp):
AGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGCTTGA
Found at i:1303781 original size:28 final size:29
Alignment explanation
Indices: 1303747--1303820 Score: 125
Period size: 28 Copynumber: 2.6 Consensus size: 29
1303737 GAAATAAAGC
1303747 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCCTCATGAAATAA
*
1303775 CGGGGTTGGAGTAT-CCCTGATGAAATAA
1 CGGGGTTGGAGTATCCCCTCATGAAATAA
1303803 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
1303821 GATTGTGAGA
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
27 5 0.12
28 35 0.81
29 3 0.07
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.23
Consensus pattern (29 bp):
CGGGGTTGGAGTATCCCCTCATGAAATAA
Found at i:1303836 original size:107 final size:107
Alignment explanation
Indices: 1303696--1304011 Score: 415
Period size: 107 Copynumber: 3.0 Consensus size: 107
1303686 GAAATAAGGC
* *
1303696 CGGGCTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
*
1303761 CCCCTCAGAAATAACGGGGTTGGAGTATCCCTGATGAAATAA-
66 CCCCTC-GAAATAACGGGGTTGGAGTATCCCCGATGAAATAAT
1303803 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
*
1303868 -CCC-CGAAATAATGGGGTTGGAGTATCCCCGATGAAATAAT
66 CCCCTCGAAATAACGGGGTTGGAGTATCCCCGATGAAATAAT
* * *** * * *** *
1303908 CGGAGTTGGAGTATCCCTGATTGTG-GAGAATTGGTGTTTTAGAAATAAAATTGAGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTGTGAGA-AATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTA
* * *
1303972 TCCCCTTGGAAATAACGGGATTAGAGTATCCCCGATGAAA
65 TCCCC-TCGAAATAACGGGGTTGGAGTATCCCCGATGAAA
1304012 AATTGATGTT
Statistics
Matches: 185, Mismatches: 19, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
104 35 0.19
105 52 0.28
106 6 0.03
107 63 0.34
108 29 0.16
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (107 bp):
CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
CCCCTCGAAATAACGGGGTTGGAGTATCCCCGATGAAATAAT
Found at i:1303886 original size:25 final size:27
Alignment explanation
Indices: 1303854--1303924 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 27
1303844 GAAATAAAGC
1303854 CGGGGTTGGAGTATCCCC-GAAATAAT
1 CGGGGTTGGAGTATCCCCAGAAATAAT
1303880 -GGGGTTGGAGTATCCCCGATGAAATAAT
1 CGGGGTTGGAGTATCCCC-A-GAAATAAT
*
1303908 CGGAGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
1303925 TGATTGTGGA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
25 17 0.43
28 8 0.20
29 15 0.38
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCAGAAATAAT
Found at i:1303919 original size:29 final size:25
Alignment explanation
Indices: 1303858--1303924 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 25
1303848 TAAAGCCGGG
*
1303858 GTTGGAGTATCCCCGAAATAATGGG
1 GTTGGAGTATCCCCGAAATAATGGA
1303883 GTTGGAGTATCCCCGATGAAATAATCGGA
1 GTTGGAGTATCCCC---GAAATAAT-GGA
1303912 GTTGGAGTATCCC
1 GTTGGAGTATCCC
1303925 TGATTGTGGA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
25 14 0.38
28 8 0.22
29 15 0.41
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (25 bp):
GTTGGAGTATCCCCGAAATAATGGA
Found at i:1304041 original size:76 final size:76
Alignment explanation
Indices: 1303881--1304286 Score: 404
Period size: 76 Copynumber: 5.2 Consensus size: 76
1303871 CGAAATAATG
* * * * * *
1303881 GGGTTGGAGTATCCCCGAT-GAAATAATCGGAGTTGGAGTATCCCTGATTGTGGAGAATTGGTGT
1 GGGTTGGAGTATCCCC-TTGGAAATAA-CGGGGTTGGAGTATCCCCGA---TGAAAAATTGATGT
**
1303945 TTTAGAAATAAAA-TT
61 TTTAGAAATAAAACCA
* *
1303960 GAGGTTGGAGTATCCCCTTGGAAATAACGGGATTAGAGTATCCCCGATGAAAAATTGATGTTTTA
1 G-GGTTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTTA
1304025 GAAATAAAACCA
65 GAAATAAAACCA
* * * * * * *
1304037 AGGTTGGAGTGTCCCCTTGGAAATAACAGGGTTGGAGTATCCCCAATTATGAGAAATTAATATTT
1 GGGTTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCC---GATGAAAAATTGATGTTT
** * *
1304102 GGGAAATAAAGCCG
63 TAGAAATAAAACCA
* *
1304116 GGGTTGGAGTATCCCCTCGGAAATAACGGGGCTGGAGTATCCCCGATGAAAAATTGATGTTTTAG
1 GGGTTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTTAG
1304181 AAATAAAACCA
66 AAATAAAACCA
* * * * * *
1304192 GGGTTGGAGTGTCTCCTTGGAAATAACGGGGTTGGAGTATCCCTGATTGTGAAAAGTCAGTGTTT
1 GGGTTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCGA-TG-AAAAATTGA-TGTTT
*
1304257 TAGAAATAAAATC-
63 TAGAAATAAAACCA
1304270 GGAGTTGGAGTATCCCC
1 GG-GTTGGAGTATCCCC
1304287 GATTATCGAA
Statistics
Matches: 270, Mismatches: 47, Indels: 20
0.80 0.14 0.06
Matches are distributed among these distances:
76 128 0.47
77 2 0.01
78 8 0.03
79 110 0.41
80 22 0.08
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (76 bp):
GGGTTGGAGTATCCCCTTGGAAATAACGGGGTTGGAGTATCCCCGATGAAAAATTGATGTTTTAG
AAATAAAACCA
Found at i:1304263 original size:155 final size:154
Alignment explanation
Indices: 1303882--1304286 Score: 533
Period size: 155 Copynumber: 2.6 Consensus size: 154
1303872 GAAATAATGG
* * * * *
1303882 GGTTGGAGTATCCCCGAT-GAAATAATCGGAGTTGGAGTATCCCTGATTGTGGAGAATTGGTGTT
1 GGTTGGAGTGTCCCC-TTGGAAATAA-CGGGGTTGGAGTATCCCTGATTGT-GAAAATTAGTGTT
* * * *
1303946 TTAGAAATAAAATTGAGGTTGGAGTATCCCCTTGGAAATAACGGGATTAGAGTATCCCCGATGAA
63 TTAGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGACTAGAGTATCCCCGATGAA
1304011 AAATTGATGTTTTAGAAATAAAACCAA
128 AAATTGATGTTTTAGAAATAAAACCAA
* ** * * * *
1304038 GGTTGGAGTGTCCCCTTGGAAATAACAGGGTTGGAGTATCCCCAATTATGAGAAATTAATATTTG
1 GGTTGGAGTGTCCCCTTGGAAATAACGGGGTTGGAGTATCCCTGATTGTGA-AAATTAGTGTTTT
* ** * *
1304103 GGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGCTGGAGTATCCCCGATGAAAA
65 AGAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGACTAGAGTATCCCCGATGAAAA
*
1304168 ATTGATGTTTTAGAAATAAAACCAG
130 ATTGATGTTTTAGAAATAAAACCAA
* *
1304193 GGTTGGAGTGTCTCCTTGGAAATAACGGGGTTGGAGTATCCCTGATTGTGAAAAGTCAGTGTTTT
1 GGTTGGAGTGTCCCCTTGGAAATAACGGGGTTGGAGTATCCCTGATTGTGAAAA-TTAGTGTTTT
*
1304258 AGAAATAAAATCGGAGTTGGAGTATCCCC
65 AGAAATAAAATCGGGGTTGGAGTATCCCC
1304287 GATTATCGAA
Statistics
Matches: 211, Mismatches: 35, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
154 5 0.02
155 185 0.88
156 21 0.10
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (154 bp):
GGTTGGAGTGTCCCCTTGGAAATAACGGGGTTGGAGTATCCCTGATTGTGAAAATTAGTGTTTTA
GAAATAAAATCGGGGTTGGAGTATCCCCTCGGAAATAACGGGACTAGAGTATCCCCGATGAAAAA
TTGATGTTTTAGAAATAAAACCAA
Found at i:1304277 original size:51 final size:51
Alignment explanation
Indices: 1304222--1304342 Score: 181
Period size: 51 Copynumber: 2.4 Consensus size: 51
1304212 AAATAACGGG
* *
1304222 GTTGGAGTATCCCTGATTGT-GAAAAGTCAGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCTGATTATCGAAAA-TCAGTGTTTCAGAAATAAAATCGGA
* **
1304273 GTTGGAGTATCCCCGATTATCGAAAATGGGTGTTTCAGAAATAAAATCGGA
1 GTTGGAGTATCCCTGATTATCGAAAATCAGTGTTTCAGAAATAAAATCGGA
1304324 GTTGGAGTATCCCTGATTA
1 GTTGGAGTATCCCTGATTA
1304343 AGAAAAATTG
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
51 58 0.92
52 5 0.08
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCTGATTATCGAAAATCAGTGTTTCAGAAATAAAATCGGA
Found at i:1304365 original size:51 final size:50
Alignment explanation
Indices: 1304222--1304365 Score: 155
Period size: 51 Copynumber: 2.8 Consensus size: 50
1304212 AAATAACGGG
** * * *
1304222 GTTGGAGTATCCCTGATTGTGAAAAGTCAGTGTTTTAGAAATAAAATCGGA
1 GTTGGAGTATCCCTGATTAAGAAAATTGA-TGTCTTAGAAATAAAATCGGA
* * * *
1304273 GTTGGAGTATCCCCGATTATCGAAAATGGGTGT-TTCAGAAATAAAATCGGA
1 GTTGGAGTATCCCTGATTA-AGAAAATTGATGTCTT-AGAAATAAAATCGGA
*
1304324 GTTGGAGTATCCCTGATTAAGAAAAATTGATGTCTTGGAAAT
1 GTTGGAGTATCCCTGATTAAG-AAAATTGATGTCTTAGAAAT
1304366 GAAACCATGA
Statistics
Matches: 77, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
50 3 0.04
51 67 0.87
52 7 0.09
ACGTcount: A:0.33, C:0.11, G:0.25, T:0.31
Consensus pattern (50 bp):
GTTGGAGTATCCCTGATTAAGAAAATTGATGTCTTAGAAATAAAATCGGA
Found at i:1306724 original size:21 final size:20
Alignment explanation
Indices: 1306683--1306724 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
1306673 AAATGCCTGG
*
1306683 ATGTATCGATACATTGGGTA
1 ATGTATCGATACATCGGGTA
*
1306703 ATGTATTGATACATCCGGGTA
1 ATGTATCGATACAT-CGGGTA
1306724 A
1 A
1306725 AATTTTCAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATCGGGTA
Found at i:1306793 original size:21 final size:21
Alignment explanation
Indices: 1306767--1306808 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1306757 GTATCGATAC
*
1306767 AATGTATCGTTACATTTCCTT
1 AATGTATCGATACATTTCCTT
1306788 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
1306809 GGCAGTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.45
Consensus pattern (21 bp):
AATGTATCGATACATTTCCTT
Found at i:1306893 original size:19 final size:19
Alignment explanation
Indices: 1306832--1306893 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
1306822 TAGCGATACA
1306832 TTGTATCGATACAACACT-T
1 TTGTATCGATACAA-ACTGT
* *
1306851 ATGTATCGATACATTTACTGT
1 TTGTATCGATACA--AACTGT
*
1306872 TTGTATCGATACAAAATGT
1 TTGTATCGATACAAACTGT
1306891 TTG
1 TTG
1306894 AAATTCAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 19 0.54
20 3 0.09
21 13 0.37
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (19 bp):
TTGTATCGATACAAACTGT
Found at i:1309592 original size:69 final size:70
Alignment explanation
Indices: 1309517--1309649 Score: 214
Period size: 69 Copynumber: 1.9 Consensus size: 70
1309507 GTCCCCGATG
*
1309517 ATGATAATTTGGACAAAATAAGACTTAAATTTCGATGAG-GCTAAAAATGGGGTTGGAGTATCCT
1 ATGATAATTTGGACAAAATAAGACTTAAATTTCGATGAGTGCTAAAAATAGGGTTGGAGTATCCT
1309581 CGACA
66 CGACA
* * **
1309586 ATGATAATTTGGACAAAATAAGATTTAAATTTTGATGAGTTTTAAAAATAGGGTTGGAGTATCC
1 ATGATAATTTGGACAAAATAAGACTTAAATTTCGATGAGTGCTAAAAATAGGGTTGGAGTATCC
1309650 CCTCGGAGGA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 37 0.64
70 21 0.36
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (70 bp):
ATGATAATTTGGACAAAATAAGACTTAAATTTCGATGAGTGCTAAAAATAGGGTTGGAGTATCCT
CGACA
Found at i:1312648 original size:13 final size:13
Alignment explanation
Indices: 1312630--1312655 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1312620 CATTTTAGGA
1312630 TGTATCGATACAT
1 TGTATCGATACAT
1312643 TGTATCGATACAT
1 TGTATCGATACAT
1312656 CTTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1312652 original size:33 final size:32
Alignment explanation
Indices: 1312610--1312673 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
1312600 TACAAGCCAA
1312610 TGTATCGATACAT-TTTAGGATGTATCGATACAT
1 TGTATCGATACATCTTT-GG-TGTATCGATACAT
*
1312643 TGTATCGATACATCTTTTGTGTATCGATACA
1 TGTATCGATACATCTTTGGTGTATCGATACA
1312674 AACAGTTAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.41
33 14 0.48
34 3 0.10
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (32 bp):
TGTATCGATACATCTTTGGTGTATCGATACAT
Found at i:1317186 original size:13 final size:13
Alignment explanation
Indices: 1317168--1317193 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1317158 AATTTTTTTG
1317168 TGTATCGATACAT
1 TGTATCGATACAT
1317181 TGTATCGATACAT
1 TGTATCGATACAT
1317194 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1319295 original size:21 final size:20
Alignment explanation
Indices: 1319266--1319308 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
1319256 GACTAGTGTG
*
1319266 GGGACTGCCCGATTGCGACCT
1 GGGACTG-CCGATCGCGACCT
* *
1319287 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGATCGCGACCT
1319307 GG
1 GG
1319309 TGGTACTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.12, C:0.30, G:0.42, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGATCGCGACCT
Found at i:1319767 original size:13 final size:13
