Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold138
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: 1735418
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Warning! 2489 characters in sequence are not A, C, G, or T
File 9 of 11
Found at i:1239453 original size:19 final size:19
Alignment explanation
Indices: 1239429--1239492 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
1239419 TTTCAGCGAT
1239429 TTGTATCGATACATAAGTA
1 TTGTATCGATACATAAGTA
1239448 TTGTATCGATAC---A--A
1 TTGTATCGATACATAAGTA
*
1239462 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTA
1239480 TTGTATCGATACA
1 TTGTATCGATACA
1239493 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
19 24 0.63
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACATAAGTA
Found at i:1239466 original size:32 final size:32
Alignment explanation
Indices: 1239430--1239500 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
1239420 TTCAGCGATT
1239430 TGTATCGATACATAAGTATTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
*
1239462 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1239494 TGTATCG
1 TGTATCG
1239501 CTAGGAAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1239467 original size:13 final size:13
Alignment explanation
Indices: 1239449--1239473 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1239439 ACATAAGTAT
1239449 TGTATCGATACAA
1 TGTATCGATACAA
1239462 TGTATCGATACA
1 TGTATCGATACA
1239474 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1239562 original size:13 final size:13
Alignment explanation
Indices: 1239544--1239569 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1239534 CATTTTTCTG
1239544 TGTATCGATACAT
1 TGTATCGATACAT
1239557 TGTATCGATACAT
1 TGTATCGATACAT
1239570 GGATCTTTGT
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:1239566 original size:33 final size:33
Alignment explanation
Indices: 1239524--1239590 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1239514 GCCAAGGAAA
***
1239524 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1239557 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
1239590 T
1 T
1239591 TGGGAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:1242046 original size:51 final size:51
Alignment explanation
Indices: 1241936--1242051 Score: 137
Period size: 51 Copynumber: 2.3 Consensus size: 51
1241926 AATTCTTCGC
* * *
1241936 AATCGGGGATATTCAAACTCTGATTTTATTTCTAAAACACCCATTTTCCAT
1 AATCGGGGATATTCAAACTCCGATTTTATTTCCAAAACACCCATTTTCCAA
* * * *
1241987 AATTGGGGATACTTC-AACTCCGATTTTATTTCCAAAGCATCGACTTTT-CAA
1 AATCGGGGATA-TTCAAACTCCGATTTTATTTCCAAAACACCCA-TTTTCCAA
1242038 AATCGGGGATATTC
1 AATCGGGGATATTC
1242052 CAACCCCGTT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
50 3 0.05
51 45 0.82
52 7 0.13
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (51 bp):
AATCGGGGATATTCAAACTCCGATTTTATTTCCAAAACACCCATTTTCCAA
Found at i:1242218 original size:103 final size:105
Alignment explanation
Indices: 1242039--1242233 Score: 250
Period size: 103 Copynumber: 1.9 Consensus size: 105
1242029 ACTTTTCAAA
* ** * ** * *
1242039 ATCGGGGATATTCCAACCCCGTTATTTCTGAGGGGACACTCCAACCCCGGTTTTGTTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGACACTCCAACCCCGACTTTATTTCCAAAAC
1242104 ATCAATTTTTCAT-T-GGGGATACTCCAACTCCGTTAATC
66 ATCAATTTTTCATATCGGGGATACTCCAACTCCGTTAATC
* * *
1242142 ATCGGGGATACTCCAACCTCGTTACCTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAAT
1 ATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGACACTCCAACCCCGACTTTATTTCCAAAAC
**
1242207 ATTGATTTTTCATAATCGGGGATACTC
66 ATCAATTTTTCAT-ATCGGGGATACTC
1242234 AAACCCCGGT
Statistics
Matches: 76, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
103 65 0.86
105 1 0.01
106 10 0.13
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (105 bp):
ATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGACACTCCAACCCCGACTTTATTTCCAAAAC
ATCAATTTTTCATATCGGGGATACTCCAACTCCGTTAATC
Found at i:1242239 original size:51 final size:51
Alignment explanation
Indices: 1242173--1242393 Score: 253
Period size: 51 Copynumber: 4.3 Consensus size: 51
1242163 TTACCTCCGA
* * *** *
1242173 GGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATC
* * * * *
1242224 GGGGATACTCAAACCCCGGTTTTATTGCTAAAACACTAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATC
* * **
1242275 GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTC-ACAATC
* * *
1242327 GGGGATACTCAAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCC-AAAACACCAATTTTTCACAATC
*
1242379 GAGGATACTCCAACC
1 GGGGATACTCCAACC
1242394 TCGTTATTTC
Statistics
Matches: 140, Mismatches: 28, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
51 80 0.57
52 46 0.33
53 14 0.10
ACGTcount: A:0.31, C:0.25, G:0.12, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTTCACAATC
Found at i:1242526 original size:28 final size:29
Alignment explanation
Indices: 1242486--1242540 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
1242476 TCTCATAATT
1242486 GGGGACACTCCAACCCCG-TTATTTTCGA
1 GGGGACACTCCAACCCCGATTATTTTCGA
* * *
1242514 GGGGATACTCCAATCCCGATTTTTTTC
1 GGGGACACTCCAACCCCGATTATTTTC
1242541 TAATCATCGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.20, C:0.29, G:0.20, T:0.31
Consensus pattern (29 bp):
GGGGACACTCCAACCCCGATTATTTTCGA
Found at i:1248966 original size:55 final size:54
Alignment explanation
Indices: 1248716--1250049 Score: 1295
Period size: 55 Copynumber: 23.6 Consensus size: 54
1248706 CCTTTTTTCT
* * *
1248716 TTTTAAAGCCCACACAAGTTGGTGGCACCTT-TAGTCCTCAAAAAGTAGGACGCCTTTTCC
1 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACG------CC
* *
1248776 TTTTAAAGCCCACACAAGTTGGTGGCACCTT-TAGTCCTCAAAGAGCAAGACGCC
1 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACGCC
*
1248830 TTTTAAAGCCCACACAAGTTGGTGGCACTTCCAGTCCTCAAAGAGTAGGACGCCTTCTCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTCCAGTCCTCAAAGAGCAGGACG------CC
* * * *
1248890 TTTTAAAGCCCACATAAGTTGGTGGCACTTCCTAATCCTCAAAGAGTAGGATGCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTCC-AGTCCTCAAAGAGCAGGACGCC
*
1248945 TTTTAAAGCCCACA-AGTGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTC
1 TTTTAAAGCCCACACA-AGTTGGTGGCACTT-CCAGTCCTCAAAGAGCAGGACG----C-C
*
1249005 TTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCTTCAAAGAGCAGGACGCC
1 -TTTTAAAGCCCACACAAGTTGGTGGCACTTCC-AGTCCTCAAAGAGCAGGACGCC
*
1249061 TTTTAAAGCCCACACAAGTTGGTGGCACTTCCCTAATCCTCAAAGAGCAGGACGCCTTCTCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACTT-CC-AGTCCTCAAAGAGCAGGACG------CC
* * * *