Alignment explanation
Indices: 1319749--1319787 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1319739 ATAATCCCCC
*
1319749 TGTATCGATACAG
1 TGTATCGATACAA
1319762 TGTATCGATACAA
1 TGTATCGATACAA
1319775 TGTATCGATACAA
1 TGTATCGATACAA
1319788 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1319798 original size:20 final size:20
Alignment explanation
Indices: 1319773--1319851 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
1319763 GTATCGATAC
1319773 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
**
1319793 AATGTATCGATACATTGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
1319818 AATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
1319838 CATGTATCGATACA
1 AATGTATCGATACA
1319852 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
20 31 0.63
25 18 0.37
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.27
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:1321877 original size:15 final size:15
Alignment explanation
Indices: 1321857--1321887 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1321847 ATTTCGTTTG
*
1321857 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1321872 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1321887 G
1 G
1321888 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1325957 original size:13 final size:13
Alignment explanation
Indices: 1325939--1325964 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1325929 AATTTTTTTG
1325939 TGTATCGATACAT
1 TGTATCGATACAT
1325952 TGTATCGATACAT
1 TGTATCGATACAT
1325965 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1331351 original size:19 final size:17
Alignment explanation
Indices: 1331325--1331420 Score: 82
Period size: 19 Copynumber: 5.8 Consensus size: 17
1331315 TTTCAACGAT
1331325 TTGTATCGATACATAAG
1 TTGTATCGATACATAAG
1331342 TGTCGTATCGATAC--AA-
1 T-T-GTATCGATACATAAG
1331358 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAA--G
1331376 TTGTATCGATAC--AA-
1 TTGTATCGATACATAAG
1331390 -TGTATCGATACATAAG
1 TTGTATCGATACATAAG
1331406 TTTTGTATCGATACA
1 --TTGTATCGATACA
1331421 ATTTAAGCTA
Statistics
Matches: 65, Mismatches: 0, Indels: 26
0.71 0.00 0.29
Matches are distributed among these distances:
13 21 0.32
14 1 0.02
15 4 0.06
17 5 0.08
18 1 0.02
19 33 0.51
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (17 bp):
TTGTATCGATACATAAG
Found at i:1331362 original size:32 final size:32
Alignment explanation
Indices: 1331326--1331422 Score: 176
Period size: 32 Copynumber: 3.0 Consensus size: 32
1331316 TTCAACGATT
*
1331326 TGTATCGATACATAAGTGTCGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1331358 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1331390 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1331422 T
1 T
1331423 TTAAGCTATT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 63 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1331364 original size:13 final size:13
Alignment explanation
Indices: 1331346--1331401 Score: 58
Period size: 13 Copynumber: 3.8 Consensus size: 13
1331336 CATAAGTGTC
1331346 GTATCGATACAAT
1 GTATCGATACAAT
1331359 GTATCGATACATAAGTGTT
1 GTATCGATAC--AA----T
1331378 GTATCGATACAAT
1 GTATCGATACAAT
1331391 GTATCGATACA
1 GTATCGATACA
1331402 TAAGTTTTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 22 0.59
15 2 0.05
17 2 0.05
19 11 0.30
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (13 bp):
GTATCGATACAAT
Found at i:1331482 original size:13 final size:13
Alignment explanation
Indices: 1331464--1331488 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1331454 ATTACTCAAA
1331464 TGTATCGATACAT
1 TGTATCGATACAT
1331477 TGTATCGATACA
1 TGTATCGATACA
1331489 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1334713 original size:13 final size:13
Alignment explanation
Indices: 1334695--1334720 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1334685 CATTTTGGGA
1334695 TGTATCGATACAT
1 TGTATCGATACAT
1334708 TGTATCGATACAT
1 TGTATCGATACAT
1334721 CTTGTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1334717 original size:33 final size:32
Alignment explanation
Indices: 1334675--1334738 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
1334665 TACAAGCCAA
*
1334675 TGTATCGATACATTTTGGGATGTATCGATACAT
1 TGTATCGATACATCTTGGG-TGTATCGATACAT
*
1334708 TGTATCGATACATCTTGTGTGTATCGATACA
1 TGTATCGATACATCTTGGGTGTATCGATACA
1334739 AAAAATTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATCTTGGGTGTATCGATACAT
Found at i:1334827 original size:20 final size:21
Alignment explanation
Indices: 1334780--1334830 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
1334770 ACCAATCACC
*
1334780 TGTATCGATACATTCTTTGCA
1 TGTATCGATACATTCTGTGCA
*
1334801 AGTATCGATACATT-TG-GTCA
1 TGTATCGATACATTCTGTG-CA
1334821 TGTATCGATA
1 TGTATCGATA
1334831 TTGTGCATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 1 0.04
20 12 0.46
21 13 0.50
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (21 bp):
TGTATCGATACATTCTGTGCA
Found at i:1334864 original size:20 final size:19
Alignment explanation
Indices: 1334841--1334879 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
1334831 TTGTGCATTC
1334841 TGTATCGATACATTTGAAGG
1 TGTATCGATACATTT-AAGG
1334861 TGTATCGATACATTTAAGG
1 TGTATCGATACATTTAAGG
1334880 GTTTTGACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATTTAAGG
Found at i:1340810 original size:24 final size:23
Alignment explanation
Indices: 1340766--1340810 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
1340756 ATTATTTTTA
* *
1340766 CTTGAAAAACATTTGATTTATTG
1 CTTGAAAAACATTTAACTTATTG
1340789 CTTGAAAAACATTTAAACTTAT
1 CTTGAAAAACATTT-AACTTAT
1340811 CTCTAAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (23 bp):
CTTGAAAAACATTTAACTTATTG
Found at i:1341678 original size:22 final size:20
Alignment explanation
Indices: 1341630--1341682 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
1341620 AAAAACCCAA
*
1341630 AATGTATCGATACAATGAAT
1 AATGTATCGATACAATGAAC
*
1341650 AATGTATCGATACAATTTAAGC
1 AATGTATCGATACAA-TGAA-C
1341672 AATGTATCGAT
1 AATGTATCGAT
1341683 GCACTCACTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 15 0.52
21 3 0.10
22 11 0.38
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACAATGAAC
Found at i:1349132 original size:42 final size:42
Alignment explanation
Indices: 1349076--1351800 Score: 666
Period size: 42 Copynumber: 64.5 Consensus size: 42
1349066 GACCATATGA
1349076 ACTTTCCTATCCCTCAGTCTGCCTATCGGCTTTGA-CTCTAGAG
1 ACTTTCCTA-CCCTCAGTCTGCCTATCGGCTTTGACCT-TAGAG
** * **
1349119 ACTTTTTTACCCTCAATCTGCCTATTAGCTTTGACCTTAGAG
1 ACTTTCCTACCCTCAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * * *
1349161 A-TTGCCT-CATCTAAAGTCTGCCTGTCGACTTTGACCTTAAAG
1 ACTTTCCTAC-CCT-CAGTCTGCCTATCGGCTTTGACCTTAGAG
* *
1349203 ACTTTCCTACCTTCAGTCTGCCTATCGGCTTTGACCCT-GAAG
1 ACTTTCCTACCCTCAGTCTGCCTATCGGCTTTGACCTTAG-AG
* ** * ** * * *
1349245 AC-TACCT-CATATAAAGTCTGTTTATCGGTTTTAACCTTGGAG
1 ACTTTCCTAC-CCT-CAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * * * * * *
1349287 ATTTTCCTACCCTTAGTATGCTTGTCAGCTTAGAGCTTGGAG
1 ACTTTCCTACCCTCAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * *
1349329 ACTTTCTTACCTTCAGTCTGCCTATCAGCTTTGACCCTGGAG
1 ACTTTCCTACCCTCAGTCTGCCTATCGGCTTTGACCTTAGAG
* *** * * * *
1349371 A-TTGCCTTGTCTAAAGTCTGCTTGTCGGCTTTGACCCTAGAG
1 ACTTTCCTACCCT-CAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * * * *
1349413 ACTTTCCTATCCTTTAGTCTACGTGTCGGCTTTGACCCTGGAG
1 ACTTTCCTA-CCCTCAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * * *
1349456 ACTAT-CT-CATCTAAAGTTTGCCTATCGACTTTGACCCTAGAG
1 ACTTTCCTAC-CCT-CAGTCTGCCTATCGGCTTTGACCTTAGAG
* *
1349498 ACTTTCCTACCCTTCAGTCTGCCT-GCTGGCTTTGACCTTGGAG
1 ACTTTCCTACCC-TCAGTCTGCCTATC-GGCTTTGACCTTAGAG
* * * * * *
1349541 GCTTTCTTACCCTCAGTCTACCTGTTGGCTTTGCCCTTAGAG
1 ACTTTCCTACCCTCAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * * ** *
1349583 AC-TACCT-CATCTAAAGTCTACCTGTCGATTTTGACCCT-GAAG
1 ACTTTCCTAC-CCT-CAGTCTGCCTATCGGCTTTGACCTTAG-AG
* * ** * *
1349625 ACTTTCTTACCATTCAGTCTGTTTGTTGGCTTTGACCTTAGAG
1 ACTTTCCTACC-CTCAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * * *
1349668 A-TTAT-CT-CATCTAAAGTCTACCTGTCAGCTTTGACCCTAGAG
1 ACTT-TCCTAC-CCT-CAGTCTGCCTATCGGCTTTGACCTTAGAG
* ** *
1349710 ACTTTCCTACCCTTCAGTTTGCCTATCGATTTTGACCCTAGAG
1 ACTTTCCTACCC-TCAGTCTGCCTATCGGCTTTGACCTTAGAG
** ** * *** * ** * *
1349753 AC-TGACT-CATTTGAAGTCTATTTGTTAGCTTTAACCCTAGAG
1 ACTTTCCTAC-CCT-CAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * * * * *
1349795 ACTTTCCTACCCTTACTCTACGTATTGACTTTGACCTTGGAA
1 ACTTTCCTACCCTCAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * *
1349837 ACTTTCTTACCCTTCAGTCTGCCTATCGACTTTGACCTTGGAA
1 ACTTTCCTACCC-TCAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * * *
1349880 AC-TACCT-CACCTAAAATCTGCTTGTCGCCTTTGACCTT-GTAG
1 ACTTTCCTAC-CCT-CAGTCTGCCTATCGGCTTTGACCTTAG-AG
* * * ** *
1349922 GCTTTCCTACCCTCAGTCTACCTGTTAGCTTTAACCCTT-GAG
1 ACTTTCCTACCCTCAGTCTGCCTATCGGCTTTGA-CCTTAGAG
* * * * * * *
1349964 A-TTGTCTTA-TCTAAAGTCTGCCTGTCAGCTTTGACTTTGGAG
1 ACTT-TCCTACCCT-CAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * * * *
1350006 ACTTTCTTATCCTTCAGTCTGTCTGTCGGCTTTAACCCTGGAG
1 ACTTTCCTA-CCCTCAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * * *
1350049 A-TTGCCT-CATCTAAAGTATGCCTGTCGGCTTTGACCTTGGAG
1 ACTTTCCTAC-CCT-CAGTCTGCCTATCGGCTTTGACCTTAGAG
* ** * *
1350091 ACTTTCCTGCCCTCAGT-T-TTTTTCCTGACTTTGACCTT-GAAG
1 ACTTTCCTACCCTCAGTCTGCCTAT-C-GGCTTTGACCTTAG-AG
** * * * ** *
1350133 ACCTTT-AAACCCTCTGTCTGCTTGTCAACTTTGACCCTAGAG
1 A-CTTTCCTACCCTCAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * * *
1350175 AC-TGCCT-CATCTAAAGTCTGCCTATTGACTTTGACCTTGGAG
1 ACTTTCCTAC-CCT-CAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * *
1350217 ACTTTCCTATCCTTTAGTCTGCCTGTCGGCTTTTACCCTAGAG
1 ACTTTCCTA-CCCTCAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * * *
1350260 ACTAT-CT-CATCTAAAGTCTACCTGTCGTCTTTGACCTTAGAG
1 ACTTTCCTAC-CCT-CAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * *
1350302 ACTTTCCTATCCTTCAGTCTGCCTGTCAGCTTTGACCTTGGGG
1 ACTTTCCTA-CCCTCAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * *
1350345 ACTAT-CT-CATCTAAAGTCTGCCTATCGGCTTTGACCGTGGAG
1 ACTTTCCTAC-CCT-CAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * *
1350387 ACTTTTCTACCTTGAGTCTGCCTGTCGGCTTTGACCTTAAAG
1 ACTTTCCTACCCTCAGTCTGCCTATCGGCTTTGACCTTAGAG
** * * * * * * *
1350429 ACTTTTTTACCTTTAATCTGCCTGTAGGCTTTGACCCTGGAG
1 ACTTTCCTACCCTCAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * * *
1350471 ACTGCTT-C-A-TCTAAAGTCTACTTATCGACTTTGA-CTCT-GCAA
1 ACT--TTCCTACCCT-CAGTCTGCCTATCGGCTTTGACCT-TAG-AG
* ** * * *
1350513 ACTTTTCTACCCAAAGTCTACCTATCAGCTTTGACC-CAGGAG
1 ACTTTCCTACCCTCAGTCTGCCTATCGGCTTTGACCTTA-GAG
* * * * * **
1350555 ACTTTTCTACCTTTTAGTCTACCTGTCGGCTTTGACCCCAGAG
1 ACTTTCCTACC-CTCAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * * *
1350598 AC-TGCCTTA-TCTAAAGTTTGCCTGCAAC--CTTTGACCTTAGAA
1 ACTTTCC-TACCCT-CAGTCTGCCT--ATCGGCTTTGACCTTAGAG
* * * * * * *
1350640 ACTTTCCTACCCTTTAGTCTGCCTGTAGACTATGACCCTAAAG
1 ACTTTCCTACCC-TCAGTCTGCCTATCGGCTTTGACCTTAGAG
* ** * * * * * * *
1350683 AC-TGCCTTA-TTTGAAGTCTGCCTGTTGGTTTTGACCCTATAA
1 ACTTTCC-TACCCT-CAGTCTGCCTATCGGCTTTGACCTTAGAG
* * *
1350725 ACTTTTCC-ACCCTCAGTCTGCCTGTCGACTTTGACCTTGGAG
1 AC-TTTCCTACCCTCAGTCTGCCTATCGGCTTTGACCTTAGAG
* *
1350767 ACTTTCCTACCCTTCAATGTGCCTATCGGCTTTGACCTTAGAG
1 ACTTTCCTACCC-TCAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * *
1350810 AC-TACCT-CACCTAAAGTCTGCCTGTCGGCTTTGACCTTGGATG
1 ACTTTCCTAC-CCT-CAGTCTGCCTATCGGCTTTGACCTTAGA-G
* * * * * *
1350853 -TTTTCCTACCTTCAGTCTGCTTATAGGCTTTGACCCTGGAG
1 ACTTTCCTACCCTCAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * ** * * * *
1350894 ACTATCTTA-TCTAAAGTCTGTTTGTCGGCTTTAACCCTAAAG
1 ACTTTCCTACCCT-CAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * * *
1350936 ACTTTCTTATCCTTAAGTCTGCTTGTCGGCTTTGACCCTAGAG
1 ACTTTCCTA-CCCTCAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * ** * *
1350979 ACTTTCTTA-TCTAAAGTCTGCTTGCCAGCTTTGACCTTGGAG
1 ACTTTCCTACCCT-CAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * *
1351021 ACTTTCCTATACTTCAGTCTACCTACCGGCTTTGACCTTGGAG
1 ACTTTCCTA-CCCTCAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * * *
1351064 AC-TACCT-CATCTAAATTCTACCTATCAGCTTTGACCTTAGAG
1 ACTTTCCTAC-CCT-CAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * *
1351106 ATTTTCCTACCCTTAGTCTACTTGTCGGCTTTGATCC-TAGAG
1 ACTTTCCTACCCTCAGTCTGCCTATCGGCTTTGA-CCTTAGAG
* * *
1351148 ACTTTTCTACCCTTAGTCTGCCTATCGGCTTTGACCCTAGAG
1 ACTTTCCTACCCTCAGTCTGCCTATCGGCTTTGACCTTAGAG
* * *
1351190 AC-TACCT-CATCTAAAGTCTGCCTATCGGCTTTGACCTTAGAG
1 ACTTTCCTAC-CCT-CAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * * *
1351232 ATTTTCCTATCCTTCAGTCTGTCTGTCGACTTTGACCCT-GAAG
1 ACTTTCCTA-CCCTCAGTCTGCCTATCGGCTTTGACCTTAG-AG
* * * * * *
1351275 ACTGT-CT-CATCTAAAGTCTACCTGTCGGCTTTGACCTTGGAG
1 ACTTTCCTAC-CCT-CAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * *
1351317 ACTTTCCTACCCTTCAGCCTGCCTGTCGGTTTTGACCTTGGAG
1 ACTTTCCTACCC-TCAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * * *
1351360 AC-TACCTTA-TCTAAATTCTGCCTATCAGCTTTGACCTTGGAG
1 ACTTTCC-TACCCT-CAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * * * * *
1351402 ACTTTCCAACCCTTAGTTTGCTTGTCTGCTTTGACCATGGAG
1 ACTTTCCTACCCTCAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * *
1351444 ACTTTTCTACCCTCAGTATGCTTGTCGGCTTTGACCCT-GAAG
1 ACTTTCCTACCCTCAGTCTGCCTATCGGCTTTGACCTTAG-AG
* * * * * * *
1351486 ATTTTTCTACCCTTCAGTCTACTTGTCGGCTTTAACCCTAGAG
1 ACTTTCCTACCC-TCAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * * *
1351529 AC-TACCATA-TCTAAAGTCTACCTATCGACTTTGACCCTAGAG
1 ACTTTCC-TACCCT-CAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * * * *
1351571 ACTTTCCTTCCTTCAGTCTACTTATCGGCTTTCACCCTAAAG
1 ACTTTCCTACCCTCAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * * *
1351613 AC-TACCTCATCTTCAGTCTGCTTGTCGGCTTTGACCTTGGAG
1 ACTTTCCT-ACCCTCAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * * * *
1351655 AC-TGCCT-CATCTAAAGTTTTCCTGTCGGCTTTGACCCTAGAG
1 ACTTTCCTAC-CCT-CAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * * * *
1351697 AC-TGCCT-CATCTAAAGTTTGCCTATCGGCTTTGACCTTGGAT
1 ACTTTCCTAC-CCT-CAGTCTGCCTATCGGCTTTGACCTTAGAG
* * * *
1351739 ACTTTTCTACCTTTCA-TCTGCTTGTCGGCTTTGA-CTCTAGAG
1 ACTTTCCTACC-CTCAGTCTGCCTATCGGCTTTGACCT-TAGAG
*
1351781 ACTTTTCCTACCCCCAGTCT
1 AC-TTTCCTACCCTCAGTCT
1351801 ACATGTTGCC
Statistics
Matches: 1975, Mismatches: 550, Indels: 314
0.70 0.19 0.11
Matches are distributed among these distances:
40 15 0.01
41 80 0.04
42 1277 0.65
43 561 0.28
44 39 0.02
45 3 0.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (42 bp):
ACTTTCCTACCCTCAGTCTGCCTATCGGCTTTGACCTTAGAG
Found at i:1349490 original size:127 final size:126
Alignment explanation
Indices: 1349091--1351699 Score: 836
Period size: 127 Copynumber: 20.6 Consensus size: 126
1349081 CCTATCCCTC
* * * * * * * **
1349091 AGTCTGCCTATCGGCTTTGACTCTAGAGACTTTTTTACCCTCAA-TCTGCCTATTAGCTTTGACC
1 AGTCTGCCTATCGACTTTGACCCTGGAGACTTTCTTA-CCTAAAGTCTGCTTGTCGGCTTTGACC
* * * ** * * * ** * **
1349155 TTAGAGA-TTGCCTCATCTAAAGTCTGCCTGTCGACTTTGACCTTAAAGACTTTC-CTACCTTC
65 CTAGAGACTTTCCT-ACCTTTAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTCTC-ATCTAA
* * ** * ** * * * * *
1349217 AGTCTGCCTATCGGCTTTGACCCTGAAGACTACCTCATATAAAGTCTGTTTATCGGTTTTAACCT
1 AGTCTGCCTATCGACTTTGACCCTGGAGACTTTCTTACCTAAAGTCTGCTTGTCGGCTTTGACCC
* * * * * * * * * * * * **
1349282 TGGAGATTTTCCTACCCTTAGTATGCTTGTCAGCTTAGAGCTTGGAGACTTTCTTACCTTC
66 TAGAGACTTTCCTACCTTTAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTCTCATCTAA
* **
1349343 AGTCTGCCTATC-AGCTTTGACCCTGGAGA-TTGCCTTGTCTAAAGTCTGCTTGTCGGCTTTGAC
1 AGTCTGCCTATCGA-CTTTGACCCTGGAGACTT-TCTTACCTAAAGTCTGCTTGTCGGCTTTGAC
* *
1349406 CCTAGAGACTTTCCTATCCTTTAGTCTACGTGTCGGCTTTGACCCTGGAGACTATCTCATCTAA
64 CCTAGAGACTTTCCTA-CCTTTAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTCTCATCTAA
* * * ** *
1349470 AGTTTGCCTATCGACTTTGACCCTAGAGACTTTCCTACCCTTCAGTCTGCCTG-CTGGCTTTGAC
1 AGTCTGCCTATCGACTTTGACCCTGGAGACTTTCTTA-CCTAAAGTCTGCTTGTC-GGCTTTGAC
* * * * * * * * **
1349534 CTTGGAGGCTTTCTTACCCTCAGTCTACCTGTTGGCTTTG-CCCTTAGAGACTACCTCATCTAA
64 CCTAGAGACTTTCCTACCTTTAGTCTACCTGTCGGCTTTGACCC-TGGAGACTTTCTCATCTAA
* * * * ** * *
1349597 AGTCTACCTGTCGATTTTGACCCTGAAGACTTTCTTACCATTCAGTCTGTTTGTTGGCTTTGACC
1 AGTCTGCCTATCGACTTTGACCCTGGAGACTTTCTTACC-TAAAGTCTGCTTGTCGGCTTTGACC
* * ** * * * *
1349662 TTAGAGA-TTAT-CTCATCTAAAGTCTACCTGTCAGCTTTGACCCTAGAGACTTTC-CTACCCTT
65 CTAGAGACTT-TCCT-ACCTTTAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTCTC-A-TCTA
*
1349724 C
126 A
* * * ** * ** * ** ** *
1349725 AGTTTGCCTATCGATTTTGACCCTAGAGACTGACTCATTTGAAGTCTATTTGTTAGCTTTAACCC
1 AGTCTGCCTATCGACTTTGACCCTGGAGACTTTCTTACCTAAAGTCTGCTTGTCGGCTTTGACCC
* * * * * * * * * * **
1349790 TAGAGACTTTCCTACCCTTACTCTACGTATTGACTTTGACCTTGGAAACTTTCTTACCCTTC
66 TAGAGACTTTCCTACCTTTAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTCTCA-TCTAA
* * ** * * *
1349852 AGTCTGCCTATCGACTTTGACCTTGGAAACTACCTCACCTAAAATCTGCTTGTCGCCTTTGA-CC
1 AGTCTGCCTATCGACTTTGACCCTGGAGACTTTCTTACCTAAAGTCTGCTTGTCGGCTTTGACCC
* * * * ** * * *
1349916 TTGTAGGCTTTCCTACCCTCAGTCTACCTGTTAGCTTTAACCCTTGAGA-TTGTCTTATCTAA
66 TAG-AGACTTTCCTACCTTTAGTCTACCTGTCGGCTTTGACCCTGGAGACTT-TCTCATCTAA
* ** ** *
1349978 AGTCTGCCTGTC-AGCTTTGACTTTGGAGACTTTCTTATCCTTCAGTCTG-TCTGTCGGCTTTAA
1 AGTCTGCCTATCGA-CTTTGACCCTGGAGACTTTCTTA-CCTAAAGTCTGCT-TGTCGGCTTTGA
* * * ** * * * *
1350041 CCCTGGAGA-TTGCCTCATCTAAAGTATGCCTGTCGGCTTTGACCTTGGAGACTTTCCTGC-CCT
63 CCCTAGAGACTTTCCT-ACCTTTAGTCTACCTGTCGGCTTTGACCCTGGAGACTTT-CT-CATCT
*
1350104 -C
125 AA
** * * * ** ** **
1350105 AGT-T-TTTTTCCTGACTTTGACCTTGAAGACCTTT-AAACCCT-CTGTCTGCTTGTCAACTTTG
1 AGTCTGCCTAT-C-GACTTTGACCCTGGAGA-CTTTCTTA-CCTAAAGTCTGCTTGTCGGCTTTG
* * ** * * * * *
1350166 ACCCTAGAGAC-TGCCTCATCTAAAGTCTGCCTATTGACTTTGACCTTGGAGACTTTC-CTATCC
62 ACCCTAGAGACTTTCCT-ACCTTTAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTCTC-AT-C
**
1350229 TTT
124 TAA
* * * * * * * * * * *
1350232 AGTCTGCCTGTCGGCTTTTACCCTAGAGACTATCTCATCTAAAGTCTACCTGTCGTCTTTGACCT
1 AGTCTGCCTATCGACTTTGACCCTGGAGACTTTCTTACCTAAAGTCTGCTTGTCGGCTTTGACCC
* * * * * *
1350297 TAGAGACTTTCCTATCCTTCAGTCTGCCTGTCAGCTTTGACCTTGGGGACTATCTCATCTAA
66 TAGAGACTTTCCTA-CCTTTAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTCTCATCTAA
* * ** *
1350359 AGTCTGCCTATCGGCTTTGACCGTGGAGACTTT-TCTACCTTGAGTCTGCCTGTCGGCTTTGACC
1 AGTCTGCCTATCGACTTTGACCCTGGAGACTTTCT-TACCTAAAGTCTGCTTGTCGGCTTTGACC
* * ** * * * *
1350423 TTAAAGACTTTTTTACCTTTAATCTGCCTGTAGGCTTTGACCCTGGAGAC-TGCTTCATCTAA
65 CTAGAGACTTTCCTACCTTTAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTC-TCATCTAA
* * * * * * * * * *
1350485 AGTCTACTTATCGACTTTGACTCTGCAAACTTT-TCTACCCAAAGTCTACCTATCAGCTTTGACC
1 AGTCTGCCTATCGACTTTGACCCTGGAGACTTTCT-TACCTAAAGTCTGCTTGTCGGCTTTGACC
* ** ** *
1350549 C-AGGAGACTTTTCTACCTTTTAGTCTACCTGTCGGCTTTGACCCCAGAGACTGCCTTATCTAA
65 CTA-GAGACTTTCCTACC-TTTAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTCTCATCTAA
* * * * * * * ** * * * *
1350612 AGTTTGCCT-GCAACCTTTGACCTTAGAAACTTTCCTACCCTTTAGTCTGCCTGTAGACTATGAC
1 AGTCTGCCTATCGA-CTTTGACCCTGGAGACTTTCTTA-CCTAAAGTCTGCTTGTCGGCTTTGAC
* * * * * ** * *
1350676 CCTAAAGAC-TGCCTTA--TTTGAAGTCTGCCTGTTGGTTTTGACCCTATAAACTTT-TCCACCC
64 CCTAGAGACTTTCC-TACCTTT--AGTCTACCTGTCGGCTTTGACCCTGGAGACTTTCT-CA-TC
*
1350737 T-C
124 TAA
* * * * * * *
1350739 AGTCTGCCTGTCGACTTTGACCTTGGAGACTTTCCTACCCTTCAA-TGTGCCTATCGGCTTTGAC
1 AGTCTGCCTATCGACTTTGACCCTGGAGACTTTCTTA-CC-TAAAGTCTGCTTGTCGGCTTTGAC
* * ** * * * * *
1350803 CTTAGAGAC-TACCTCACCTAAAGTCTGCCTGTCGGCTTTGACCTTGGATG-TTTTC-CTACCTT
64 CCTAGAGACTTTCCT-ACCTTTAGTCTACCTGTCGGCTTTGACCCTGGA-GACTTTCTC-ATCTA
*
1350865 C
126 A
* * * * * * *
1350866 AGTCTGCTTATAGGCTTTGACCCTGGAGACTATCTTATCTAAAGTCTGTTTGTCGGCTTTAACCC
1 AGTCTGCCTATCGACTTTGACCCTGGAGACTTTCTTACCTAAAGTCTGCTTGTCGGCTTTGACCC
* * * * * * *
1350931 TAAAGACTTTCTTATCCTTAAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTTCTTATCTAA
66 TAGAGACTTTCCTA-CCTTTAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTCTCATCTAA
* * ** * * **
1350993 AGTCTG-CT-TGCCAGCTTTGACCTTGGAGACTTTCCTATA-CTTCAGTCTACCTACCGGCTTTG
1 AGTCTGCCTAT-CGA-CTTTGACCCTGGAGACTTT-CT-TACCTAAAGTCTGCTTGTCGGCTTTG
* * * * ** * * * * * * *
1351055 ACCTTGGAGAC-TACCTCATCTAAATTCTACCTATCAGCTTTGACCTTAGAGATTTTC-CTACCC
62 ACCCTAGAGACTTTCCT-ACCTTTAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTCTC-A-TC
*
1351118 T-T
124 TAA
* * * * * * * * *
1351120 AGTCTACTTGTCGGCTTTGATCCTAGAGACTTT-TCTACCCT-TAGTCTGCCTATCGGCTTTGAC
1 AGTCTGCCTATCGACTTTGACCCTGGAGACTTTCT-TA-CCTAAAGTCTGCTTGTCGGCTTTGAC
* * ** * * * * * *
1351183 CCTAGAGAC-TACCTCATCTAAAGTCTGCCTATCGGCTTTGACCTTAGAGATTTTC-CTATCCTT
64 CCTAGAGACTTTCCT-ACCTTTAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTCTC-AT-CTA
*
1351246 C
126 A
* * * * * * * * *
1351247 AGTCTGTCTGTCGACTTTGACCCTGAAGACTGTCTCATCTAAAGTCTACCTGTCGGCTTTGACCT
1 AGTCTGCCTATCGACTTTGACCCTGGAGACTTTCTTACCTAAAGTCTGCTTGTCGGCTTTGACCC
* * * * * * ** *
1351312 TGGAGACTTTCCTACCCTTCAGCCTGCCTGTCGGTTTTGACCTTGGAGACTACCTTATCTAA
66 TAGAGACTTTCCTA-CCTTTAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTCTCATCTAA
* * ** * * *
1351374 ATTCTGCCTATC-AGCTTTGACCTTGGAGACTTTCCAACCCT-TAGTTTGCTTGTCTGCTTTGAC
1 AGTCTGCCTATCGA-CTTTGACCCTGGAGACTTTCTTA-CCTAAAGTCTGCTTGTCGGCTTTGAC
* * * * * * * * * * * **
1351437 CATGGAGACTTTTCTACCCTCAGTATGCTTGTCGGCTTTGACCCTGAAGA-TTTTTCTACCCTTC
64 CCTAGAGACTTTCCTACCTTTAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTCTC-A-TCTAA
* * * * * * ** * * * * * *
1351501 AGTCTACTTGTCGGCTTTAACCCTAGAGACTACCATATCTAAAGTCTACCTATCGACTTTGACCC
1 AGTCTGCCTATCGACTTTGACCCTGGAGACTTTCTTACCTAAAGTCTGCTTGTCGGCTTTGACCC
* * * * * ** ** **
1351566 TAGAGACTTTCCTTCCTTCAGTCTACTTATCGGCTTTCACCCTAAAGACTACCTCATCTTC
66 TAGAGACTTTCCTACCTTTAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTCTCATCTAA
* * * * ** * * * * *
1351627 AGTCTGCTTGTCGGCTTTGACCTTGGAGACTGCCTCATCTAAAGTTTTCCTGTCGGCTTTGACCC
1 AGTCTGCCTATCGACTTTGACCCTGGAGACTTTCTTACCTAAAGTCTGCTTGTCGGCTTTGACCC
1351692 TAGAGACT
66 TAGAGACT
1351700 GCCTCATCTA
Statistics
Matches: 1859, Mismatches: 523, Indels: 202
0.72 0.20 0.08
Matches are distributed among these distances:
123 1 0.00
125 22 0.01
126 579 0.31
127 1020 0.55
128 229 0.12
129 8 0.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (126 bp):
AGTCTGCCTATCGACTTTGACCCTGGAGACTTTCTTACCTAAAGTCTGCTTGTCGGCTTTGACCC
TAGAGACTTTCCTACCTTTAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTCTCATCTAA
Found at i:1350576 original size:296 final size:295
Alignment explanation
Indices: 1349342--1351589 Score: 1026
Period size: 296 Copynumber: 7.6 Consensus size: 295
1349332 TTCTTACCTT