1249123 TTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAATTCTCAAAAAGCAGGATGCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTCC-AGTCCTCAAAGAGCAGGACGCC
*
1249178 TTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGCGGGACGCATTTTC
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTCC-AGTCCTCAAAGAGCAGGACGC-----C
* * *
1249238 TTTTAAAGCCCACACAAGTTGGTGACATTTTCCAGTCCTCAAAGAGCAGGATGCCGTTTC
1 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGA---CG--CC
* * *
1249298 TTTTAAAGCCCATACAAGTTGGTGGCACCTT-CAGTCCTCAAAAAGCAGGACACC
1 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACGCC
* *
1249352 TTTTAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTC
1 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACG-C----C
* *
1249412 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAACAGGACGCTTTTTC
1 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACGC-----C
* *
1249472 TTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAAAGCAGGATGCTTTTTC
1 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACGC-----C
* * * * *
1249531 TTTTCAAAGCCCACACAAATTGGTGGCACCTTTCAGTCCCCAAAGAGCAAGACCCC
1 TTTT-AAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACGCC
* * * * *
1249587 TTTCAAAGCCTACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACACC
1 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACGCC
* * * * * *
1249642 TTTCAAAGCCAACACAAGTTGGTGGCATTTTCAAGTCCTCAAAGAGCAAGACACC
1 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACGCC
* * * *
1249697 TCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACC
1 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACGCC
* * *
1249752 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACGCC
* * * *
1249807 TCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACC
1 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACGCC
* * * * * *
1249862 TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAACATGACACC
1 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACGCC
* * * *
1249917 TTTCAAAGCCCACACAAGTTGGTGGTA-TT----TTC-CAAAGAGCAGGACACC
1 TTTTAAAGCCCACACAAGTTGGTGGCACTTCCAGTCCTCAAAGAGCAGGACGCC
* *
1249965 TCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCC
1 TTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCAGTCCTCAAAGAGCAGGACGCC
* *
1250020 TTTCAAAGCCCACACGAGTTGGTGGCACTT
1 TTTTAAAGCCCACACAAGTTGGTGGCACTT
1250050 TTTAGTCCTC
Statistics
Matches: 1113, Mismatches: 109, Indels: 110
0.84 0.08 0.08
Matches are distributed among these distances:
48 38 0.03
49 2 0.00
50 2 0.00
53 5 0.00
54 82 0.07
55 495 0.44
56 30 0.03
57 1 0.00
59 49 0.04
60 269 0.24
61 105 0.09
62 33 0.03
63 2 0.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (54 bp):
TTTTAAAGCCCACACAAGTTGGTGGCACTTCCAGTCCTCAAAGAGCAGGACGCC
Found at i:1249755 original size:26 final size:26
Alignment explanation
Indices: 1249722--1249866 Score: 75
Period size: 26 Copynumber: 5.3 Consensus size: 26
1249712 AAGTTGGTGG
1249722 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCCCAAAGAGCAGGA
* **
1249748 CACCTTTCAAAG-CCCACACAAGTTGGTGG-
1 CACCTTTC--AGTCCC-CA-AAG-AGCAGGA
* *
1249777 CA-TTTTCCAGTCCTCAAAGAGCAGGA
1 CACCTTT-CAGTCCCCAAAGAGCAGGA
* * **
1249803 CACCTCTTAAAG-CCCACACAAGTTGGTGG-
1 CACCT-TT-CAGTCCC-CA-AAG-AGCAGGA
1249832 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCCCAAAGAGCAGGA
1249858 CACCTTTCA
1 CACCTTTCA
1249867 AAGCCCACAC
Statistics
Matches: 85, Mismatches: 19, Indels: 30
0.63 0.14 0.22
Matches are distributed among these distances:
25 6 0.07
26 25 0.29
27 14 0.16
28 20 0.24
29 14 0.16
30 6 0.07
ACGTcount: A:0.29, C:0.32, G:0.19, T:0.20
Consensus pattern (26 bp):
CACCTTTCAGTCCCCAAAGAGCAGGA
Found at i:1250057 original size:55 final size:55
Alignment explanation
Indices: 1249949--1250062 Score: 176
Period size: 55 Copynumber: 2.1 Consensus size: 55
1249939 TGGTATTTTC
1249949 CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
1 CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
* * * *
1250004 CAAAGAGCAGGACGCCT-TTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCT
1 CAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
1250059 CAAA
1 CAAA
1250063 AAATAGGATA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 2 0.04
55 52 0.96
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (55 bp):
CAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCT
Found at i:1250849 original size:21 final size:21
Alignment explanation
Indices: 1250811--1250874 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
1250801 GAAAAAAAAA
* *
1250811 ATTATCCAAATATATCGATAC
1 ATTATACAAATGTATCGATAC
* *
1250832 ATTTGTA-GAATGTATCGATAC
1 A-TTATACAAATGTATCGATAC
1250853 ATTATACAAATGTATCGATAC
1 ATTATACAAATGTATCGATAC
1250874 A
1 A
1250875 AGGTCCCAAC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 4 0.11
21 28 0.80
22 3 0.09
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (21 bp):
ATTATACAAATGTATCGATAC
Found at i:1250935 original size:19 final size:19
Alignment explanation
Indices: 1250911--1250974 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
1250901 TTTCAACGAT
1250911 TTGTATCGATACATAAGTA
1 TTGTATCGATACATAAGTA
1250930 TTGTATCGATAC---A--A
1 TTGTATCGATACATAAGTA
*
1250944 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTA
1250962 TTGTATCGATACA
1 TTGTATCGATACA
1250975 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
19 24 0.63
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACATAAGTA
Found at i:1250948 original size:32 final size:32
Alignment explanation
Indices: 1250912--1250982 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
1250902 TTCAACGATT
1250912 TGTATCGATACATAAGTATTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
*
1250944 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1250976 TGTATCG
1 TGTATCG
1250983 CTAGGAAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1250949 original size:13 final size:13
Alignment explanation
Indices: 1250931--1250955 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1250921 ACATAAGTAT
1250931 TGTATCGATACAA
1 TGTATCGATACAA
1250944 TGTATCGATACA
1 TGTATCGATACA
1250956 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1251044 original size:13 final size:13
Alignment explanation
Indices: 1251026--1251051 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1251016 CATTTTTCTG
1251026 TGTATCGATACAT
1 TGTATCGATACAT
1251039 TGTATCGATACAT
1 TGTATCGATACAT
1251052 GGATCTTTGT
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:1253702 original size:103 final size:105
Alignment explanation
Indices: 1253523--1253721 Score: 240