* * * ** ** * *
1349342 CAGTCTGCCTATCAGCTTTGACCCTGGAGATTGCCTTGTCTAAAGTCTGCTTGTCGGCTTTGACC
1 CAGTCTACCTGTCAGCTTTGACCC-AGAGATTATCTCATCTAAAGTCTACCTGTC-GCTTTGACC
* * *
1349407 CTAGAGACTTTCCTATCCTTTAGTCTACGTGTCGGCTTTGACCCTGGAGACTATCTCATCTAAAG
64 CTAGAGACTTTCCTATCCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTATCTCATCTAAAG
* * *
1349472 TTTGCCTATCGACTTTGACCCTAGAGACTTTCCTACCCTTCAGTCTGCCTG-CTGGCTTTGACCT
129 TCTGCCTATCGGCTTTGACCCTAGAGACTTTCCTACCCTTCAGTCTGCCTGTCTGACTTTGACCT
* * * * *
1349536 TGGAGGCTTTCTTACCC-TCAGTCTACCTGTTGGCTTTG-CCCTTAGAGACTACCTCATCTAAAG
194 TGAAGACTTTCTTACCCTTCAGTCTGCCTGTAGACTTTGACCC-TAGAGACTACCTCATCTAAAG
* * * *
1349599 TCTACCTGTCGATTTTGACCCTGAAGACTTTCTTA-CCA
258 TCTACCTATCGACTTTGACCTTGAA-ACTTTCCTACCCA
*** ** *
1349637 TTCAGTCTGTTTGTTGGCTTTGACCTTAGAGATTATCTCATCTAAAGTCTACCTGTCAGCTTTGA
1 --CAGTCTACCTGTCAGCTTTGACC-CAGAGATTATCTCATCTAAAGTCTACCTGTC-GCTTTGA
* * * ** * * *
1349702 CCCTAGAGACTTTCCTACCCTTCAGTTTGCCTATCGATTTTGACCCTAGAGACTGA-CTCATTTG
62 CCCTAGAGACTTTCCTATCCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACT-ATCTCATCTA
*** * ** * * * * *
1349766 AAGTCTATTTGTTAGCTTTAACCCTAGAGACTTTCCTACCCTT-ACTCTACGTAT-TGACTTTGA
126 AAGTCTGCCTATCGGCTTTGACCCTAGAGACTTTCCTACCCTTCAGTCTGCCTGTCTGACTTTGA
* * * * * *
1349829 CCTTGGAA-ACTTTCTTACCCTTCAGTCTGCCTATCGACTTTGACCTTGGAAACTACCTCACCTA
191 CCTT-GAAGACTTTCTTACCCTTCAGTCTGCCTGTAGACTTTGACCCTAGAGACTACCTCATCTA
* * * * * ** *
1349893 AAATCTGCTTGTCGCCTTTGACCTTGTAGGCTTTCCTACCCT
255 AAGTCTACCTATCGACTTTGACCTTG-AAACTTTCCTACCCA
* * * * * * *
1349935 CAGTCTACCTGTTAGCTTTAACCCTTGAGATTGTCTTATCTAAAGTCTGCCTGTCAGCTTTGACT
1 CAGTCTACCTGTCAGCTTTGACCC-AGAGATTATCTCATCTAAAGTCTACCTGTC-GCTTTGACC
* * * * * * **
1350000 TTGGAGACTTTCTTATCCTTCAGTCTGTCTGTCGGCTTTAACCCTGGAGATTGCCTCATCTAAAG
64 CTAGAGACTTTCCTATCCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTATCTCATCTAAAG
* * * * * ** *
1350065 TATGCCTGTCGGCTTTGACCTTGGAGACTTTCCTGCCC-TCAGT-T-TTTTTCCTGACTTTGACC
129 TCTGCCTATCGGCTTTGACCCTAGAGACTTTCCTACCCTTCAGTCTGCCTGT-CTGACTTTGACC
** * * *
1350127 TTGAAGACCTTT-AAACCC-TCTGTCTGCTTGTCA-ACTTTGACCCTAGAGACTGCCTCATCTAA
193 TTGAAGA-CTTTCTTACCCTTCAGTCTGCCTGT-AGACTTTGACCCTAGAGACTACCTCATCTAA
* * * **
1350189 AGTCTGCCTATTGACTTTGACCTTGGAGACTTTCCTATCCTT
256 AGTCTACCTATCGACTTTGACCTT-GAAACTTTCCTA-CCCA
* * * * *
1350231 TAGTCTGCCTGTCGGCTTTTACCCTAGAGACTATCTCATCTAAAGTCTACCTGTCGTCTTTGACC
1 CAGTCTACCTGTCAGCTTTGACCC-AGAGATTATCTCATCTAAAGTCTACCTGTCG-CTTTGACC
* * * *
1350296 TTAGAGACTTTCCTATCCTTCAGTCTGCCTGTCAGCTTTGACCTTGGGGACTATCTCATCTAAAG
64 CTAGAGACTTTCCTATCCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTATCTCATCTAAAG
* * * * *
1350361 TCTGCCTATCGGCTTTGACCGTGGAGACTTTTCTA-CCTTGAGTCTGCCTGTC-GGCTTTGACCT
129 TCTGCCTATCGGCTTTGACCCTAGAGACTTTCCTACCCTTCAGTCTGCCTGTCTGACTTTGACCT
* * * * * * * *
1350424 TAAAGACTTTTTTA-CCTTTAATCTGCCTGTAGGCTTTGACCCTGGAGACTGCTTCATCTAAAGT
194 TGAAGACTTTCTTACCCTTCAGTCTGCCTGTAGACTTTGACCCTAGAGACTACCTCATCTAAAGT
* *
1350488 CTACTTATCGACTTTGA-CTCTGCAAACTTTTCTACCCA
259 CTACCTATCGACTTTGACCT-TG-AAACTTTCCTACCCA
* * * * **
1350526 AAGTCTACCTATCAGCTTTGACCCAGGAGACTTTTCT-ACCTTTTAGTCTACCTGTCGGCTTTGA
1 CAGTCTACCTGTCAGCTTTGACCCA-GAGA-TTATCTCATC-TAAAGTCTACCTGTC-GCTTTGA
* * ** * ** * * * * *
1350590 CCCCAGAGAC-TGCCTTAT-CTAAAGTTTGCCTG-CAACCTTTGACCTTAGAAACTTTC-CTACC
62 CCCTAGAGACTTTCC-TATCCTTCAGTCTGCCTGTC-GGCTTTGACCCTGGAGACTATCTC-A-T
** * * * * * * * * **
1350651 CTTTAGTCTGCCTGTAGACTATGACCCTAAAGAC-TGCCTTA--TTTGAAGTCTGCCTGT-TGGT
123 CTAAAGTCTGCCTATCGGCTTTGACCCTAGAGACTTTCC-TACCCTT-CAGTCTGCCTGTCTGAC
* * * * *
1350712 TTTGACCCTAT-AA-ACTTT-TCCACCC-TCAGTCTGCCTGTCGACTTTGACCTTGGAGACTTTC
186 TTTGA-CCT-TGAAGACTTTCT-TACCCTTCAGTCTGCCTGTAGACTTTGACCCTAGAGAC-TAC
* * * * * * * *
1350773 CT-ACCCTTCAA-TGTGCCTATCGGCTTTGACCTTAGAGAC-TACCTCACCTA
247 CTCA-TC-TAAAGTCTACCTATCGACTTTGACCTT-GAAACTTTCCT-ACCCA
* * * ** * * ** * * * *
1350823 AAGTCTGCCTGTCGGCTTTGACCTTG-GATGT-TTTCCTACCTTCAGTCTGCTTATAGGCTTTGA
1 CAGTCTACCTGTCAGCTTTGACCCAGAGAT-TATCT-C-ATCTAAAGTCTACCTGT-CGCTTTGA
* * * ** ** * ** * * *
1350886 CCCTGGAGACTATCTTAT-CTAAAGTCTGTTTGTCGGCTTTAACCCTAAAGACTTTCTTATCCTT
62 CCCTAGAGACTTTCCTATCCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTATCTCAT-CTA
* * * * ** * * *
1350950 AAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTTCTTA-TCTAAAGTCTGCTTGCCAG-CTTTGA
126 AAGTCTGCCTATCGGCTTTGACCCTAGAGACTTTCCTACCCTTCAGTCTGCCTGTCTGACTTTGA
* * ** * *** * * *
1351013 CCTTGGAGACTTTCCTATACTTCAGTCTACCTACCGGCTTTGACCTTGGAGACTACCTCATCTAA
191 CCTTGAAGACTTTCTTACCCTTCAGTCTGCCTGTAGACTTTGACCCTAGAGACTACCTCATCTAA
* * * *
1351078 ATTCTACCTATC-AGCTTTGACCTTAGAGATTTTCCTACCCT
256 AGTCTACCTATCGA-CTTTGACCTT-GAAACTTTCCTACCCA
* * * * * * * * *
1351119 TAGTCTACTTGTCGGCTTTGATCCTAGAGACTTTTCT-ACCCT-TAGTCTGCCTATCGGCTTTGA
1 CAGTCTACCTGTCAGCTTTGA-CCCAGAGA-TTATCTCA-TCTAAAGTCTACCTGTC-GCTTTGA
* ** * * * * *
1351182 CCCTAGAGAC-TACCTCAT-CTAAAGTCTGCCTATCGGCTTTGACCTTAGAGATTTTC-CTATCC
62 CCCTAGAGACTTTCCT-ATCCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTATCTC-AT-C
** * * * * * ** * *
1351244 TTCAGTCTGTCTGTCGACTTTGACCCT-GAAGACTGT-CT-CATCTAAAGTCTACCTGTC-GGCT
124 TAAAGTCTGCCTATCGGCTTTGACCCTAG-AGACTTTCCTAC-CCTTCAGTCTGCCTGTCTGACT
* * * * ** * * *
1351305 TTGACCTTGGAGACTTTCCTACCCTTCAGCCTGCCTGTCGGTTTTGACCTTGGAGACTACCTTAT
187 TTGACCTTGAAGACTTTCTTACCCTTCAGTCTGCCTGTAGACTTTGACCCTAGAGACTACCTCAT
* * * * *
1351370 CTAAATTCTGCCTATC-AGCTTTGACCTTGGAGACTTTCCAACCCT
252 CTAAAGTCTACCTATCGA-CTTTGACCTT-GAAACTTTCCTACCCA
* * * * * * * * * * *
1351415 TAGTTTGCTTGTCTGCTTTGA-CCATGGAGACTTTTCT-ACCCT-CAGTATGCTTGTCGGCTTTG
1 CAGTCTACCTGTCAGCTTTGACCCA--GAGA-TTATCTCA-TCTAAAGTCTACCTGTC-GCTTTG
* * * * * * * *
1351477 ACCCT-GAAGATTTTTCTACCCTTCAGTCTACTTGTCGGCTTTAACCCTAGAGACTACCAT-ATC
61 ACCCTAG-AGACTTTCCTATCCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTATC-TCATC
* * *
1351540 TAAAGTCTACCTATCGACTTTGACCCTAGAGACTTTCCT-TCCTTCAGTCT
124 TAAAGTCTGCCTATCGGCTTTGACCCTAGAGACTTTCCTACCCTTCAGTCT
1351590 ACTTATCGGC
Statistics
Matches: 1510, Mismatches: 352, Indels: 179
0.74 0.17 0.09
Matches are distributed among these distances:
294 11 0.01
295 161 0.11
296 978 0.65
297 339 0.22
298 18 0.01
299 3 0.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (295 bp):
CAGTCTACCTGTCAGCTTTGACCCAGAGATTATCTCATCTAAAGTCTACCTGTCGCTTTGACCCT
AGAGACTTTCCTATCCTTCAGTCTGCCTGTCGGCTTTGACCCTGGAGACTATCTCATCTAAAGTC
TGCCTATCGGCTTTGACCCTAGAGACTTTCCTACCCTTCAGTCTGCCTGTCTGACTTTGACCTTG
AAGACTTTCTTACCCTTCAGTCTGCCTGTAGACTTTGACCCTAGAGACTACCTCATCTAAAGTCT
ACCTATCGACTTTGACCTTGAAACTTTCCTACCCA
Found at i:1350940 original size:169 final size:170
Alignment explanation
Indices: 1350765--1351150 Score: 402
Period size: 169 Copynumber: 2.3 Consensus size: 170
1350755 TTGACCTTGG
* *
1350765 AGACTTTCCTACCCTTCAA-TGTGCCTATCGGCTTTGACCTTAGAGACTACCTCACCTAAAGTCT
1 AGACTTTCCTACCCTT-AAGTCTGCCTATCGGCTTTGACCCTAGAGACTACCTCACCTAAAGTCT
* * * * * * *
1350829 GCCTGTCGGCTTTGACCTTGGATG-TTTTCCTA-CCTTCAGTCTGCTTATAGGCTTTGACCCTGG
65 GCCTGCCAGCTTTGACCTTGGA-GACTTTCCTATACTTCAGTCTACCTACAGGCTTTGACCCTGG
* *
1350892 AGACTATCTTATCTAAAGTCTGTTTGTCGGCTTTAACCCTAA
129 AGACTACCTCATCTAAAGTCTGTTTGTCGGCTTTAACCCTAA
* * * * ** * *
1350934 AGACTTTCTTATCCTTAAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTTCTTATCTAAAGTCTG
1 AGACTTTCCTACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAGACTACCTCACCTAAAGTCTG
* * *
1350999 CTTGCCAGCTTTGACCTTGGAGACTTTCCTATACTTCAGTCTACCTACCGGCTTTGACCTTGGAG
66 CCTGCCAGCTTTGACCTTGGAGACTTTCCTATACTTCAGTCTACCTACAGGCTTTGACCCTGGAG
* *** * * * * *
1351064 ACTACCTCATCTAAATTCTACCTATCAGCTTTGACCTTAG
131 ACTACCTCATCTAAAGTCTGTTTGTCGGCTTTAACCCTAA
* * * * *
1351104 AGATTTTCCTACCCTT-AGTCTACTTGTCGGCTTTGATCCTAGAGACT
1 AGACTTTCCTACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAGACT
1351151 TTTCTACCCT
Statistics
Matches: 178, Mismatches: 36, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
168 3 0.02
169 106 0.60
170 69 0.39
ACGTcount: A:0.20, C:0.27, G:0.17, T:0.36
Consensus pattern (170 bp):
AGACTTTCCTACCCTTAAGTCTGCCTATCGGCTTTGACCCTAGAGACTACCTCACCTAAAGTCTG
CCTGCCAGCTTTGACCTTGGAGACTTTCCTATACTTCAGTCTACCTACAGGCTTTGACCCTGGAG
ACTACCTCATCTAAAGTCTGTTTGTCGGCTTTAACCCTAA
Found at i:1351782 original size:84 final size:85
Alignment explanation
Indices: 1349091--1351783 Score: 1000
Period size: 85 Copynumber: 31.9 Consensus size: 85
1349081 CCTATCCCTC
* ** * * * **
1349091 AGTCTGCCTATCGGCTTTGA-CTCTAGAGACTTTTTTACCC-TCAATCTGCCTATTAGCTTTGAC
1 AGTCTGCCTATCGGCTTTGACCT-TGGAGACTTTCCTACCCTTCAGTCTGCTTGTCGGCTTTGAC
* * *
1349154 CTTAGAGATTGCCTCATCTAA
65 CCTAGAGACTACCTCATCTAA
* * ** * *
1349175 AGTCTGCCTGTCGACTTTGACCTTAAAGACTTTCCTA-CCTTCAGTCTGCCTATCGGCTTTGACC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCCTACCCTTCAGTCTGCTTGTCGGCTTTGACC
*
1349239 CT-GAAGACTACCTCATATAA
66 CTAG-AGACTACCTCATCTAA
** * * * * * * *
1349259 AGTCTGTTTATCGGTTTTAACCTTGGAGATTTTCCTACCCTT-AGTATGCTTGTCAGCTTAGAGC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCCTACCCTTCAGTCTGCTTGTCGGCTTTGACC
* * ** * * **
1349323 TTGGAGACTTTCTTACCTTC
66 CTAGAGACTACCTCATCTAA
* * * *** **
1349343 AGTCTGCCTATCAGCTTTGACCCTGGAGA-TTGCCTTGTCTAAAGTCTGCTTGTCGGCTTTGACC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCCTACCCTTCAGTCTGCTTGTCGGCTTTGACC
* **
1349407 CTAGAGACTTTCCT-ATCCTTT
66 CTAGAGAC-TACCTCAT-CTAA
* * * * * * ** * * * *
1349428 AGTCTACGTGTCGGCTTTGACCCTGGAGACTAT-CT-CATCTAAAGTTTGCCTATCGACTTTGAC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCCTAC-CCTTCAGTCTGCTTGTCGGCTTTGAC
* * **
1349491 CCTAGAGACTTTCCT-ACCCTTC
65 CCTAGAGAC-TACCTCA-TCTAA
* * * * * *
1349513 AGTCTGCCT-GCTGGCTTTGACCTTGGAGGCTTTCTTACCC-TCAGTCTACCTGTTGGCTTTG-C
1 AGTCTGCCTATC-GGCTTTGACCTTGGAGACTTTCCTACCCTTCAGTCTGCTTGTCGGCTTTGAC
1349575 CCTTAGAGACTACCTCATCTAA
65 CC-TAGAGACTACCTCATCTAA
* * ** * * * * * *
1349597 AGTCTACCTGTCGATTTTGACCCTGAAGACTTTCTTACCATTCAGTCTGTTTGTTGGCTTTGACC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCCTACCCTTCAGTCTGCTTGTCGGCTTTGACC
* * *
1349662 TTAGAGATTATCTCATCTAA
66 CTAGAGACTACCTCATCTAA
* * * * * * * * **
1349682 AGTCTACCTGTCAGCTTTGACCCTAGAGACTTTCCTACCCTTCAGTTTGCCTATCGATTTTGACC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCCTACCCTTCAGTCTGCTTGTCGGCTTTGACC
* *
1349747 CTAGAGACTGA-CTCATTTGA
66 CTAGAGACT-ACCTCATCTAA
*** * ** * * * * * * * * *
1349767 AGTCTATTTGTTAGCTTTAACCCTAGAGACTTTCCTACCCTT-ACTCTACGTATTGACTTTGACC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCCTACCCTTCAGTCTGCTTGTCGGCTTTGACC
* * * ** * * **
1349831 TTGGAAACTTTCTTACCCTTC
66 CTAGAGACTACCTCA-TCTAA
* * * ** * *
1349852 AGTCTGCCTATCGACTTTGACCTTGGAAAC-TACCT-CACCTAAAATCTGCTTGTCGCCTTTGA-
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCCTAC-CCTTCAGTCTGCTTGTCGGCTTTGAC
* * * * *
1349914 CCTTGTAGGCTTTCCT-ACCCT-C
65 CCTAG-AGAC-TACCTCA-TCTAA
* * ** * * * ** * *
1349936 AGTCTACCTGTTAGCTTTAACCCTT-GAGA-TTGTCTTA-TCTAAAGTCTGCCTGTCAGCTTTGA
1 AGTCTGCCTATCGGCTTTGA-CCTTGGAGACTT-TCCTACCCTTCAGTCTGCTTGTCGGCTTTGA
** * ** * **
1349998 CTTTGGAGACTTTCTTATCCTTC
64 CCCTAGAGACTACCTCAT-CTAA
* * * * * * ** * *
1350021 AGTCTGTCTGTCGGCTTTAACCCTGGAGA-TTGCCT-CATCTAAAGTATGCCTGTCGGCTTTGAC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCCTAC-CCTTCAGTCTGCTTGTCGGCTTTGAC
* * * * *
1350084 CTTGGAGACTTTCCTGC-CCT-C
65 CCTAGAGAC-TACCT-CATCTAA
** * * * ** * **
1350105 AGT-T-TTTTTCCTGACTTTGACCTTGAAGACCTTT-AAACCC-TCTGTCTGCTTGTCAACTTTG
1 AGTCTGCCTAT-C-GGCTTTGACCTTGGAGA-CTTTCCTACCCTTCAGTCTGCTTGTCGGCTTTG
*
1350166 ACCCTAGAGACTGCCTCATCTAA
63 ACCCTAGAGACTACCTCATCTAA
* * * * * *
1350189 AGTCTGCCTATTGACTTTGACCTTGGAGACTTTCCTATCCTTTAGTCTGCCTGTCGGCTTTTACC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCCTACCCTTCAGTCTGCTTGTCGGCTTTGACC
*
1350254 CTAGAGACTATCTCATCTAA
66 CTAGAGACTACCTCATCTAA
* * * * * * *
1350274 AGTCTACCTGTCGTCTTTGACCTTAGAGACTTTCCTATCCTTCAGTCTGCCTGTCAGCTTTGACC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCCTACCCTTCAGTCTGCTTGTCGGCTTTGACC
* * * *
1350339 TTGGGGACTATCTCATCTAA
66 CTAGAGACTACCTCATCTAA
* * * *
1350359 AGTCTGCCTATCGGCTTTGACCGTGGAGACTTTTCTA-CCTTGAGTCTGCCTGTCGGCTTTGACC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCCTACCCTTCAGTCTGCTTGTCGGCTTTGACC
* * *** * * *
1350423 TTAAAGACTTTTTTACCTTTA
66 CTAGAGACTACCTCATC-TAA
* * * * ** * * *
1350444 A-TCTGCCTGTAGGCTTTGACCCTGGAGACTGCTT-C-A-TCTAAAGTCTACTTATCGACTTTGA
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACT--TTCCTACCCTTCAGTCTGCTTGTCGGCTTTGA
* * ** * *
1350505 CTCT-GCAAACT-TTTCTACCCAA
64 CCCTAG-AGACTACCTC-ATCTAA
* * ** * * * * *
1350527 AGTCTACCTATCAGCTTTGACCCAGGAGACTTTTCTACCTTTTAGTCTACCTGTCGGCTTTGACC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCCTACCCTTCAGTCTGCTTGTCGGCTTTGACC
* * *
1350592 CCAGAGACTGCCTTATCTAA
66 CTAGAGACTACCTCATCTAA
* * * * * * * * *
1350612 AGTTTGCCTGCAAC--CTTTGACCTTAGAAACTTTCCTACCCTTTAGTCTGCCTGTAGACTATGA
1 AGTCTGCCT--ATCGGCTTTGACCTTGGAGACTTTCCTACCCTTCAGTCTGCTTGTCGGCTTTGA
* * * * *
1350675 CCCTAAAGACTGCCTTATTTGA
64 CCCTAGAGACTACCTCATCTAA
* * * * ** * * *
1350697 AGTCTGCCTGTTGGTTTTGACCCTATAAACTTTTCC-ACCC-TCAGTCTGCCTGTCGACTTTGAC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGAC-TTTCCTACCCTTCAGTCTGCTTGTCGGCTTTGAC
* * * * *
1350760 CTTGGAGACTTTCCT-ACCCTTCA
65 CCTAGAGAC-TACCTCA-TC-TAA
* * * ** *
1350783 A-TGTGCCTATCGGCTTTGACCTTAGAGAC-TACCT-CACCTAAAGTCTGCCTGTCGGCTTTGAC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCCTAC-CCTTCAGTCTGCTTGTCGGCTTTGAC
* * ** * * **
1350845 CTTGGATGTTTTCCT-ACCTTC
65 CCTAGA-GACTACCTCATCTAA
* * * * * * ** * *
1350866 AGTCTGCTTATAGGCTTTGACCCTGGAGACTATCTTA-TCTAAAGTCTGTTTGTCGGCTTTAACC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCCTACCCTTCAGTCTGCTTGTCGGCTTTGACC
* ** * *
1350930 CTAAAGACTTTCTTATCCTTA
66 CTAGAGACTACCTCAT-CTAA
* * * * * * ** * *
1350951 AGTCTGCTTGTCGGCTTTGACCCTAGAGACTTTCTTA-TCTAAAGTCTGCTTGCCAGCTTTGACC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCCTACCCTTCAGTCTGCTTGTCGGCTTTGACC
* * * **
1351015 TTGGAGACTTTCCT-ATACTTC
66 CTAGAGAC-TACCTCAT-CTAA
* * * * ** * * * * *
1351036 AGTCTACCTACCGGCTTTGACCTTGGAGAC-TACCT-CATCTAAATTCTACCTATCAGCTTTGAC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCCTAC-CCTTCAGTCTGCTTGTCGGCTTTGAC
* * * * *
1351099 CTTAGAGATTTTCCT-ACCCT-T
65 CCTAGAGA-CTACCTCA-TCTAA
* * * * * * *
1351120 AGTCTACTTGTCGGCTTTGATCC-TAGAGACTTTTCTACCCTT-AGTCTGCCTATCGGCTTTGAC
1 AGTCTGCCTATCGGCTTTGA-CCTTGGAGACTTTCCTACCCTTCAGTCTGCTTGTCGGCTTTGAC
1351183 CCTAGAGACTACCTCATCTAA
65 CCTAGAGACTACCTCATCTAA
* * * *
1351204 AGTCTGCCTATCGGCTTTGACCTTAGAGATTTTCCTATCCTTCAGTCTG-TCTGTCGACTTTGAC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCCTACCCTTCAGTCTGCT-TGTCGGCTTTGAC
**
1351268 CCT-GAAGACTGTCTCATCTAA
65 CCTAG-AGACTACCTCATCTAA
* * * * *
1351289 AGTCTACCTGTCGGCTTTGACCTTGGAGACTTTCCTACCCTTCAGCCTGCCTGTCGGTTTTGACC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCCTACCCTTCAGTCTGCTTGTCGGCTTTGACC
* * *
1351354 TTGGAGACTACCTTATCTAA
66 CTAGAGACTACCTCATCTAA
* * * * *
1351374 ATTCTGCCTATCAGCTTTGACCTTGGAGACTTTCCAACCCTT-AGTTTGCTTGTCTGCTTTGACC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCCTACCCTTCAGTCTGCTTGTCGGCTTTGACC
* * ** * *
1351438 ATGGAGACT-TTTCTACCCT-C
66 CTAGAGACTACCTC-A-TCTAA
* * * * * * * * *
1351458 AGTATGCTTGTCGGCTTTGACCCTGAAGATTTTTCTACCCTTCAGTCTACTTGTCGGCTTTAACC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCCTACCCTTCAGTCTGCTTGTCGGCTTTGACC
1351523 CTAGAGACTACCAT-ATCTAA
66 CTAGAGACTACC-TCATCTAA
* * * * * * * *
1351543 AGTCTACCTATCGACTTTGACCCTAGAGACTTTCCT-TCCTTCAGTCTACTTATCGGCTTTCACC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCCTACCCTTCAGTCTGCTTGTCGGCTTTGACC
* **
1351607 CTAAAGACTACCTCATCTTC
66 CTAGAGACTACCTCATCTAA
* * * * ** * * *
1351627 AGTCTGCTTGTCGGCTTTGACCTTGGAGAC-TGCCT-CATCTAAAGTTTTCCTGTCGGCTTTGAC
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCCTAC-CCTTCAGTCTGCTTGTCGGCTTTGAC
*
1351690 CCTAGAGACTGCCTCATCTAA
65 CCTAGAGACTACCTCATCTAA
* * * * *
1351711 AGTTTGCCTATCGGCTTTGACCTTGGATACTTTTCTACCTTTCA-TCTGCTTGTCGGCTTTGACT
1 AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCCTACCCTTCAGTCTGCTTGTCGGCTTTGACC
1351775 CTAGAGACT
66 CTAGAGACT
1351784 TTTCCTACCC
Statistics
Matches: 1983, Mismatches: 522, Indels: 208
0.73 0.19 0.08
Matches are distributed among these distances:
82 6 0.00
83 58 0.03
84 843 0.43
85 1033 0.52
86 39 0.02
87 4 0.00
ACGTcount: A:0.19, C:0.28, G:0.17, T:0.36
Consensus pattern (85 bp):
AGTCTGCCTATCGGCTTTGACCTTGGAGACTTTCCTACCCTTCAGTCTGCTTGTCGGCTTTGACC
CTAGAGACTACCTCATCTAA
Found at i:1352635 original size:14 final size:14
Alignment explanation
Indices: 1352613--1352655 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
1352603 TTGTTTCATG
*
1352613 CATTGCATTCATTT
1 CATTTCATTCATTT
1352627 CATTTCATTGC-TTT
1 CATTTCATT-CATTT
*
1352641 CATTTCATGCATTT
1 CATTTCATTCATTT
1352655 C
1 C
1352656 TGCCATGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 1 0.04
14 23 0.92
15 1 0.04
ACGTcount: A:0.19, C:0.23, G:0.07, T:0.51
Consensus pattern (14 bp):
CATTTCATTCATTT
Found at i:1352664 original size:13 final size:13
Alignment explanation
Indices: 1352646--1352670 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1352636 GCTTTCATTT
1352646 CATGCATTTCTGC
1 CATGCATTTCTGC
1352659 CATGCATTTCTG
1 CATGCATTTCTG
1352671 AATGTCGTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.28, G:0.16, T:0.40
Consensus pattern (13 bp):
CATGCATTTCTGC
Found at i:1355836 original size:28 final size:28
Alignment explanation
Indices: 1355804--1355864 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
1355794 AAATATGATA
1355804 AATTTCTATGACATAATAAATTTCTACT
1 AATTTCTATGACATAATAAATTTCTACT
*
1355832 AATTTCTATGGCATAATAAATTTCTACT
1 AATTTCTATGACATAATAAATTTCTACT
1355860 AATTT
1 AATTT
1355865 TTTTTGGGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.38, C:0.13, G:0.05, T:0.44
Consensus pattern (28 bp):
AATTTCTATGACATAATAAATTTCTACT
Found at i:1357413 original size:13 final size:14
Alignment explanation
Indices: 1357387--1357415 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
1357377 TGCTGTTCTT
1357387 TTGTTTTACTATTG
1 TTGTTTTACTATTG
1357401 TTGTTTT-CTATTG
1 TTGTTTTACTATTG
1357414 TT
1 TT
1357416 TTGCTTGCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.10, C:0.07, G:0.14, T:0.69
Consensus pattern (14 bp):
TTGTTTTACTATTG
Found at i:1362059 original size:52 final size:52
Alignment explanation
Indices: 1361911--1362038 Score: 238
Period size: 52 Copynumber: 2.5 Consensus size: 52
1361901 GAAATATGAG
1361911 AATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCA
1 AATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCA
* *
1361963 AGTTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGCA
1 AATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCA
1362015 AATTTGCCTGCATGTATCGATACA
1 AATTTGCCTGCATGTATCGATACA
1362039 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.35
Consensus pattern (52 bp):
AATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCA
Found at i:1362125 original size:19 final size:18
Alignment explanation
Indices: 1362101--1362196 Score: 86
Period size: 19 Copynumber: 5.7 Consensus size: 18
1362091 TAGCTTACAT
1362101 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
1362120 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1362133 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
1362152 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1362165 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
1362185 TGTATCGATACA
1 TGTATCGATACA
1362197 GATCATTGAA
Statistics
Matches: 64, Mismatches: 0, Indels: 25
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.34
14 2 0.03
16 4 0.06
18 1 0.02
19 23 0.36
20 12 0.19
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:1362137 original size:32 final size:32
Alignment explanation
Indices: 1362096--1362196 Score: 184
Period size: 32 Copynumber: 3.1 Consensus size: 32
1362086 GGCAGTAGCT
*
1362096 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
1362128 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
1362160 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
1362193 TACA
1 TACA
1362197 GATCATTGAA
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 52 0.78
33 15 0.22
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:1362138 original size:13 final size:13
Alignment explanation
Indices: 1362120--1362176 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
1362110 ACAAAACTTA
1362120 TGTATCGATACAT
1 TGTATCGATACAT
1362133 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
1362151 ATGTATCGATACAT
1 -TGTATCGATACAT
1362165 TGTATCGATACA
1 TGTATCGATACA
1362177 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1364444 original size:20 final size:20
Alignment explanation
Indices: 1364419--1364512 Score: 100
Period size: 20 Copynumber: 4.7 Consensus size: 20
1364409 TTTTACCCAG
* *
1364419 ATGTATCGATATATTTTTCA
1 ATGTATCGATACATTATTCA
**
1364439 ATGTATCGATACA-TAGACGA
1 ATGTATCGATACATTATTC-A
* *
1364459 ATGCATCGATACATTCTTCA
1 ATGTATCGATACATTATTCA
*
1364479 ATATATCGATACATTATTCA
1 ATGTATCGATACATTATTCA
*
1364499 ATGTATCAATACAT
1 ATGTATCGATACAT
1364513 CTAGTTAAAA
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
19 2 0.03
20 55 0.93
21 2 0.03
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTATTCA
Found at i:1371095 original size:52 final size:52
Alignment explanation
Indices: 1371012--1371116 Score: 167
Period size: 52 Copynumber: 2.0 Consensus size: 52
1371002 ATCTCATTTT
*
1371012 TCACTATTTATCACTGTTCGTGTATCAATACATTATGAATAGTATCGAAACA
1 TCACTATTCATCACTGTTCGTGTATCAATACATTATGAATAGTATCGAAACA
* *
1371064 TCACTATTCATCACTGTTCAG-GTATCGATACATTATGAATAGTATCGATACA
1 TCACTATTCATCACTGTTC-GTGTATCAATACATTATGAATAGTATCGAAACA
1371116 T
1 T
1371117 TGAGTCCAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
52 48 0.98
53 1 0.02
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.36
Consensus pattern (52 bp):
TCACTATTCATCACTGTTCGTGTATCAATACATTATGAATAGTATCGAAACA
Found at i:1373196 original size:21 final size:21
Alignment explanation
Indices: 1373172--1373230 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
1373162 TAATATTCTT
* *
1373172 GAAAAGAAAGTAAGTGAATTA
1 GAAAAGAAAATAAATGAATTA
1373193 GAAAAGAAAATAAATGAATTA
1 GAAAAGAAAATAAATGAATTA
** *
1373214 GAGGAGAAAAGAAATGA
1 GAAAAGAAAATAAATGA
1373231 GTTGCAAGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.61, C:0.00, G:0.24, T:0.15
Consensus pattern (21 bp):
GAAAAGAAAATAAATGAATTA
Found at i:1373950 original size:32 final size:33
Alignment explanation
Indices: 1373886--1373950 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 33
1373876 CACACCCAGA
* *
1373886 TGTATCGATACATGCTGCTTTGTATCGATACAT
1 TGTATCGATACATGCTGCATTGCATCGATACAT
* *
1373919 TGTATCGATATAT-CTTCATTGCATCGATACAT
1 TGTATCGATACATGCTGCATTGCATCGATACAT