Period size: 103 Copynumber: 1.9 Consensus size: 105
1253513 ACTTTTCACA
* ** * * * * * *
1253523 ATCGGGGATATTCCAACCCCGTTATTTCTGAGGGGACACTCCAACCCCGATTTTGTTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTACCTCCGAAGGGACACTCCAACCCCAACTTTATTTCCAAAAC
1253588 ATCAATTTTTCAT-T-GGAGATACTCCAACTCCTTTAATC
66 ATCAATTTTTCATATCGGAGATACTCCAACTCCTTTAATC
* * *
1253626 ATCGGGGATACTCCAACCTCGTTACCTCCGAAGGGATACTCCAACCCCAACTTTATTTCCAAAAT
1 ATCGGGGATACTCCAACCCCGTTACCTCCGAAGGGACACTCCAACCCCAACTTTATTTCCAAAAC
** *
1253691 ATTGATTTTTCATAATCGGGGATACTCCAAC
66 ATCAATTTTTCAT-ATCGGAGATACTCCAAC
1253722 CCCGATTTTA
Statistics
Matches: 78, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
103 64 0.82
105 1 0.01
106 13 0.17
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.31
Consensus pattern (105 bp):
ATCGGGGATACTCCAACCCCGTTACCTCCGAAGGGACACTCCAACCCCAACTTTATTTCCAAAAC
ATCAATTTTTCATATCGGAGATACTCCAACTCCTTTAATC
Found at i:1253719 original size:51 final size:51
Alignment explanation
Indices: 1253658--1253878 Score: 244
Period size: 52 Copynumber: 4.3 Consensus size: 51
1253648 TACCTCCGAA
* * *** *
1253658 GGGATACTCCAACCCCAACTTTATTTCCAAAATATTGATTTTTCATAATCG
1 GGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTTCACAATCG
* * * *
1253709 GGGATACTCCAACCCCGATTTTATTACTAAAACACTAATTTTTTCACAATCG
1 GGGATACTCCAACCCCAATTTTATTTCCAAAACACCAA-TTTTTCACAATCG
* * **
1253761 GGGATACTCCAACCCCAATTTTATTTTCAAAACACCAATTTTCCTTTAATCG
1 GGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTTC-ACAATCG
* * * *
1253813 GGGATACTCAAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCG
1 GGGATACTCCAACCCCAATTTTATTTCC-AAAACACCAATTTTTCACAATCG
*
1253865 AGGATACTCCAACC
1 GGGATACTCCAACC
1253879 TCGTTATTTC
Statistics
Matches: 140, Mismatches: 27, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
51 36 0.26
52 90 0.64
53 14 0.10
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.33
Consensus pattern (51 bp):
GGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTTTCACAATCG
Found at i:1253860 original size:104 final size:103
Alignment explanation
Indices: 1253658--1253878 Score: 282
Period size: 104 Copynumber: 2.1 Consensus size: 103
1253648 TACCTCCGAA
* *** * *
1253658 GGGATACTCCAACCCCAACTTTATTTCCAAAATATTGATTTTTCATAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCAACTTTATTTCCAAAACACCAATTTTCCATAATCGGGGATACTCAAACC
* *
1253723 CCGATTTTATTACTAAAACACTAATTTTTTCACAATCG
66 CCGATTTTATTACAAAAACACCAATTTTTTCACAATCG
* * *
1253761 GGGATACTCCAACCCCAATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACTCAAAC
1 GGGATACTCCAACCCCAACTTTATTTCCAAAACACCAATTTTCC-ATAATCGGGGATACTCAAAC
* * *
1253826 TCCGATTTTATTTCCAAAAATACCAA-TTTTTCACAATCG
65 CCCGATTTTA-TTACAAAAACACCAATTTTTTCACAATCG
*
1253865 AGGATACTCCAACC
1 GGGATACTCCAACC
1253879 TCGTTATTTC
Statistics
Matches: 101, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
103 37 0.37
104 53 0.52
105 11 0.11
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.33
Consensus pattern (103 bp):
GGGATACTCCAACCCCAACTTTATTTCCAAAACACCAATTTTCCATAATCGGGGATACTCAAACC
CCGATTTTATTACAAAAACACCAATTTTTTCACAATCG
Found at i:1253897 original size:28 final size:29
Alignment explanation
Indices: 1253861--1253937 Score: 104
Period size: 28 Copynumber: 2.7 Consensus size: 29
1253851 ATTTTTCACA
* * *
1253861 ATCGAGGATACTCCAACCTCGTTA-TTTC
1 ATCGGGGATACTCCAACCCCGTTACTTCC
1253889 ATCGGGGATACTCCAACCCCGTTACTTCC
1 ATCGGGGATACTCCAACCCCGTTACTTCC
*
1253918 A-AGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
1253938 GTTTTATTCC
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 40 0.91
29 4 0.09
ACGTcount: A:0.25, C:0.34, G:0.18, T:0.23
Consensus pattern (29 bp):
ATCGGGGATACTCCAACCCCGTTACTTCC
Found at i:1253987 original size:79 final size:79
Alignment explanation
Indices: 1253891--1254123 Score: 217
Period size: 77 Copynumber: 3.0 Consensus size: 79
1253881 GTTATTTCAT
*
1253891 CGGGGATACTCCAACCCCGTTACTTCCAAGGGGATACTCCAACCCCGGTTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGGTTTTATTCCCAAAATAT
*
1253956 TGATTTCTCATAAT
66 TGATTTCTCATAAC
* * * * * ***
1253970 TGGGGATACTCCAACCCCGTTATTTTCGAA-GGGATACTCCAATCCTGATTTT-TT--TTTAATC
1 CGGGGATACTCCAACCCCGTTA-TTTCCAAGGGGATACTCCAACCCCGGTTTTATTCCCAAAAT-
* *
1254031 ATCGATTTCTCACAAC
64 ATTGATTTCTCATAAC
* * * * *
1254047 CGGGGATACTCCAACCCAGTTATTTTCAAGGGAACACTCCAACCCC-GTTATTA-TCTCCAAAAC
1 CGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGGTT-TTATTC-CCAAAAT
*
1254110 ATTAAATTTCTCAT
64 ATT-GATTTCTCAT
1254124 CGAGAAATAT
Statistics
Matches: 117, Mismatches: 28, Indels: 17
0.72 0.17 0.10
Matches are distributed among these distances:
76 10 0.09
77 48 0.41
78 2 0.02
79 42 0.36
80 15 0.13
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.31
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGGTTTTATTCCCAAAATAT
TGATTTCTCATAAC
Found at i:1254004 original size:107 final size:107
Alignment explanation
Indices: 1253812--1254011 Score: 251
Period size: 107 Copynumber: 1.9 Consensus size: 107
1253802 TCCTTTAATC
* *
1253812 GGGGATACTCAAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCAAACCCCGATTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
1253877 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCAA
66 CCCCGTTATTT-ATCGGGGATACTCCAACCCCGTTACTTCCAA
* * * *** * * *
1253920 GGGGATACTCCAACCCCGGTTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCAAACCCCGATTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
1253984 CCCCGTTATTT-TCGAAGGGATACTCCAA
66 CCCCGTTATTTATCG--GGGATACTCCAA
1254012 TCCTGATTTT
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
105 3 0.04
107 54 0.69
108 21 0.27
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (107 bp):
GGGGATACTCAAACCCCGATTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
CCCCGTTATTTATCGGGGATACTCCAACCCCGTTACTTCCAA
Found at i:1255477 original size:28 final size:27
Alignment explanation
Indices: 1255411--1255483 Score: 101
Period size: 27 Copynumber: 2.7 Consensus size: 27
1255401 AAAAACCACT
1255411 CTTTGTGTTTGTCAAAAATGGTGATTA
1 CTTTGTGTTTGTCAAAAATGGTGATTA
* * *
1255438 CTTTGTATTTGTCAAAAATGGTGGTTC
1 CTTTGTGTTTGTCAAAAATGGTGATTA
*
1255465 CTTTTTTGTTTGTCAAAAA
1 C-TTTGTGTTTGTCAAAAA
1255484 CTGTTCCTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 25 0.62
28 15 0.38
ACGTcount: A:0.25, C:0.10, G:0.19, T:0.47
Consensus pattern (27 bp):
CTTTGTGTTTGTCAAAAATGGTGATTA
Found at i:1255591 original size:13 final size:13
Alignment explanation
Indices: 1255575--1255627 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 13
1255565 CTTCTCTCTC
* *
1255575 TCTTGTATCTCTT
1 TCTTGGATCCCTT