1373951 GGATAAATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATGCTGCATTGCATCGATACAT
Found at i:1374027 original size:20 final size:19
Alignment explanation
Indices: 1374002--1374054 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
1373992 TATCACTATT
1374002 TGTATCGATACATG-GTACAA
1 TGTATCGATACATGAG-A-AA
1374022 TGTATCGATACATGAAGAAA
1 TGTATCGATACATG-AGAAA
1374042 TGTATCGATACAT
1 TGTATCGATACAT
1374055 AGCTTGTAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (19 bp):
TGTATCGATACATGAGAAA
Found at i:1374316 original size:18 final size:19
Alignment explanation
Indices: 1374289--1374328 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
1374279 AGATCAAAGC
1374289 TTTCAAAGTTCAAAGAG-T
1 TTTCAAAGTTCAAAGAGCT
* *
1374307 TTTCACAGTTCCAAGAGCT
1 TTTCAAAGTTCAAAGAGCT
1374326 TTT
1 TTT
1374329 GTTTTCATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTCAAAGTTCAAAGAGCT
Found at i:1378555 original size:16 final size:14
Alignment explanation
Indices: 1378514--1378558 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
1378504 ACCTATGCAC
*
1378514 TATATTCAAAAGGT
1 TATAGTCAAAAGGT
1378528 TATAGTCAAAAGGT
1 TATAGTCAAAAGGT
1378542 TATAGTTACAAAAGGT
1 TATAG-T-CAAAAGGT
1378558 T
1 T
1378559 TTGAAAATCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 18 0.64
15 1 0.04
16 9 0.32
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.33
Consensus pattern (14 bp):
TATAGTCAAAAGGT
Found at i:1379324 original size:13 final size:13
Alignment explanation
Indices: 1379306--1379330 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1379296 ATAATGCACA
1379306 GTATCGATACATT
1 GTATCGATACATT
1379319 GTATCGATACAT
1 GTATCGATACAT
1379331 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1379448 original size:13 final size:13
Alignment explanation
Indices: 1379430--1379455 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1379420 TACACACAAG
1379430 ATGTATCGATACA
1 ATGTATCGATACA
1379443 ATGTATCGATACA
1 ATGTATCGATACA
1379456 TCCCAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1379467 original size:20 final size:20
Alignment explanation
Indices: 1379442--1379496 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
1379432 GTATCGATAC
1379442 AATGTATCGATACATCCCAA
1 AATGTATCGATACATCCCAA
1379462 AATGTATCGATACATCCCAA
1 AATGTATCGATACATCCCAA
*
1379482 AATGTATTGATACAT
1 AATGTATCGATACAT
1379497 TGGCTTGTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACATCCCAA
Found at i:1379472 original size:33 final size:32
Alignment explanation
Indices: 1379412--1379475 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
1379402 CTTAATTGTT
*
1379412 TGTATCGATACACACAAGATGTATCGATACAA
1 TGTATCGATACACACAAAATGTATCGATACAA
*
1379444 TGTATCGATACATCCCAAAATGTATCGATACA
1 TGTATCGATACA-CACAAAATGTATCGATACA
1379476 TCCCAAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (32 bp):
TGTATCGATACACACAAAATGTATCGATACAA
Found at i:1384966 original size:13 final size:13
Alignment explanation
Indices: 1384946--1384983 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
1384936 CAGCATTCTC
*
1384946 TATATCGATACAT
1 TATATCGATACAG
*
1384959 TGTATCGATACAG
1 TATATCGATACAG
1384972 TATATCGATACA
1 TATATCGATACA
1384984 AAGGGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (13 bp):
TATATCGATACAG
Found at i:1388560 original size:19 final size:20
Alignment explanation
Indices: 1388538--1388575 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
1388528 CAAAATGACG
1388538 AAAAAAATA-AAAAAAAAGC
1 AAAAAAATAGAAAAAAAAGC
1388557 AAAAAAATAGAAAAAAAAG
1 AAAAAAATAGAAAAAAAAG
1388576 AAGAAAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.84, C:0.03, G:0.08, T:0.05
Consensus pattern (20 bp):
AAAAAAATAGAAAAAAAAGC
Found at i:1388561 original size:12 final size:11
Alignment explanation
Indices: 1388546--1388598 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
1388536 CGAAAAAAAT
*
1388546 AAAAAAAAAGC
1 AAAAAAAAAGA
*
1388557 AAAAAAATAGA
1 AAAAAAAAAGA
1388568 AAAAAAAGAAGA
1 AAAAAAA-AAGA
* *
1388580 AAAACAAACACA
1 AAAA-AAAAAGA
1388592 AAAAAAA
1 AAAAAAA
1388599 GTGCAAAAGC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
11 19 0.54
12 13 0.37
13 3 0.09
ACGTcount: A:0.83, C:0.08, G:0.08, T:0.02
Consensus pattern (11 bp):
AAAAAAAAAGA
Found at i:1388577 original size:9 final size:10
Alignment explanation
Indices: 1388537--1388583 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
1388527 TCAAAATGAC
1388537 GAAAAAAATA
1 GAAAAAAATA
1388547 -AAAAAAA-A
1 GAAAAAAATA
1388555 GCAAAAAAATA
1 G-AAAAAAATA
1388566 GAAAAAAA-A
1 GAAAAAAATA
1388575 GAAGAAAAA
1 GAA-AAAAA
1388584 CAAACACAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
8 1 0.03
9 11 0.33
10 19 0.58
11 2 0.06
ACGTcount: A:0.83, C:0.02, G:0.11, T:0.04
Consensus pattern (10 bp):
GAAAAAAATA
Found at i:1388594 original size:24 final size:23
Alignment explanation
Indices: 1388546--1388599 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
1388536 CGAAAAAAAT
* * *
1388546 AAAAAAA-AAGCAAAAAAATAGA
1 AAAAAAAGAAGAAAAAAAACACA
1388568 AAAAAAAGAAGAAAAACAAACACA
1 AAAAAAAGAAGAAAAA-AAACACA
1388592 AAAAAAAG
1 AAAAAAAG
1388600 TGCAAAAGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 7 0.26
23 7 0.26
24 13 0.48
ACGTcount: A:0.81, C:0.07, G:0.09, T:0.02
Consensus pattern (23 bp):
AAAAAAAGAAGAAAAAAAACACA
Found at i:1389964 original size:33 final size:33
Alignment explanation
Indices: 1389910--1389997 Score: 140
Period size: 33 Copynumber: 2.7 Consensus size: 33
1389900 CAAGTACGCA
* *
1389910 ACTCAATGGTATCCTTTTTCTTCAAAGTTCATG
1 ACTCAGTGGCATCCTTTTTCTTCAAAGTTCATG
* *
1389943 ACTTAGTGGCATCTTTTTTCTTCAAAGTTCATG
1 ACTCAGTGGCATCCTTTTTCTTCAAAGTTCATG
1389976 ACTCAGTGGCATCCTTTTTCTT
1 ACTCAGTGGCATCCTTTTTCTT
1389998 TTCAAAGCCC
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.44
Consensus pattern (33 bp):
ACTCAGTGGCATCCTTTTTCTTCAAAGTTCATG
Found at i:1390082 original size:53 final size:53
Alignment explanation
Indices: 1389997--1390346 Score: 325
Period size: 53 Copynumber: 6.6 Consensus size: 53
1389987 TCCTTTTTCT
* * *
1389997 TTTCAAAGCCCAGAACTCCGTGGCACCTTTTAAGTCCACAACTCTGTGCCACC
1 TTTCAAAGCCCACAACTCTGTGGCACCTTTTAAGTCCACAACTCTGTGGCACC
*
1390050 TTTCAAAGCCCACAACT-TCGTGGCACCATTTAAGTCCACAACTCCT-TGGCACC
1 TTTCAAAGCCCACAACTCT-GTGGCACCTTTTAAGTCCACAACT-CTGTGGCACC
* * * *
1390103 TTTCAAAGACAACAACTCTGTGGCACCTTTTAAGTCCACAACTCCGTGGCAGC
1 TTTCAAAGCCCACAACTCTGTGGCACCTTTTAAGTCCACAACTCTGTGGCACC
* * * *** *
1390156 TTTCAAAGCCCAAAACTCTATGGCACCTTTTAAGTCCATAACTCCACGACACC
1 TTTCAAAGCCCACAACTCTGTGGCACCTTTTAAGTCCACAACTCTGTGGCACC
* * * * *
1390209 TTT-TAAGTCCACAACTCTGTGGCACCTTTCAAAGCCCACAACT-TCATGGCACC
1 TTTCAAAGCCCACAACTCTGTGGCACCTTT-TAAGTCCACAACTCT-GTGGCACC
* * ** * * *
1390262 TTT-TAAGTCCACAACTCCATGGCACCTTTCAAAGCCCACAACTCCGTGGCACCC
1 TTTCAAAGCCCACAACTCTGTGGCACCTTT-TAAGTCCACAACTCTGTGGCA-CC
* * *
1390316 TTT-TAAGTCCACAACTCTATGGCACCCTTTT
1 TTTCAAAGCCCACAACTCTGTGGCA-CCTTTT
1390347 TCTTTTAAGT
Statistics
Matches: 254, Mismatches: 34, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
52 23 0.09
53 198 0.78
54 28 0.11
55 5 0.02
ACGTcount: A:0.27, C:0.34, G:0.13, T:0.26
Consensus pattern (53 bp):
TTTCAAAGCCCACAACTCTGTGGCACCTTTTAAGTCCACAACTCTGTGGCACC
Found at i:1390142 original size:79 final size:78
Alignment explanation
Indices: 1390001--1390346 Score: 347
Period size: 79 Copynumber: 4.3 Consensus size: 78
1389991 TTTTCTTTTC
* * ** *
1390001 AAAGCCCAGAACTCCGTGGCACCTTTTAAGTCCACAACTCTGTGCCACCTTTCAAAGCCCACAAC
1 AAAGCCCACAACT-CTTGGCACCTTTTAAGTCCACAACTCCATGGCACCTTTCAAAGCCCACAAC
*
1390066 TTCGTGGCACCATTT
65 TCCGTGGCACC-TTT
* * * * ** * *
1390081 -AAGTCCACAACTCCTTGGCACCTTTCAAAGACAACAACTCTGTGGCACCTTT-TAAGTCCACAA
1 AAAGCCCACAACT-CTTGGCACCTTT-TAAGTCCACAACTCCATGGCACCTTTCAAAGCCCACAA
*
1390144 CTCCGTGGCAGCTTT
64 CTCCGTGGCACCTTT
* * * * * *
1390159 CAAAGCCCAAAACTCTATGGCACCTTTTAAGTCCATAACTCCACGACACCTTT-TAAGTCCACAA
1 -AAAGCCCACAACTCT-TGGCACCTTTTAAGTCCACAACTCCATGGCACCTTTCAAAGCCCACAA
*
1390223 CTCTGTGGCACCTTT
64 CTCCGTGGCACCTTT
*
1390238 CAAAGCCCACAACTTCATGGCACCTTTTAAGTCCACAACTCCATGGCACCTTTCAAAGCCCACAA
1 -AAAGCCCACAAC-TCTTGGCACCTTTTAAGTCCACAACTCCATGGCACCTTTCAAAGCCCACAA
1390303 CTCCGTGGCACCCTTT
64 CTCCGTGGCA-CCTTT
* *
1390319 TAAGTCCACAACTCTATGGCACCCTTTT
1 AAAGCCCACAACTCT-TGGCA-CCTTTT
1390347 TCTTTTAAGT
Statistics
Matches: 223, Mismatches: 34, Indels: 17
0.81 0.12 0.06
Matches are distributed among these distances:
78 3 0.01
79 132 0.59
80 77 0.35
81 11 0.05
ACGTcount: A:0.27, C:0.34, G:0.13, T:0.25
Consensus pattern (78 bp):
AAAGCCCACAACTCTTGGCACCTTTTAAGTCCACAACTCCATGGCACCTTTCAAAGCCCACAACT
CCGTGGCACCTTT
Found at i:1390250 original size:132 final size:133
Alignment explanation
Indices: 1390073--1390332 Score: 391
Period size: 132 Copynumber: 2.0 Consensus size: 133
1390063 AACTTCGTGG
*
1390073 CACCATTTAAGTCCACAACTCCTTGGCACCTTTCAAAGACAACAAC-TCTGTGGCACCTTTTAAG
1 CACCATTTAAGTCCACAACTCCTTGGCACCTTTCAAAGACAACAACTTC-ATGGCACCTTTTAAG
* * * *
1390137 TCCACAACTCCGTGGCAGCTTTCAAAGCCCAAAACTCTATGGCA-CCTTTTAAGTCCATAACTCC
65 TCCACAACTCCATGGCACCTTTCAAAGCCCAAAACTCCATGGCACCCTTTTAAGTCCACAACTCC
1390201 ACGA
130 ACGA
* * *
1390205 CACCTTTTAAGTCCACAACT-CTGTGGCACCTTTCAAAGCCCACAACTTCATGGCACCTTTTAAG
1 CACCATTTAAGTCCACAACTCCT-TGGCACCTTTCAAAGACAACAACTTCATGGCACCTTTTAAG
* *
1390269 TCCACAACTCCATGGCACCTTTCAAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTC
65 TCCACAACTCCATGGCACCTTTCAAAGCCCAAAACTCCATGGCACCCTTTTAAGTCCACAACTC
1390333 TATGGCACCC
Statistics
Matches: 115, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
131 2 0.02
132 93 0.81
133 20 0.17
ACGTcount: A:0.28, C:0.35, G:0.12, T:0.25
Consensus pattern (133 bp):
CACCATTTAAGTCCACAACTCCTTGGCACCTTTCAAAGACAACAACTTCATGGCACCTTTTAAGT
CCACAACTCCATGGCACCTTTCAAAGCCCAAAACTCCATGGCACCCTTTTAAGTCCACAACTCCA
CGA
Found at i:1390338 original size:27 final size:26
Alignment explanation
Indices: 1390010--1390346 Score: 311
Period size: 26 Copynumber: 12.7 Consensus size: 26
1390000 CAAAGCCCAG
*
1390010 AACTCCGTGGCACCTTTTAAGTCCAC
1 AACTCTGTGGCACCTTTTAAGTCCAC
* * *
1390036 AACTCTGTGCCACCTTTCAAAGCCCAC
1 AACTCTGTGGCACCTTT-TAAGTCCAC
*
1390063 AACT-TCGTGGCACCATTTAAGTCCAC
1 AACTCT-GTGGCACCTTTTAAGTCCAC
* * *
1390089 AACTCCT-TGGCACCTTTCAAAGACAAC
1 AACT-CTGTGGCACCTTT-TAAGTCCAC
1390116 AACTCTGTGGCACCTTTTAAGTCCAC
1 AACTCTGTGGCACCTTTTAAGTCCAC
* * * * *
1390142 AACTCCGTGGCAGCTTTCAAAGCCCAA
1 AACTCTGTGGCACCTTT-TAAGTCCAC
* *
1390169 AACTCTATGGCACCTTTTAAGTCCAT
1 AACTCTGTGGCACCTTTTAAGTCCAC
*** *
1390195 AACTCCACGACACCTTTTAAGTCCAC
1 AACTCTGTGGCACCTTTTAAGTCCAC
* *
1390221 AACTCTGTGGCACCTTTCAAAGCCCAC
1 AACTCTGTGGCACCTTT-TAAGTCCAC
*
1390248 AACT-TCATGGCACCTTTTAAGTCCAC
1 AACTCT-GTGGCACCTTTTAAGTCCAC
** * *
1390274 AACTCCATGGCACCTTTCAAAGCCCAC
1 AACTCTGTGGCACCTTT-TAAGTCCAC
*
1390301 AACTCCGTGGCACCCTTTTAAGTCCAC
1 AACTCTGTGGCA-CCTTTTAAGTCCAC
*
1390328 AACTCTATGGCACCCTTTT
1 AACTCTGTGGCA-CCTTTT
1390347 TCTTTTAAGT
Statistics
Matches: 252, Mismatches: 47, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
26 123 0.49
27 123 0.49
28 6 0.02
ACGTcount: A:0.27, C:0.34, G:0.13, T:0.26
Consensus pattern (26 bp):
AACTCTGTGGCACCTTTTAAGTCCAC
Found at i:1390357 original size:33 final size:33
Alignment explanation
Indices: 1390315--1390412 Score: 135
Period size: 33 Copynumber: 3.0 Consensus size: 33
1390305 CCGTGGCACC
*
1390315 CTTTTAAGTCCACAACTCTATGGCACCCTTTTT
1 CTTTTAAGTCCACAACTCTGTGGCACCCTTTTT
*
1390348 CTTTTAAGTCCACAACT-TCGTGGCACCTTTTTT
1 CTTTTAAGTCCACAACTCT-GTGGCACCCTTTTT
* * *
1390381 CTTTTACGTCCATAACTCCGTGGCACCCTTTT
1 CTTTTAAGTCCACAACTCTGTGGCACCCTTTT
1390413 AAGTCTATAA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
32 1 0.02
33 56 0.98
ACGTcount: A:0.18, C:0.31, G:0.11, T:0.40
Consensus pattern (33 bp):
CTTTTAAGTCCACAACTCTGTGGCACCCTTTTT
Found at i:1390412 original size:60 final size:60
Alignment explanation
Indices: 1390348--1390485 Score: 147
Period size: 60 Copynumber: 2.3 Consensus size: 60
1390338 CACCCTTTTT
* * * *
1390348 CTTTTAAGTCCACAACT-TCGTGGCACCTTTTTTCTTTT-ACGTCCATAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTGTCGTGGCACC-ATTTTCTTTTAAAGCCCACAACTCCGTGGCA-C
* * *
1390408 CTTTTAAGTCTATAA-TGTCGTGGCACCATTTTCTTTTCAAAGCCCACAACTCTGTGGCAC
1 CTTTTAAGTCCACAACTGTCGTGGCACCATTTTCTTTT-AAAGCCCACAACTCCGTGGCAC
*
1390468 TTTTTCAAGTCCACAACT
1 CTTTT-AAGTCCACAACT
1390486 CTGTGGCTCT
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
59 10 0.16
60 28 0.44
61 24 0.38
62 1 0.02
ACGTcount: A:0.22, C:0.29, G:0.13, T:0.36
Consensus pattern (60 bp):
CTTTTAAGTCCACAACTGTCGTGGCACCATTTTCTTTTAAAGCCCACAACTCCGTGGCAC
Found at i:1390432 original size:93 final size:92
Alignment explanation
Indices: 1390301--1390472 Score: 224
Period size: 93 Copynumber: 1.8 Consensus size: 92
1390291 CAAAGCCCAC
* *
1390301 AACTCCGTGGCACCCTTTTAAGTCCACAACTCTATGGCACCCTTTTTCTTTT-AAGTCCACAACT
1 AACTCCGTGGCACCCTTTTAAGTCCACAACTCTATGGCA-CCATTTTCTTTTAAAGCCCACAACT
1390365 -TCGTGGCACCTTTTTTCTTTTACGTCCAT
65 CT-GTGGCA-CTTTTTTCTTTTACGTCCAT
* * * *
1390394 AACTCCGTGGCACCCTTTTAAGTCTATAA-TGTCGTGGCACCATTTTCTTTTCAAAGCCCACAAC
1 AACTCCGTGGCACCCTTTTAAGTCCACAACTCT-ATGGCACCATTTTCTTTT-AAAGCCCACAAC
1390458 TCTGTGGCACTTTTT
64 TCTGTGGCACTTTTT
1390473 CAAGTCCACA
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
92 13 0.19
93 38 0.55
94 17 0.25
95 1 0.01
ACGTcount: A:0.20, C:0.30, G:0.13, T:0.37
Consensus pattern (92 bp):
AACTCCGTGGCACCCTTTTAAGTCCACAACTCTATGGCACCATTTTCTTTTAAAGCCCACAACTC
TGTGGCACTTTTTTCTTTTACGTCCAT
Found at i:1390814 original size:52 final size:52
Alignment explanation
Indices: 1390612--1390839 Score: 159
Period size: 52 Copynumber: 4.5 Consensus size: 52
1390602 GAGTCCAACA
* * *
1390612 TCGCTGGCCTTGAATCAGCATATTGGCAC--CT-TCATCTTTAAGCCCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGAACTTTTGTCATCTTTAAGACCAATG
* * * * ** * * *
1390661 TCGCTAGG-CTTGAATTAGCACATTAGCAC---CATCATCTTGAAGTCCAATA
1 TCGCT-GGCCTTGAATCAGCATATTGGAACTTTTGTCATCTTTAAGACCAATG
* * * * * *
1390710 TTGCTGGCCTTAAATCAGCATATTGGCACTTTTGTCATCTTTAGGTCTAATG
1 TCGCTGGCCTTGAATCAGCATATTGGAACTTTTGTCATCTTTAAGACCAATG
* *
1390762 TCGTTGGCCTTGAATCAGCATATTGGAACATTTT-TC-TTTCTTAAGACCAATG
1 TCGCTGGCCTTGAATCAGCATATTGGAAC-TTTTGTCATCT-TTAAGACCAATG
* * *
1390814 TTGCTGGCCTGGAATCAGCACATTGG
1 TCGCTGGCCTTGAATCAGCATATTGG
1390840 CACAAGCCCA
Statistics
Matches: 141, Mismatches: 30, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
48 2 0.01
49 59 0.42
50 2 0.01
51 2 0.01
52 72 0.51
53 4 0.03
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (52 bp):
TCGCTGGCCTTGAATCAGCATATTGGAACTTTTGTCATCTTTAAGACCAATG
Found at i:1390878 original size:143 final size:143
Alignment explanation
Indices: 1390714--1390985 Score: 357
Period size: 143 Copynumber: 1.9 Consensus size: 143
1390704 CCAATATTGC
* * * * * *
1390714 TGGCCTTAAATCAGCATATTGGCACTTTTGTCATCTTTAGGTCTAATGTCGTTGGCCTTGAATCA
1 TGGCCTTAAATCAACATATTGGCACCTTTATCATCTTTAAGTCCAATGTCATTGGCCTTGAATCA
* * * * *
1390779 GCATATTGGAACATT-TTTCTTTCTTAAGACCAATGTTGCTGGCCTGGAATCAGCACATTGGCAC
66 GCACATTGGAACATTCTTT-TTTCTCAAGACCAATATCGCTAGCCTGGAATCAGCACATTGGCAC
1390843 AAGCCCAATATCAT
130 AAGCCCAATATCAT
*
1390857 TGGCCTTGAATCAACATATTGGCACCTTTATCATCTTTAAGTCCAATGTCATTGGCCTTGAATCA
1 TGGCCTTAAATCAACATATTGGCACCTTTATCATCTTTAAGTCCAATGTCATTGGCCTTGAATCA
* * * * * * *
1390922 TCACATTGGCACGTTCTTTTTTCTCAAGTCCAATATCGCTAGCCTTGAATTAGCATATTGGCAC
66 GCACATTGGAACATTCTTTTTTCTCAAGACCAATATCGCTAGCCTGGAATCAGCACATTGGCAC
1390986 CTTTGCCATT
Statistics
Matches: 109, Mismatches: 19, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
143 106 0.97
144 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (143 bp):
TGGCCTTAAATCAACATATTGGCACCTTTATCATCTTTAAGTCCAATGTCATTGGCCTTGAATCA
GCACATTGGAACATTCTTTTTTCTCAAGACCAATATCGCTAGCCTGGAATCAGCACATTGGCACA
AGCCCAATATCAT
Found at i:1390920 original size:91 final size:91
Alignment explanation
Indices: 1390765--1390933 Score: 223
Period size: 91 Copynumber: 1.9 Consensus size: 91
1390755 TCTAATGTCG
* * * **
1390765 TTGGCCTTGAATCAGCATATTGGAACATTTTTCTTTCTTAAGACCAATGTTGCTGGCCTGGAATC
1 TTGGCCTTGAATCAACATATTGGAACATTTATCTCTCTTAAGACCAATGTCACTGGCCTGGAATC
1390830 AGCACATTGGCACAAGCCCAATATCA
66 AGCACATTGGCACAAGCCCAATATCA
* * * * *
1390856 TTGGCCTTGAATCAACATATTGGCACCTTTATCATCT-TTAAGTCCAATGTCATTGGCCTTGAAT
1 TTGGCCTTGAATCAACATATTGGAACATTTATC-TCTCTTAAGACCAATGTCACTGGCCTGGAAT
*
1390920 CATCACATTGGCAC
65 CAGCACATTGGCAC
1390934 GTTCTTTTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
91 64 0.97
92 2 0.03
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.33
Consensus pattern (91 bp):
TTGGCCTTGAATCAACATATTGGAACATTTATCTCTCTTAAGACCAATGTCACTGGCCTGGAATC
AGCACATTGGCACAAGCCCAATATCA
Found at i:1390930 original size:52 final size:52
Alignment explanation
Indices: 1390847--1391097 Score: 231
Period size: 52 Copynumber: 4.8 Consensus size: 52
1390837 TGGCACAAGC
* *
1390847 CCAATATCATTGGCCTTGAATCAACATATTGGCACCTTTATCATCTTTAAGT
1 CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCATCTTTAAGT
* * * * * * ** *
1390899 CCAATGTCATTGGCCTTGAATCATCACATTGGCACGTTCTTTTTTC-TCAAGT
1 CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTT-TATCATCTTTAAGT
* * * **
1390951 CCAATATCGCTAGCCTTGAATTAGCATATTGGCACCTTTGCCAT-TTTCAAGT
1 CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCATCTTT-AAGT
* * * *
1391003 CTAATATC-GTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCTTTAAG-
1 CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCATCTTTAAGT
* * * *
1391053 CCTAATATCGCTAGCCTTGAATTAGCATATTGGCACCCTTATCAT
1 CC-AATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCAT
1391098 TATTTTCATC
Statistics
Matches: 159, Mismatches: 34, Indels: 12
0.78 0.17 0.06
Matches are distributed among these distances:
50 1 0.01
51 42 0.26
52 112 0.70
53 4 0.03
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.35
Consensus pattern (52 bp):
CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCATCTTTAAGT
Found at i:1391062 original size:103 final size:104
Alignment explanation
Indices: 1390859--1391089 Score: 290
Period size: 103 Copynumber: 2.2 Consensus size: 104
1390849 AATATCATTG
* * * * * *
1390859 GCCTTGAATCAACATATTGGCACCTTTATCATCTTTAAGTCCAATGTCATTGGCCTTGAATCATC
1 GCCTTGAATTAGCATATTGGCACCTTTACCATCTTTAAGTCCAATATCAGTGGCCTTGAATCAGC
* * **
1390924 ACATTGGCACGTTCTTTTTTCTCAAGTCCAATATCGCTA
66 ACATTGGCACCTTCTGTCATCTCAAGTCCAATATCGCTA
* *
1390963 GCCTTGAATTAGCATATTGGCACCTTTGCCAT-TTTCAAGTCTAATATC-GTGGCCTTGAATCAG
1 GCCTTGAATTAGCATATTGGCACCTTTACCATCTTT-AAGTCCAATATCAGTGGCCTTGAATCAG
*
1391026 CACATTGGCACCTT-TGTCATCTTTAAG-CCTAATATCGCTA
65 CACATTGGCACCTTCTGTCATC-TCAAGTCC-AATATCGCTA
1391066 GCCTTGAATTAGCATATTGGCACC
1 GCCTTGAATTAGCATATTGGCACC
1391090 CTTATCATTA
Statistics
Matches: 111, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
102 6 0.05
103 67 0.60
104 38 0.34
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.35
Consensus pattern (104 bp):
GCCTTGAATTAGCATATTGGCACCTTTACCATCTTTAAGTCCAATATCAGTGGCCTTGAATCAGC
ACATTGGCACCTTCTGTCATCTCAAGTCCAATATCGCTA
Found at i:1391196 original size:61 final size:61
Alignment explanation
Indices: 1391043--1391196 Score: 143
Period size: 61 Copynumber: 2.5 Consensus size: 61
1391033 GCACCTTTGT
* * * * * **
1391043 CATCTTTAAGCCTAATATCGCT-AGCCTTGAATTAGCATATTGGCACCCTTATCATTATTTT
1 CATCCTTAAGCCCAATATCGCTGA-CCTTGAATCAACATATTAGCACCCTTATCATTATTCA
* * * * * *
1391104 CAT-CTTCAAGCTCGATATTGCTG-GCTGTGAATCAACATATTAGCACCTTTATCATTCTTCA
1 CATCCTT-AAGCCCAATATCGCTGACCT-TGAATCAACATATTAGCACCCTTATCATTATTCA
1391165 CATCCTTAAGCCCAATATCGCTGACCTTGAAT
1 CATCCTTAAGCCCAATATCGCTGACCTTGAAT
1391197 TAGCACTTTG
Statistics
Matches: 71, Mismatches: 17, Indels: 10
0.72 0.17 0.10
Matches are distributed among these distances:
60 4 0.06
61 62 0.87
62 5 0.07
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (61 bp):
CATCCTTAAGCCCAATATCGCTGACCTTGAATCAACATATTAGCACCCTTATCATTATTCA
Found at i:1391915 original size:20 final size:20
Alignment explanation
Indices: 1391890--1391964 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
1391880 TTTGCCAAGG
*
1391890 AAATGTATCGATACATTAAT
1 AAATGTATCGATACATTATT
**
1391910 AAATGTATCGATACATGCTT
1 AAATGTATCGATACATTATT
1391930 CAAATTGTATCGATACATTATT
1 -AAA-TGTATCGATACATTATT
*
1391952 CAATGTATCGATA
1 AAATGTATCGATA
1391965 AATGCAATCA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 27 0.57
21 5 0.11
22 15 0.32
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (20 bp):
AAATGTATCGATACATTATT
Found at i:1391940 original size:42 final size:43
Alignment explanation
Indices: 1391893--1391978 Score: 129
Period size: 42 Copynumber: 2.0 Consensus size: 43
1391883 GCCAAGGAAA
* *
1391893 TGTATCGATACATTAATAAATGTATCGATACATGC-TTCAAAT
1 TGTATCGATACATTAATAAATGTATCGATAAATGCAATCAAAT
* *
1391935 TGTATCGATACATTATTCAATGTATCGATAAATGCAATCAAAT
1 TGTATCGATACATTAATAAATGTATCGATAAATGCAATCAAAT
1391978 T
1 T
1391979 TTCATATTAC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
42 32 0.82
43 7 0.18
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (43 bp):
TGTATCGATACATTAATAAATGTATCGATAAATGCAATCAAAT
Found at i:1391941 original size:22 final size:22
Alignment explanation
Indices: 1391913--1391978 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
1391903 CATTAATAAA
1391913 TGTATCGATACATGCTTCAAAT
1 TGTATCGATACATGCTTCAAAT
**
1391935 TGTATCGATACATTATTC-AA-
1 TGTATCGATACATGCTTCAAAT
* *
1391955 TGTATCGATAAATGCAATCAAAT
1 TGTATCGATACATGC-TTCAAAT
1391978 T
1 T
1391979 TTCATATTAC
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
20 12 0.34
21 4 0.11
22 18 0.51
23 1 0.03
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (22 bp):
TGTATCGATACATGCTTCAAAT
Found at i:1395543 original size:68 final size:67
Alignment explanation
Indices: 1395416--1395591 Score: 219
Period size: 68 Copynumber: 2.6 Consensus size: 67
1395406 TTTTTTCAAG
* * * * * * *
1395416 AAAGTCTACAACTTCGTGACACCTTTTCTTTTTTAAAAAAAAGAGTCCACAACTCAGTGGCACCC
1 AAAGTCAACAATTTCGTGGCA-CTCTT-TTTTTTAAAAAAAAAAGTCCACAACTAAGTGGCACAC
**
1395481 TTTT
64 TTAC
* *
1395485 AAAGTCCACAATTTCGTGGCATCTCTTTTTTTTAAAAAAAAAAGTCTACAACTAAGTGGCACACT
1 AAAGTCAACAATTTCGTGGCA-CTCTTTTTTTTAAAAAAAAAAGTCCACAACTAAGTGGCACACT
1395550 TAC
65 TAC
1395553 AAAGTCAACAATTTCGTGGCAC-CTTTTTTTTAAAAAAAA
1 AAAGTCAACAATTTCGTGGCACTCTTTTTTTTAAAAAAAA
1395592 TAAAAAGAGT
Statistics
Matches: 95, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
66 17 0.18
67 1 0.01
68 55 0.58
69 22 0.23
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (67 bp):
AAAGTCAACAATTTCGTGGCACTCTTTTTTTTAAAAAAAAAAGTCCACAACTAAGTGGCACACTT
AC
Found at i:1395811 original size:31 final size:31
Alignment explanation
Indices: 1395717--1395814 Score: 83
Period size: 31 Copynumber: 3.1 Consensus size: 31
1395707 TTGGTTTTAT
* *
1395717 CCTTTTCTGAAAGCCTACAAAAGTTGGTGGCAA
1 CCTTTTC--AAAGCCCACAAAAGTTAGTGGCAA
* * *