*
1255588 TCTTGGATCACTT
1 TCTTGGATCCCTT
*
1255601 TCTTGGATCCCTC
1 TCTTGGATCCCTT
*
1255614 TCTTGTATCCCTT
1 TCTTGGATCCCTT
1255627 T
1 T
1255628 TTAATTCTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.09, C:0.28, G:0.11, T:0.51
Consensus pattern (13 bp):
TCTTGGATCCCTT
Found at i:1257201 original size:27 final size:26
Alignment explanation
Indices: 1257148--1257237 Score: 103
Period size: 27 Copynumber: 3.5 Consensus size: 26
1257138 TAGTCACCAA
1257148 TTTTGACAAAC-AAAA-AACCACAAT
1 TTTTGACAAACAAAAAGAACCACAAT
*
1257172 TTTTGACAAACAAAAAGGAACCACTAT
1 TTTTGACAAACAAAAA-GAACCACAAT
* * *
1257199 TTTTGACAAATACAAAGTAACCACCAT
1 TTTTGACAAACAAAAAG-AACCACAAT
*
1257226 TTTTAACAAACA
1 TTTTGACAAACA
1257238 CGAAAAGTGA
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
24 11 0.20
25 4 0.07
26 1 0.02
27 40 0.71
ACGTcount: A:0.49, C:0.20, G:0.07, T:0.24
Consensus pattern (26 bp):
TTTTGACAAACAAAAAGAACCACAAT
Found at i:1258874 original size:2 final size:2
Alignment explanation
Indices: 1258857--1258891 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
1258847 AGGTCCAACG
*
1258857 TA TA T- TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1258892 AACTACTAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1259127 original size:13 final size:12
Alignment explanation
Indices: 1259091--1259121 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
1259081 ATTTTATATT
1259091 TATAATTTTTAA
1 TATAATTTTTAA
1259103 TATAATTTTTAA
1 TATAATTTTTAA
1259115 -ATAATTT
1 TATAATTT
1259122 ATTTAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.37
12 12 0.63
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TATAATTTTTAA
Found at i:1260923 original size:21 final size:21
Alignment explanation
Indices: 1260894--1260936 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
1260884 AAAAAGTACC
*
1260894 ATAATAAAATATATTTTCATA
1 ATAAGAAAATATATTTTCATA
1260915 ATAAGAAAATATATTTTCATA
1 ATAAGAAAATATATTTTCATA
1260936 A
1 A
1260937 ATATAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (21 bp):
ATAAGAAAATATATTTTCATA
Found at i:1262911 original size:32 final size:33
Alignment explanation
Indices: 1262865--1262928 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
1262855 ATTTTAAAAT
1262865 ATATCAAAATCTATATAAA-ATA-AATTATTATC
1 ATATCAAAATCTATATAAATATATAA-TATTATC
*
1262897 ATATTAAAATCTATATAAATATATAATATTAT
1 ATATCAAAATCTATATAAATATATAATATTAT
1262929 AAATACTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 18 0.62
33 9 0.31
34 2 0.07
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (33 bp):
ATATCAAAATCTATATAAATATATAATATTATC
Found at i:1268393 original size:2 final size:2
Alignment explanation
Indices: 1268386--1268412 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1268376 TTCTCAACTC
1268386 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1268413 TATGGATGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:1273779 original size:19 final size:19
Alignment explanation
Indices: 1273748--1273792 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
1273738 ATTTACATGA
1273748 ATAAATAAATAT-AAATTAT
1 ATAAA-AAATATAAAATTAT
1273767 ATAAAAAATTATAAAATTAT
1 ATAAAAAA-TATAAAATTAT
1273787 ATAAAA
1 ATAAAA
1273793 TTAATTTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 3 0.12
19 8 0.33
20 13 0.54
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAAAAAATATAAAATTAT
Found at i:1273787 original size:18 final size:19
Alignment explanation
Indices: 1273748--1273792 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
1273738 ATTTACATGA
*
1273748 ATAAATAAA-TATAAATTAT
1 ATAAA-AAATTATAAAATAT
1273767 ATAAAAAATTATAAAATTAT
1 ATAAAAAATTATAAAA-TAT
1273787 ATAAAA
1 ATAAAA
1273793 TTAATTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 3 0.13
19 11 0.48
20 9 0.39
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAAAAAATTATAAAATAT
Found at i:1273863 original size:24 final size:24
Alignment explanation
Indices: 1273825--1273873 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
1273815 TAAAATATAT
*
1273825 AAATATATATATATAT-GACTCAA
1 AAATATATATATATATAGAATCAA
*
1273848 AAATATGATATGTATATAGAATCAA
1 AAATAT-ATATATATATAGAATCAA
1273873 A
1 A
1273874 CCCATACTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 6 0.27
24 9 0.41
25 7 0.32
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (24 bp):
AAATATATATATATATAGAATCAA
Found at i:1279005 original size:3 final size:3
Alignment explanation
Indices: 1278992--1279034 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
1278982 AAAGAAATAC
* *
1278992 AAG AA- AAG AAG AAG AAG GAG AAG AAG AAG AAG AAG AAA AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1279035 AGAGAAGGCC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:1279040 original size:15 final size:15
Alignment explanation
Indices: 1278992--1279041 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
1278982 AAAGAAATAC
*
1278992 AAGAAAAGAAGAAGA
1 AAGAGAAGAAGAAGA
*
1279007 AGGAGAAGAAGAAG-
1 AAGAGAAGAAGAAGA
*
1279021 -A-AGAAGAAAAAGA
1 AAGAGAAGAAGAAGA
1279034 AAGAGAAG
1 AAGAGAAG
1279042 GCCCGCGAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
12 10 0.36
14 1 0.04
15 17 0.61
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (15 bp):
AAGAGAAGAAGAAGA
Found at i:1279381 original size:2 final size:2
Alignment explanation
Indices: 1279374--1279411 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
1279364 TCAAAAGTGT
*
1279374 TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1279412 AAAATCCATC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1279470 original size:19 final size:18
Alignment explanation
Indices: 1279446--1279483 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
1279436 TTATAATAAT
1279446 AATTATAATATAATATTTA
1 AATTATAATATAAT-TTTA
*
1279465 AATTATATTATAATTTTA
1 AATTATAATATAATTTTA
1279483 A
1 A
1279484 TCTTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AATTATAATATAATTTTA
Found at i:1279489 original size:24 final size:24
Alignment explanation
Indices: 1279462--1279508 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
1279452 AATATAATAT
*
1279462 TTAAATTATATTATAATTTTAATC
1 TTAAATTATAATATAATTTTAATC
* * *
1279486 TTAATTTTTAATATTATTTTAAT
1 TTAAATTATAATATAATTTTAAT
1279509 AATTATAATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (24 bp):
TTAAATTATAATATAATTTTAATC
Found at i:1279534 original size:19 final size:20
Alignment explanation
Indices: 1279512--1279553 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
1279502 TTTTAATAAT
1279512 TATAATTAATATTA-AAATA
1 TATAATTAATATTATAAATA