1395750 CCCCATTT-AAAGCCCACACAAGTCCA-TGGCAA
1 --CCTTTTCAAAGCCCACAAAAGT-TAGTGGCAA
*
1395782 CCTTTTCAAAGCCCACATAAGTTAGTGGCAA
1 CCTTTTCAAAGCCCACAAAAGTTAGTGGCAA
1395813 CC
1 CC
1395815 CTCTCACACA
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
30 6 0.12
31 22 0.42
32 19 0.37
35 5 0.10
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (31 bp):
CCTTTTCAAAGCCCACAAAAGTTAGTGGCAA
Found at i:1396204 original size:52 final size:52
Alignment explanation
Indices: 1396144--1396255 Score: 163
Period size: 52 Copynumber: 2.2 Consensus size: 52
1396134 TCCTTCTAAG
*
1396144 TCCAATGTTATTGGCCTTGAA-CTAGCACATTGGCATTCCTTTCATCTTTAAA
1 TCCAATGTTATTGGCCTTGAATC-AGCACATTGGCATTCCTTTCATCTTCAAA
* * * *
1396196 TCCAATGTTGTTGGCCTTGAATCAGCACATTGGTATTCTTTTCATCTTCAAG
1 TCCAATGTTATTGGCCTTGAATCAGCACATTGGCATTCCTTTCATCTTCAAA
1396248 TCCAATGT
1 TCCAATGT
1396256 CGCTAGTCAT
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
52 53 0.98
53 1 0.02
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.39
Consensus pattern (52 bp):
TCCAATGTTATTGGCCTTGAATCAGCACATTGGCATTCCTTTCATCTTCAAA
Found at i:1400498 original size:52 final size:53
Alignment explanation
Indices: 1400347--1401107 Score: 262
Period size: 52 Copynumber: 14.8 Consensus size: 53
1400337 TACCGATATA
* * * * * *
1400347 CTGATTCAAGGCCAGTGATATTAGG-CTTA-AAGATGACAATGGTGCCAATGTG
1 CTGATTCAAGGCTAGTAACATT-GGACTTAGAAGATGAAAAAGATGCCAATGTG
* *
1400399 CTG-TTCAAGGCTAGTAACATTAGACTT-GAAGATG-AAAAGAATACCAATGTG
1 CTGATTCAAGGCTAGTAACATTGGACTTAGAAGATGAAAAAG-ATGCCAATGTG
* * * ** *
1400450 CTGATTCAAGGCTAGTGACATTGGGCTTAGGA-ATGTTAAAGATGCCAATATG
1 CTGATTCAAGGCTAGTAACATTGGACTTAGAAGATGAAAAAGATGCCAATGTG
* * * * * *
1400502 TTGATTCAAGGCTAGCAATATTGGACTTAAGAA-A-GAGAAAGGTGCCAATGTA
1 CTGATTCAAGGCTAGTAACATTGGACTT-AGAAGATGAAAAAGATGCCAATGTG
* * * * **
1400554 CTGATTCAAGGCCAGTGACATTGGACTTA-AAGATGACAAAGGTGCCAACATG
1 CTGATTCAAGGCTAGTAACATTGGACTTAGAAGATGAAAAAGATGCCAATGTG
* ** * * *
1400606 CTGATTCAAGGCCAGCGATATTGGACTTA-AAAACG--AAA-A----AATGTG
1 CTGATTCAAGGCTAGTAACATTGGACTTAGAAGATGAAAAAGATGCCAATGTG
* * * * * *
1400651 CTAATTCAAGGC-CGACAACATTTGACTTA-AAGAT-AATAAATG-CGCCAATATG
1 CTGATTCAAGGCTAG-TAACATTGGACTTAGAAGATGAA-AAA-GATGCCAATGTG
* ** * * * *
1400703 CTGATTCAAGGCCAGCGATATTGGACTTA-AAGATGATAAAGGTGCCAATATG
1 CTGATTCAAGGCTAGTAACATTGGACTTAGAAGATGAAAAAGATGCCAATGTG
* * * * * *
1400755 CTGATTCAAGGCCAATGATATTAGACTTAAGAA-A-GAAAAAGATGCCAATGTA
1 CTGATTCAAGGCTAGTAACATTGGACTT-AGAAGATGAAAAAGATGCCAATGTG
* * * * * * *
1400807 CTAATTCAACGCCA-TCGACATTGGAATTA-AAGATGACAAAA-ACGCCAATATG
1 CTGATTCAAGGCTAGT-AACATTGGACTTAGAAGATGA-AAAAGATGCCAATGTG
* * * * * *** * *
1400859 TTGGTTCAAGGCCA-TCGACATTGGACTT-GAAGATGACAAAGGCACCAGTATG
1 CTGATTCAAGGCTAGT-AACATTGGACTTAGAAGATGAAAAAGATGCCAATGTG
* * ** * * * *
1400911 CTAATTCAAGGCGAGCGATATTGGACTTAAGAA-A-GAAAAAGGTGCCAATATA
1 CTGATTCAAGGCTAGTAACATTGGACTT-AGAAGATGAAAAAGATGCCAATGTG
* * * ** * * * *
1400963 CTAATTCTAGGCCAGCGACATTGGACTT-GAAGATGACAAAGGTGCTAATATG
1 CTGATTCAAGGCTAGTAACATTGGACTTAGAAGATGAAAAAGATGCCAATGTG
* * * *** * * *
1401015 TTCATTCAAGGCCAACGATATTGGACTTAAGAA-A-GAAAAAGGTGCCAATGTA
1 CTGATTCAAGGCTAGTAACATTGGACTT-AGAAGATGAAAAAGATGCCAATGTG
* ** * *
1401067 CTGATTCGAGGGC-AGCGACATTGGGCTTA-AAGATGATAAAG
1 CTGATTC-AAGGCTAGTAACATTGGACTTAGAAGATGAAAAAG
1401108 GCGTGAATAT
Statistics
Matches: 555, Mismatches: 114, Indels: 80
0.74 0.15 0.11
Matches are distributed among these distances:
44 1 0.00
45 29 0.05
47 3 0.01
50 16 0.03
51 48 0.09
52 426 0.77
53 24 0.04
54 8 0.01
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (53 bp):
CTGATTCAAGGCTAGTAACATTGGACTTAGAAGATGAAAAAGATGCCAATGTG
Found at i:1400892 original size:156 final size:155
Alignment explanation
Indices: 1400555--1401096 Score: 591
Period size: 156 Copynumber: 3.5 Consensus size: 155
1400545 GCCAATGTAC
*
1400555 TGATTCAAGGCCAGT-GACATTGGACTTAAAGATGACAAAGGTGCCAACATGCTGATTCAAGGCC
1 TGATTCAAGGCCA-TCGACATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCC
* *
1400619 AGCGATATTGGACTTAA-AAACGAAAAA-ATG----TG--CTAATTCAAGGCCGACAACATTTGA
65 AGCGATATTGGACTTAAGAAA-GAAAAAGATGCCAATGTACTAATTCAAGGCC-ACGACATTGGA
* * * *
1400676 CTTAAAGATAATAAATGCGCCAATATGC
128 CTTAAAGATGACAAAAGCGCCAATATGT
* * *
1400704 TGATTCAAGGCCAGCGATATTGGACTTAAAGATGATAAAGGTGCCAATATGCTGATTCAAGGCCA
1 TGATTCAAGGCCATCGACATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCA
** * * *
1400769 ATGATATTAGACTTAAGAAAGAAAAAGATGCCAATGTACTAATTCAACGCCATCGACATTGGAAT
66 GCGATATTGGACTTAAGAAAGAAAAAGATGCCAATGTACTAATTCAAGGCCA-CGACATTGGACT
*
1400834 TAAAGATGACAAAAACGCCAATATGT
130 TAAAGATGACAAAAGCGCCAATATGT
* * ** * * *
1400860 TGGTTCAAGGCCATCGACATTGGACTTGAAGATGACAAAGGCACCAGTATGCTAATTCAAGGCGA
1 TGATTCAAGGCCATCGACATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCA
* * *
1400925 GCGATATTGGACTTAAGAAAGAAAAAGGTGCCAATATACTAATTCTAGGCCAGCGACATTGGACT
66 GCGATATTGGACTTAAGAAAGAAAAAGATGCCAATGTACTAATTCAAGGCCA-CGACATTGGACT
* * * *
1400990 TGAAGATGACAAAGGTGCTAATATGT
130 TAAAGATGACAAAAGCGCCAATATGT
* * * * * * * * *
1401016 TCATTCAAGGCCAACGATATTGGACTT-AAGAAAGAAAAAGGTGCCAATGTACTGATTCGAGGGC
1 TGATTCAAGGCCATCGACATTGGACTTAAAG-ATGACAAAGGTGCCAATATGCTGATTCAAGGCC
* *
1401080 AGCGACATTGGGCTTAA
65 AGCGATATTGGACTTAA
1401097 AGATGATAAA
Statistics
Matches: 325, Mismatches: 57, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
149 79 0.24
150 6 0.02
154 2 0.01
155 4 0.01
156 234 0.72
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (155 bp):
TGATTCAAGGCCATCGACATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCCA
GCGATATTGGACTTAAGAAAGAAAAAGATGCCAATGTACTAATTCAAGGCCACGACATTGGACTT
AAAGATGACAAAAGCGCCAATATGT
Found at i:1401108 original size:52 final size:52
Alignment explanation
Indices: 1400649--1401147 Score: 380
Period size: 52 Copynumber: 9.6 Consensus size: 52
1400639 CGAAAAAATG
* * * * *
1400649 TGCTAATTCAAGGCC-GACAACATTTGACTTAAAGAT-AATAAATGCGCCAATA
1 TGCTGATTCAAGGCCAG-CGACATTGGACTTAAAGATGAA-AAAGGTGCCAATA
* *
1400701 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGATAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAAGGTGCCAATA
** * * * * *
1400753 TGCTGATTCAAGGCCAATGATATTAGACTT-AAGAAAGAAAAAGATGCCAATG
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAG-ATGAAAAAGGTGCCAATA
* * * * * **
1400805 TACTAATTCAACGCCATCGACATTGGAATTAAAGATGACAAAA-ACGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGA-AAAAGGTGCCAATA
* * * * * ** *
1400857 TGTTGGTTCAAGGCCATCGACATTGGACTTGAAGATGACAAAGGCACCAGTA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAAGGTGCCAATA
* * * *
1400909 TGCTAATTCAAGGCGAGCGATATTGGACTT-AAGAAAGAAAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAG-ATGAAAAAGGTGCCAATA
* * * * * *
1400961 TACTAATTCTAGGCCAGCGACATTGGACTTGAAGATGACAAAGGTGCTAATA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAAGGTGCCAATA
* * * * * *
1401013 TGTTCATTCAAGGCCAACGATATTGGACTT-AAGAAAGAAAAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAG-ATGAAAAAGGTGCCAATA
* * * * * * **
1401065 TACTGATTCGAGGGCAGCGACATTGGGCTTAAAGATGATAAAGGCGTGAATA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAAGGTGCCAATA
* * * * *
1401117 TGCTAATTAAAGTCCAACGACATTCGACTTA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTA
1401148 GAAGGTGATG
Statistics
Matches: 350, Mismatches: 87, Indels: 20
0.77 0.19 0.04
Matches are distributed among these distances:
51 12 0.03
52 323 0.92
53 15 0.04
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (52 bp):
TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAAGGTGCCAATA
Found at i:1401108 original size:104 final size:103
Alignment explanation
Indices: 1400347--1401108 Score: 607
Period size: 104 Copynumber: 7.4 Consensus size: 103
1400337 TACCGATATA
* * * *
1400347 CTGATTCAAGGCCAGTGATATTAGG-CTTAAAGATGACAATGGTGCCAATGTGCTG-TTCAAGGC
1 CTGATTCAAGGCCAGCGACATT-GGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGC
* ** * * * * * *
1400410 TAGTAACATTAGACTTGAAGATG-AAAAGAATACCAATGTG
65 CAGCGATATTGGACTT-AAAAAGAAAAAG-GTGCCAATGTG
* * * * ** * *
1400450 CTGATTCAAGGCTAGTGACATTGGGCTT-AGGAATGTTAAAGATGCCAATATGTTGATTCAAGGC
1 CTGATTCAAGGCCAGCGACATTGGACTTAAAG-ATGACAAAGGTGCCAATATGCTGATTCAAGGC
* * * *
1400514 TAGCAATATTGGACTTAAGAAAGAGAAAGGTGCCAATGTA
65 CAGCGATATTGGACTTAA-AAAGAAAAAGGTGCCAATGTG
* *
1400554 CTGATTCAAGGCCAGTGACATTGGACTTAAAGATGACAAAGGTGCCAACATGCTGATTCAAGGCC
1 CTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCC
1400619 AGCGATATTGGACTTAAAAACG-AAAA------AATGTG
66 AGCGATATTGGACTTAAAAA-GAAAAAGGTGCCAATGTG
* * * * * * *
1400651 CTAATTCAAGGCC-GACAACATTTGACTTAAAGATAATAAATGCGCCAATATGCTGATTCAAGGC
1 CTGATTCAAGGCCAG-CGACATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGC
* * *
1400715 CAGCGATATTGGACTTAAAGATGATAAAGGTGCCAATATG
65 CAGCGATATTGGACTTAAA-AAGAAAAAGGTGCCAATGTG
** * * * * * * * * *
1400755 CTGATTCAAGGCCAATGATATTAGACTT-AAGAAAGAAAAAGATGCCAATGTACTAATTCAACGC
1 CTGATTCAAGGCCAGCGACATTGGACTTAAAG-ATGACAAAGGTGCCAATATGCTGATTCAAGGC
* * * * ** *
1400819 CATCGACATTGGAATTAAAGATGACAAAA-ACGCCAATATG
65 CAGCGATATTGGACTTAAA-AAGA-AAAAGGTGCCAATGTG
* * * * ** * * *
1400859 TTGGTTCAAGGCCATCGACATTGGACTTGAAGATGACAAAGGCACCAGTATGCTAATTCAAGGCG
1 CTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCC
* *
1400924 AGCGATATTGGACTTAAGAAAGAAAAAGGTGCCAATATA
66 AGCGATATTGGACTTAA-AAAGAAAAAGGTGCCAATGTG
* * * * * *
1400963 CTAATTCTAGGCCAGCGACATTGGACTTGAAGATGACAAAGGTGCTAATATGTTCATTCAAGGCC
1 CTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCC
* *
1401028 AACGATATTGGACTTAAGAAAGAAAAAGGTGCCAATGTA
66 AGCGATATTGGACTTAA-AAAGAAAAAGGTGCCAATGTG
* * * *
1401067 CTGATTCGAGGGCAGCGACATTGGGCTTAAAGATGATAAAGG
1 CTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGG
1401109 CGTGAATATG
Statistics
Matches: 530, Mismatches: 107, Indels: 43
0.78 0.16 0.06
Matches are distributed among these distances:
96 1 0.00
97 78 0.15
98 4 0.01
102 4 0.01
103 55 0.10
104 375 0.71
105 13 0.02
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (103 bp):
CTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGCCAATATGCTGATTCAAGGCC
AGCGATATTGGACTTAAAAAGAAAAAGGTGCCAATGTG
Found at i:1401192 original size:32 final size:33
Alignment explanation
Indices: 1401156--1401468 Score: 166
Period size: 32 Copynumber: 9.7 Consensus size: 33
1401146 TAGAAGGTGA
* *
1401156 TGCCACCAACTTGTGTGTGCTTTT-CAGAGGGT
1 TGCCACCAACTTGTGTGGGCTTTTAAAGAGGGT
* *
1401188 TGCCACTAACTTATGTGGGCTTTTAAAGAGGGT
1 TGCCACCAACTTGTGTGGGCTTTTAAAGAGGGT
* *
1401221 TGCCACCGACTTGTGTGGGCTTTAAAAG-GGGT
1 TGCCACCAACTTGTGTGGGCTTTTAAAGAGGGT
* * * **
1401253 TACCACCGACTTATGTGGGC-TTTGGAGAAGGGT
1 TGCCACCAACTTGTGTGGGCTTTTAAAG-AGGGT
* ** * *
1401286 TACCACTGACTTGTGTGGGCTGTTAGA-AGGGT
1 TGCCACCAACTTGTGTGGGCTTTTAAAGAGGGT
* *
1401318 TACCACCAA-TTG-GTGCAGGC-TTTAGAA-ATGGGC
1 TGCCACCAACTTGTGTG--GGCTTTTA-AAGA-GGGT
**** * *
1401351 TGCCATTGGCTTGTGTGGGCTTCTGAAGA-GGT
1 TGCCACCAACTTGTGTGGGCTTTTAAAGAGGGT
* *
1401383 TGCCACTAACTTGTGTGAGC-TTTAGAAGA-GGT
1 TGCCACCAACTTGTGTGGGCTTTTA-AAGAGGGT
**** * *
1401415 TGCCATTGGCTCGTGTGGGC-TTT-GAGAGGGT
1 TGCCACCAACTTGTGTGGGCTTTTAAAGAGGGT
** *
1401446 TGCCACTGACTTGTGTAGGCTTT
1 TGCCACCAACTTGTGTGGGCTTT
1401469 AGAGAAAAAA
Statistics
Matches: 220, Mismatches: 46, Indels: 30
0.74 0.16 0.10
Matches are distributed among these distances:
30 6 0.03
31 31 0.14
32 105 0.48
33 65 0.30
34 10 0.05
35 3 0.01
ACGTcount: A:0.19, C:0.18, G:0.32, T:0.31
Consensus pattern (33 bp):
TGCCACCAACTTGTGTGGGCTTTTAAAGAGGGT
Done.