1279531 TAT-ATTAATATTATAAATA
1 TATAATTAATATTATAAATA
1279550 TATA
1 TATA
1279554 GTAATTTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TATAATTAATATTATAAATA
Found at i:1279558 original size:19 final size:18
Alignment explanation
Indices: 1279518--1279558 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
1279508 TAATTATAAT
*
1279518 TAATATTAAAATATATAT
1 TAATATTAAAATATATAG
1279536 TAATATTATAAATATATAG
1 TAATATTA-AAATATATAG
1279555 TAAT
1 TAAT
1279559 TTAGATATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (18 bp):
TAATATTAAAATATATAG
Found at i:1281228 original size:30 final size:30
Alignment explanation
Indices: 1281153--1281233 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 30
1281143 TATCTTTAAT
* * * *
1281153 ATTTATTTAGGTATATATTAATGGTGAAAG
1 ATTTATTTAGATATAAATTAAAGATGAAAG
**
1281183 ATTT-TTTTCATATAAATTAAAGAT-ATAAG
1 ATTTATTTAGATATAAATTAAAGATGA-AAG
1281212 ATTTATTTAGATATAAATTAAA
1 ATTTATTTAGATATAAATTAAA
1281234 TATTAAATAT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
28 1 0.02
29 21 0.51
30 19 0.46
ACGTcount: A:0.43, C:0.01, G:0.11, T:0.44
Consensus pattern (30 bp):
ATTTATTTAGATATAAATTAAAGATGAAAG
Found at i:1283624 original size:12 final size:12
Alignment explanation
Indices: 1283602--1283689 Score: 54
Period size: 13 Copynumber: 6.8 Consensus size: 12
1283592 ATAAAAAATT
1283602 TAAAA-ATAATA
1 TAAAATATAATA
1283613 TAAAATATAATAA
1 TAAAATATAAT-A
*
1283626 AAAATATCATAATA
1 TAAA-AT-ATAATA
*
1283640 TTAAAAT-TTATA
1 -TAAAATATAATA
1283652 TAAATATATAATA
1 TAAA-ATATAATA
*
1283665 TTTTAAATATAATTA
1 --TAAAATATAA-TA
*
1283680 TAAGATATAA
1 TAAAATATAA
1283690 AAAATAAAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
11 9 0.15
12 11 0.18
13 16 0.27
14 11 0.18
15 13 0.22
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (12 bp):
TAAAATATAATA
Found at i:1283682 original size:28 final size:27
Alignment explanation
Indices: 1283607--1283688 Score: 80
Period size: 26 Copynumber: 3.0 Consensus size: 27
1283597 AAATTTAAAA
* *
1283607 ATAATA-TAAAATATAATAAAAAATAT
1 ATAATATTAAAATATAATTATAAATAT
*
1283633 CATAATATTAAAAT-TTA-TATAAATAT
1 -ATAATATTAAAATATAATTATAAATAT
*
1283659 ATAATATTTTAAATATAATTATAAGATAT
1 ATAATA-TTAAAATATAATTATAA-ATAT
1283688 A
1 A
1283689 AAAAATAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
25 6 0.13
26 13 0.29
27 10 0.22
28 11 0.24
29 5 0.11
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (27 bp):
ATAATATTAAAATATAATTATAAATAT
Found at i:1284301 original size:62 final size:62
Alignment explanation
Indices: 1284224--1284348 Score: 232
Period size: 62 Copynumber: 2.0 Consensus size: 62
1284214 ATGGCAAGAA
1284224 AGCATGCCAAAGCAGTCTCAAATCTCAATATGGTAAACTAAAATGCAATTTAATACAAAATC
1 AGCATGCCAAAGCAGTCTCAAATCTCAATATGGTAAACTAAAATGCAATTTAATACAAAATC
* *
1284286 AGCATGCCAAAGCAGTCTCAAATCTCAATCTGGTAAACTACAATGCAATTTAATACAAAATC
1 AGCATGCCAAAGCAGTCTCAAATCTCAATATGGTAAACTAAAATGCAATTTAATACAAAATC
1284348 A
1 A
1284349 AAGGCAGAGC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.44, C:0.21, G:0.11, T:0.24
Consensus pattern (62 bp):
AGCATGCCAAAGCAGTCTCAAATCTCAATATGGTAAACTAAAATGCAATTTAATACAAAATC
Found at i:1289096 original size:52 final size:52
Alignment explanation
Indices: 1288950--1289078 Score: 215
Period size: 52 Copynumber: 2.5 Consensus size: 52
1288940 CAAAATATGA
*
1288950 AAATTTGCCTACATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTTCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
1289002 AAATTTGCCTGT-ATGTATCGATACATTTCATAGTGTATCGATATATCTGGGC
1 AAATTTGCCT-TCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
1289054 AAATTTGGCTTCATGTATCGATACA
1 AAATTTGCCTTCATGTATCGATACA
1289079 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
51 1 0.01
52 71 0.99
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTTCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1289105 original size:13 final size:13
Alignment explanation
Indices: 1289087--1289111 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1289077 CAAAGATCAG
1289087 TGTATCGATACAA
1 TGTATCGATACAA
1289100 TGTATCGATACA
1 TGTATCGATACA
1289112 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1289198 original size:32 final size:32
Alignment explanation
Indices: 1289156--1289226 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 32
1289146 AGCTTCCTAG
1289156 CGATACATTGTATCGATACAAAACTTATGTAAT
1 CGATACATTGTATCGATACAAAACTTATGT-AT
**
1289189 -GATACATTGTATCGATACATCACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
1289220 CGATACA
1 CGATACA
1289227 AATCGTTGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
31 2 0.06
32 33 0.94
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:1291063 original size:47 final size:48
Alignment explanation
Indices: 1290950--1291125 Score: 255
Period size: 48 Copynumber: 3.7 Consensus size: 48
1290940 AGATGGGTGC
** * *
1290950 CAATGTGCCAATTCAAGGCCAACGACATCGAGCTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
*
1290998 CAATGTGCTGATTCAAGGCTAGCGACATTGAGCTAAGGGAAAA-TGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
* * *
1291045 CAATGTGTTGATTCAAGGCTAGCGACATTGAGCTAAGGGAAAAGCGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
* *
1291093 TAATGTGCTGATTCAAGGCCAGCAACATTGAGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGC
1291126 CAATAAAGGT
Statistics
Matches: 116, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
47 46 0.40
48 70 0.60
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (48 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAGGGAAAAGTGGA
Found at i:1291289 original size:28 final size:28
Alignment explanation
Indices: 1291253--1291645 Score: 283
Period size: 28 Copynumber: 13.5 Consensus size: 28
1291243 CACTAAATTC
1291253 TGTGGGCTTTGAAGAGATGCCACTAACT
1 TGTGGGCTTTGAAGAGATGCCACTAACT
1291281 TGTGGGCTTTGAA-AGGATGCCACTAACT
1 TGTGGGCTTTGAAGA-GATGCCACTAACT
*
1291309 TATGGGCTTTGGAAG-GATGCCACTAAC-
1 TGTGGGCTTT-GAAGAGATGCCACTAACT
* * * *
1291336 TATGGGCTTTGAAAAGTTGCCACTGACT
1 TGTGGGCTTTGAAGAGATGCCACTAACT
* * *
1291364 CGTGGGCTTTGAAGAGTTGCCACTGACT
1 TGTGGGCTTTGAAGAGATGCCACTAACT
* * * *
1291392 TGTGGGCTTGGAAAAGATGCCATTGACT
1 TGTGGGCTTTGAAGAGATGCCACTAACT
* *
1291420 TGTGGGATTTGAA-AGATGCCACTGACT
1 TGTGGGCTTTGAAGAGATGCCACTAACT
* * * *
1291447 TGTGGACATTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAGAGATGCCACTAACT
* *
1291475 TGTGGGCTTTGAAAAGATGCCA-TCGACTT
1 TGTGGGCTTTGAAGAGATGCCACT-AAC-T
* * *
1291504 GTGTGGGCTTTGAAATGGGTTGCCACCAACTT
1 -TGTGGGCTTTG-AA-GAGATGCCACTAAC-T
* *
1291536 GTGTGGGCTTTGAAATGAGTTGCCACCAACTT
1 -TGTGGGCTTTG-AA-GAGATGCCACTAAC-T
* * *
1291568 GTGTGGGCTTTCAAATGAGTTGCCACCAACTT
1 -TGTGGGCTTT-GAA-GAGATGCCACTAAC-T
* * *
1291600 GTGTGGGCTTTGAAATAGGTTGCCACCAACTT
1 -TGTGGGCTTTG-AAGA-GATGCCACTAAC-T
1291632 ATGTGGGCTTTGAA
1 -TGTGGGCTTTGAA
1291646 ATGGGTTGCC
Statistics
Matches: 320, Mismatches: 30, Indels: 27
0.85 0.08 0.07
Matches are distributed among these distances:
26 3 0.01
27 45 0.14
28 143 0.45
29 4 0.01
30 11 0.03
31 5 0.02
32 109 0.34
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAGAGATGCCACTAACT
Found at i:1291459 original size:111 final size:111
Alignment explanation
Indices: 1291254--1291506 Score: 332
Period size: 111 Copynumber: 2.3 Consensus size: 111
1291244 ACTAAATTCT
* * * *
1291254 GTGGGCTTTGAAGAGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACTTATGGGCTTT
1 GTGGGCTTTGAAGAGATGCCACTGACTTGTGGGCTTGGAAAAGATGCCACTAACTTATGGGATTT
* * *
1291319 GGAAGGATGCCACTAACTATGGGCTTTGAAAAGTTGCCACTGACTC
66 GGAAAGATGCCACTAACTATGGGCATTGAAAAGATGCCACTGACTC
* * * *
1291365 GTGGGCTTTGAAGAGTTGCCACTGACTTGTGGGCTTGGAAAAGATGCCATTGACTTGTGGGATTT
1 GTGGGCTTTGAAGAGATGCCACTGACTTGTGGGCTTGGAAAAGATGCCACTAACTTATGGGATTT
* *
1291430 -GAAAGATGCCACTGACT-TGTGGACATTGAAAAGATGCCACTGACTT
66 GGAAAGATGCCACTAACTATG-GG-CATTGAAAAGATGCCACTGACTC
*
1291476 GTGGGCTTTGAAAAGATGCCA-TCGACTTGTG
1 GTGGGCTTTGAAGAGATGCCACT-GACTTGTG
1291507 TGGGCTTTGA
Statistics
Matches: 124, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
109 2 0.02
110 18 0.15
111 104 0.84
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.28
Consensus pattern (111 bp):
GTGGGCTTTGAAGAGATGCCACTGACTTGTGGGCTTGGAAAAGATGCCACTAACTTATGGGATTT
GGAAAGATGCCACTAACTATGGGCATTGAAAAGATGCCACTGACTC
Found at i:1291497 original size:83 final size:83
Alignment explanation
Indices: 1291253--1291518 Score: 327
Period size: 83 Copynumber: 3.2 Consensus size: 83
1291243 CACTAAATTC
* * * *
1291253 TGTGGGCTTTGAAGAGATGCCACTAACTTGTGGGCTTTGAAAGGATGCCACTAACTTATGGGCTT
1 TGTGGGCTTTGAA-AGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTT
* * * *
1291318 TGGAAGGATGCCACTAAC-
65 TGAAAAGATGCCATTGACT
* * * * *
1291336 TATGGGCTTTGAAAAGTTGCCACTGACTCGTGGGCTTTGAAGAGTTGCCACTGACTTGTGGGCTT
1 TGTGGGCTTTG-AAAGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTT
*
1291401 GGAAAAGATGCCATTGACT
65 TGAAAAGATGCCATTGACT
* * *
1291420 TGTGGGATTTGAAAGATGCCACTGACTTGTGGACATTGAAAAGATGCCACTGACTTGTGGGCTTT
1 TGTGGGCTTTGAAAGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTT
*
1291485 GAAAAGATGCCATCGACTT
66 GAAAAGATGCCATTGAC-T
1291504 GTGTGGGCTTTGAAA
1 -TGTGGGCTTTGAAA
1291519 TGGGTTGCCA
Statistics
Matches: 154, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
83 129 0.84
84 12 0.08
85 13 0.08
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (83 bp):
TGTGGGCTTTGAAAGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTT
GAAAAGATGCCATTGACT
Found at i:1291536 original size:32 final size:32
Alignment explanation
Indices: 1291475--1291710 Score: 361
Period size: 32 Copynumber: 7.4 Consensus size: 32
1291465 GCCACTGACT
* * *
1291475 TGTGGGCTTTGAAA--AGATGCCATCGACTTG
1 TGTGGGCTTTGAAATGAGTTGCCACCAACTTG
*
1291505 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
1 TGTGGGCTTTGAAATGAGTTGCCACCAACTTG
1291537 TGTGGGCTTTGAAATGAGTTGCCACCAACTTG
1 TGTGGGCTTTGAAATGAGTTGCCACCAACTTG
*
1291569 TGTGGGCTTTCAAATGAGTTGCCACCAACTTG
1 TGTGGGCTTTGAAATGAGTTGCCACCAACTTG
*
1291601 TGTGGGCTTTGAAAT-AGGTTGCCACCAACTTA
1 TGTGGGCTTTGAAATGA-GTTGCCACCAACTTG
*
1291633 TGTGGGCTTTGAAATGGGTTGCCACCAACTTG
1 TGTGGGCTTTGAAATGAGTTGCCACCAACTTG
* *
1291665 TGTGGGCTTTCAAATGAGTTGCCACCGACTTG
1 TGTGGGCTTTGAAATGAGTTGCCACCAACTTG
1291697 TGTGGGCTTTGAAA
1 TGTGGGCTTTGAAA
1291711 AGTGTGGGCT
Statistics
Matches: 188, Mismatches: 14, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
30 14 0.07
31 1 0.01
32 173 0.92
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (32 bp):
TGTGGGCTTTGAAATGAGTTGCCACCAACTTG
Found at i:1291735 original size:48 final size:48
Alignment explanation
Indices: 1291664--1291758 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
1291654 CCACCAACTT
*
1291664 GTGTGGGCTTTCAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAAA
1 GTGTGGGCTTTCAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAAA
*
1291712 GTGTGGGCTTTCAAATGAGTTGCCATCAACTTGTGTGGGCTTTGAAA
1 GTGTGGGCTTTCAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAA
1291759 TAGGTTGCCA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.21, C:0.16, G:0.31, T:0.33
Consensus pattern (48 bp):
GTGTGGGCTTTCAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAAA
Found at i:1291753 original size:32 final size:32
Alignment explanation
Indices: 1291712--1292194 Score: 582
Period size: 32 Copynumber: 15.5 Consensus size: 32
1291702 GCTTTGAAAA
* *
1291712 GTGTGGGCTTTCAAATGAGTTGCCATCAACTT
1 GTGTGGGCTTTGAAATGAGTTGCCACCAACTT
1291744 GTGTGGGCTTTGAAAT-AGGTTGCCACCAACTT
1 GTGTGGGCTTTGAAATGA-GTTGCCACCAACTT
* *
1291776 ATGTGGGCTTTGAAATGGGTTGCCACCAACTT
1 GTGTGGGCTTTGAAATGAGTTGCCACCAACTT
* *
1291808 GTGTGGGCTTTCAAATGAGTTGCCACCGACTT
1 GTGTGGGCTTTGAAATGAGTTGCCACCAACTT
* * *
1291840 GTGTGGGCTTTGAAA--AGGTACCACCGACTT
1 GTGTGGGCTTTGAAATGAGTTGCCACCAACTT
*
1291870 GTGTGGGCTTTGAAA--A-TATGCCACCGAC-T
1 GTGTGGGCTTTGAAATGAGT-TGCCACCAACTT
* * * *
1291899 -TGTAGGCTTTGAAATGGGCTACCACCAACTT
1 GTGTGGGCTTTGAAATGAGTTGCCACCAACTT
* * **
1291930 GTGTGGGCTTTGAAA-G-GGTGCTACTGAC-T
1 GTGTGGGCTTTGAAATGAGTTGCCACCAACTT
* * **
1291959 -TGTGGACTTTGAAA--AGATGCCACTGACTT
1 GTGTGGGCTTTGAAATGAGTTGCCACCAACTT
* *
1291988 GTGTGGACTTTGAAATGGGTTGCCACCAACTT
1 GTGTGGGCTTTGAAATGAGTTGCCACCAACTT
1292020 GTGTGGGCTTTGAAATGAGTTGCCACCAACTT
1 GTGTGGGCTTTGAAATGAGTTGCCACCAACTT
*
1292052 GTGTGGGCTTTCAAATGAGTTGCCACCAACTT
1 GTGTGGGCTTTGAAATGAGTTGCCACCAACTT
1292084 GTGTGGGCTTTGAAAT-AGGTTGCCACCAACTT
1 GTGTGGGCTTTGAAATGA-GTTGCCACCAACTT
*
1292116 GTGTGGGCTTTGAAATGGGTTGCCACCAACTT
1 GTGTGGGCTTTGAAATGAGTTGCCACCAACTT
* *
1292148 GTGTGGGCTTTCAAATGAGTTGCCACCGACTT
1 GTGTGGGCTTTGAAATGAGTTGCCACCAACTT
1292180 GTGTGGGCTTTGAAA
1 GTGTGGGCTTTGAAA
1292195 AGATGCCACA
Statistics
Matches: 396, Mismatches: 40, Indels: 30
0.85 0.09 0.06
Matches are distributed among these distances:
28 36 0.09
29 3 0.01
30 67 0.17
31 4 0.01
32 286 0.72
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (32 bp):
GTGTGGGCTTTGAAATGAGTTGCCACCAACTT
Found at i:1291766 original size:80 final size:80
Alignment explanation
Indices: 1291633--1291790 Score: 246
Period size: 80 Copynumber: 2.0 Consensus size: 80
1291623 CACCAACTTA
* * * *
1291633 TGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTGT
1 TGTGGGCTTTCAAATGAGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCAACTTAT
1291698 GTGGGCTTTGAAAAG
66 GTGGGCTTTGAAAAG
* *
1291713 TGTGGGCTTTCAAATGAGTTGCCATCAACTTGTGTGGGCTTTGAAAT-AGGTTGCCACCAACTTA
1 TGTGGGCTTTCAAATGAGTTGCCACCAACTTGTGTGGGCTTTCAAATGA-GTTGCCACCAACTTA
1291777 TGTGGGCTTTGAAA
65 TGTGGGCTTTGAAA
1291791 TGGGTTGCCA
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
79 1 0.01
80 70 0.99
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (80 bp):
TGTGGGCTTTCAAATGAGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCAACTTAT
GTGGGCTTTGAAAAG
Found at i:1291798 original size:112 final size:112
Alignment explanation
Indices: 1291600--1291818 Score: 350
Period size: 112 Copynumber: 2.0 Consensus size: 112
1291590 CCACCAACTT
* * *
1291600 GTGTGGGCTTTGAAATAGGTTGCCACCAACTTATGTGGGCTTTGAAATGGGTTGCCACCAACTTG
1 GTGTGGGCTTTCAAATAGGTTGCCACCAACTTATGTGGGCTTTGAAATAGGTTGCCACCAACTTA
*
1291665 TGTGGGCTTTCAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAAA
66 TGTGGGCTTTCAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAAA
* *
1291712 GTGTGGGCTTTCAAAT-GAGTTGCCATCAACTTGTGTGGGCTTTGAAATAGGTTGCCACCAACTT
1 GTGTGGGCTTTCAAATAG-GTTGCCACCAACTTATGTGGGCTTTGAAATAGGTTGCCACCAACTT
* *
1291776 ATGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTT
65 ATGTGGGCTTTCAAATGAGTTGCCACCAACTTGTGTGGGCTTT
1291819 CAAATGAGTT
Statistics
Matches: 98, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
111 1 0.01
112 97 0.99
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (112 bp):
GTGTGGGCTTTCAAATAGGTTGCCACCAACTTATGTGGGCTTTGAAATAGGTTGCCACCAACTTA
TGTGGGCTTTCAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAAA
Found at i:1291828 original size:144 final size:144
Alignment explanation
Indices: 1291568--1292130 Score: 581
Period size: 144 Copynumber: 4.0 Consensus size: 144
1291558 CCACCAACTT
1291568 GTGTGGGCTTTCAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATAGGTTGCCACCAACTTA
1 GTGTGGGCTTTCAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATAGGTTGCCACCAACTTA
1291633 TGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTGT
66 TGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTGT
1291698 GTGGGCTTTGAAAA
131 GTGGGCTTTGAAAA
*
1291712 GTGTGGGCTTTCAAATGAGTTGCCATCAACTTGTGTGGGCTTTGAAATAGGTTGCCACCAACTTA
1 GTGTGGGCTTTCAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATAGGTTGCCACCAACTTA
1291777 TGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTGT
66 TGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTGT
1291842 GTGGGCTTTGAAAAGGTACCACCGA
131 GTGGGCTTTG---A---A--A---A
* * * * * *
1291867 CTTGTGTGGGCTTTGAAA--A-TATGCCACCGAC-T-TGTAGGCTTTGAAATGGGCTACCACCAA
1 ---GTGTGGGCTTTCAAATGAGT-TGCCACCAACTTGTGTGGGCTTTGAAATAGGTTGCCACCAA
* * ** * * * *
1291927 CTTGTGTGGGCTTTGAAA-GGG-TGCTACTGAC-T-TGTGGACTTTGAAA--AGATGCCACTGAC
62 CTTATGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCGAC
*
1291986 TTGTGTGGACTTTG-AAA
127 TTGTGTGGGCTTTGAAAA
1292003 ---T--G---------G-GTTGCCACCAACTTGTGTGGGCTTTGAAAT-GAGTTGCCACCAACTT
1 GTGTGGGCTTTCAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATAG-GTTGCCACCAACTT
* * * * *
1292052 GTGTGGGCTTTCAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAAT-AGGTTGCCACCAACTT
65 ATGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAATGA-GTTGCCACCGACTT
1292116 GTGTGGGCTTTGAAA
129 GTGTGGGCTTTGAAA
1292131 TGGGTTGCCA
Statistics
Matches: 361, Mismatches: 31, Indels: 69
0.78 0.07 0.15
Matches are distributed among these distances:
120 9 0.02
121 3 0.01
122 40 0.11
123 2 0.01
124 7 0.02
125 1 0.00
126 13 0.04
127 1 0.00
128 23 0.06
129 2 0.01
130 1 0.00
136 1 0.00
139 1 0.00
141 1 0.00
144 139 0.39
147 1 0.00
148 24 0.07
150 13 0.04
151 1 0.00
152 8 0.02
153 3 0.01
154 41 0.11
155 3 0.01
156 9 0.02
158 14 0.04
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (144 bp):
GTGTGGGCTTTCAAATGAGTTGCCACCAACTTGTGTGGGCTTTGAAATAGGTTGCCACCAACTTA
TGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTGT
GTGGGCTTTGAAAA
Found at i:1291968 original size:28 final size:30
Alignment explanation
Indices: 1291740--1292590 Score: 259
Period size: 28 Copynumber: 28.9 Consensus size: 30
1291730 GTTGCCATCA
* * **
1291740 ACTTGTGTGGGCTTTGAAATAGGTTGCCACCA
1 ACTTGTGTGGACTTTG-AA-AGGGTGCCACTG
* * **
1291772 ACTTATGTGGGCTTTGAAATGGGTTGCCACCA
1 ACTTGTGTGGACTTTGAAA-GGG-TGCCACTG
* * * *
1291804 ACTTGTGTGGGCTTTCAAATGAGTTGCCACCG
1 ACTTGTGTGGACTTTGAAA-G-GGTGCCACTG
* * * *
1291836 ACTTGTGTGGGCTTTGAAAAGGTACCACCG
1 ACTTGTGTGGACTTTGAAAGGGTGCCACTG
* *** *
1291866 ACTTGTGTGGGCTTTGAAAATATGCCACCG
1 ACTTGTGTGGACTTTGAAAGGGTGCCACTG
* * **
1291896 ACTTGT-AGG-CTTTGAAATGGGCTACCACCA
1 ACTTGTGTGGACTTTGAAA-GGG-TGCCACTG
* *
1291926 ACTTGTGTGGGCTTTGAAAGGGTGCTACTG
1 ACTTGTGTGGACTTTGAAAGGGTGCCACTG
* *
1291956 AC-T-TGTGGACTTTGAAAAGATGCCACTG
1 ACTTGTGTGGACTTTGAAAGGGTGCCACTG
**
1291984 ACTTGTGTGGACTTTGAAATGGGTTGCCACCA
1 ACTTGTGTGGACTTTGAAA-GGG-TGCCACTG
* * **
1292016 ACTTGTGTGGGCTTTGAAATGAGTTGCCACCA
1 ACTTGTGTGGACTTTGAAA-G-GGTGCCACTG
* * * **
1292048 ACTTGTGTGGGCTTTCAAATGAGTTGCCACCA
1 ACTTGTGTGGACTTTGAAA-G-GGTGCCACTG
* * **
1292080 ACTTGTGTGGGCTTTGAAATAGGTTGCCACCA
1 ACTTGTGTGGACTTTG-AA-AGGGTGCCACTG
* **
1292112 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCA
1 ACTTGTGTGGACTTTGAAA-GGG-TGCCACTG
* * * *
1292144 ACTTGTGTGGGCTTTCAAATGAGTTGCCACCG
1 ACTTGTGTGGACTTTGAAA-G-GGTGCCACTG
* * * *
1292176 ACTTGTGTGGGCTTTGAAAAGATGCCACAG
1 ACTTGTGTGGACTTTGAAAGGGTGCCACTG
* * * *
1292206 A-GT-TGTGGA-TTTCAAAAGAGTGCCACGG
1 ACTTGTGTGGACTTT-GAAAGGGTGCCACTG
* * *
1292234 A-GT-TGTGGAC-TTAAAAAGGTGCCAC-G
1 ACTTGTGTGGACTTTGAAAGGGTGCCACTG
*** * *
1292260 GGGT-TGTGGAC-TTAAAAGGGTACCA-TGG
1 ACTTGTGTGGACTTTGAAAGGGTGCCACT-G
* * * * *
1292288 A-GT-TGTGGACTTTAAAAGAGTACCACGG
1 ACTTGTGTGGACTTTGAAAGGGTGCCACTG
* * *
1292316 A-GT-TGTGGAC-TTAAAAGGGTGCCACAG
1 ACTTGTGTGGACTTTGAAAGGGTGCCACTG
* * *
1292343 A-GT-TGTGGACTTTAAAAGGGTGCCACGG
1 ACTTGTGTGGACTTTGAAAGGGTGCCACTG
* * *
1292371 A-GT-TGTGGACTTTAAAAGGGTGCCACGG
1 ACTTGTGTGGACTTTGAAAGGGTGCCACTG
* * * *
1292399 A-GT-TGTGGACTTTAAAAGGATGCCACAG
1 ACTTGTGTGGACTTTGAAAGGGTGCCACTG
* * * *
1292427 A-GT-TGTGGAC-TTAAAAGGATGCCACGG
1 ACTTGTGTGGACTTTGAAAGGGTGCCACTG
* * * * *
1292454 A-GT-TGTGGACTTTAAAAGAGTGTCACGG
1 ACTTGTGTGGACTTTGAAAGGGTGCCACTG
* * * *
1292482 A-GT-TATGGAC-TTAAAAGGGTGCCACGG
1 ACTTGTGTGGACTTTGAAAGGGTGCCACTG
* * * *
1292509 A-GT-TGTCGACTTTAAAAGGGTGCCACGG
1 ACTTGTGTGGACTTTGAAAGGGTGCCACTG
* * *
1292537 A-GT-TGTGGACTTTAAAAGGGTGCCACGG
1 ACTTGTGTGGACTTTGAAAGGGTGCCACTG
* * *
1292565 A-GT-TGTGGACTTTAAAAGGATGCCAC
1 ACTTGTGTGGACTTTGAAAGGGTGCCAC
1292591 GGAGTTATGG
Statistics
Matches: 716, Mismatches: 76, Indels: 58
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.00
27 117 0.16
28 254 0.35
29 5 0.01
30 84 0.12
31 14 0.02
32 234 0.33
33 6 0.01
34 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (30 bp):
ACTTGTGTGGACTTTGAAAGGGTGCCACTG
Found at i:1292483 original size:166 final size:166
Alignment explanation
Indices: 1292181--1292637 Score: 713
Period size: 166 Copynumber: 2.8 Consensus size: 166
1292171 CACCGACTTG
* * * *
1292181 TGTGGGCTTTGAAAA-GATGCCACAGAGTTGTGGA-TTTCAAAAGAGTGCCACGGAGTTGTGGAC
1 TGTGGACTTT-AAAAGGGTGCCACGGAGTTGTGGACTTT-AAAAGGGTGCCACGGAGTTGTGGAC
* * * * *
1292244 TTAAAAAGG-TGCCACGGGGTTGTGGACTTAAAAGGGTACCATGGAGTTGTGGACTTTAAAAGAG
64 TTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGAG
*
1292308 TACCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGT
129 TACCACGGAGTTATGGACTTAAAAGGGTGCCACAGAGT
1292346 TGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTT
1 TGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTT
* *
1292411 TAAAAGGATGCCACAGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGAGTG
66 TAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGAGTA
* *
1292476 TCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGT
131 CCACGGAGTTATGGACTTAAAAGGGTGCCACAGAGT
*
1292512 TGTCGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTT
1 TGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTT
* * *
1292577 TAAAAGGATGCCACGGAGTTATGGACCTAAAAGGATGCCACGGAGTAGTGGACTTTAAAAG
66 TAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAG
1292638 GAAATGCCAC
Statistics
Matches: 270, Mismatches: 19, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
164 4 0.01
165 58 0.21
166 208 0.77
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (166 bp):
TGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTT
TAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGAGTA
CCACGGAGTTATGGACTTAAAAGGGTGCCACAGAGT
Found at i:1292591 original size:28 final size:28
Alignment explanation
Indices: 1292181--1292639 Score: 598
Period size: 28 Copynumber: 16.6 Consensus size: 28
1292171 CACCGACTTG
* *
1292181 TGTGGGCTTTGAAAA-GATGCCACAGAGT
1 TGTGGACTTT-AAAAGGATGCCACGGAGT
1292209 TGTGGA-TTTCAAAA-GAGTGCCACGGAGT
1 TGTGGACTTT-AAAAGGA-TGCCACGGAGT
* *
1292237 TGTGGACTTAAAAAGG-TGCCACGGGGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* * *
1292264 TGTGGAC-TTAAAAGGGTACCATGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
*
1292291 TGTGGACTTTAAAA-GAGTACCACGGAGT
1 TGTGGACTTTAAAAGGA-TGCCACGGAGT
* *
1292319 TGTGGAC-TTAAAAGGGTGCCACAGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
*
1292346 TGTGGACTTTAAAAGGGTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
*
1292374 TGTGGACTTTAAAAGGGTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
*
1292402 TGTGGACTTTAAAAGGATGCCACAGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
1292430 TGTGGAC-TTAAAAGGATGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
*
1292457 TGTGGACTTTAAAA-GAGTGTCACGGAGT
1 TGTGGACTTTAAAAGGA-TGCCACGGAGT
* *
1292485 TATGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* *
1292512 TGTCGACTTTAAAAGGGTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
*
1292540 TGTGGACTTTAAAAGGGTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
1292568 TGTGGACTTTAAAAGGATGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* *
1292596 TATGGAC-CTAAAAGGATGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
*
1292623 AGTGGACTTTAAAAGGA
1 TGTGGACTTTAAAAGGA
1292640 AATGCCACTA
Statistics
Matches: 387, Mismatches: 31, Indels: 26
0.87 0.07 0.06
Matches are distributed among these distances:
26 7 0.02
27 137 0.35
28 240 0.62
29 3 0.01
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (28 bp):
TGTGGACTTTAAAAGGATGCCACGGAGT
Found at i:1292639 original size:55 final size:55
Alignment explanation
Indices: 1292181--1292639 Score: 647
Period size: 55 Copynumber: 8.3 Consensus size: 55
1292171 CACCGACTTG
* * * *
1292181 TGTGGGCTTTGAAAA-GATGCCACAGAGTTGTGGATTTCAAAAGAGTGCCACGGAGT
1 TGTGGACTTT-AAAAGGATGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACGGAGT
* * * *
1292237 TGTGGACTTAAAAAGG-TGCCACGGGGTTGTGGACTTAAAAGGGTACCATGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* *
1292291 TGTGGACTTTAAAA-GAGTACCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGT
1 TGTGGACTTTAAAAGGA-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
*
1292346 TGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGT
* *
1292402 TGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAGGATGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* *
1292457 TGTGGACTTTAAAA-GAGTGTCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGT
1 TGTGGACTTTAAAAGGA-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* *
1292512 TGTCGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGT
* * *
1292568 TGTGGACTTTAAAAGGATGCCACGGAGTTATGGACCTAAAAGGATGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
*
1292623 AGTGGACTTTAAAAGGA
1 TGTGGACTTTAAAAGGA
1292640 AATGCCACTA
Statistics
Matches: 361, Mismatches: 34, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
53 1 0.00
54 30 0.08
55 215 0.60
56 115 0.32
ACGTcount: A:0.29, C:0.14, G:0.33, T:0.24
Consensus pattern (55 bp):
TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
Found at i:1293991 original size:21 final size:22
Alignment explanation
Indices: 1293946--1293994 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
1293936 CATGTCCTCG
* *
1293946 TTTTTTATTTTTCTTGTTCCCT
1 TTTTTTATTTTGCTTGTTCCAT
*
1293968 TTTTTTATTTTGCTT-TTGCAT
1 TTTTTTATTTTGCTTGTTCCAT
1293989 TTTTTT
1 TTTTTT
1293995 CCTTTTCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.06, C:0.12, G:0.06, T:0.76
Consensus pattern (22 bp):
TTTTTTATTTTGCTTGTTCCAT
Found at i:1294015 original size:16 final size:16
Alignment explanation
Indices: 1293975--1294016 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
1293965 CCTTTTTTTA
1293975 TTTTGCTTTTGCATTT
1 TTTTGCTTTTGCATTT
*
1293991 TTTTCCTTTT-CATTT
1 TTTTGCTTTTGCATTT
1294006 TTTGTGCTTTT
1 TTT-TGCTTTT
1294017 ACTTTTGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.05, C:0.14, G:0.10, T:0.71
Consensus pattern (16 bp):
TTTTGCTTTTGCATTT
Found at i:1301666 original size:96 final size:96
Alignment explanation
Indices: 1301552--1301753 Score: 284
Period size: 96 Copynumber: 2.1 Consensus size: 96
1301542 GTCCCCGACA
* ** * *
1301552 ATGACAATTTAAGCAAAAATAATATTTAAATCTTGATGAGTTTAAAAATAGGGTTGGAGTATC-C
1 ATGACAATTTAAGCAAAAATAAGATTTAAATCTTGACAAGTTTAAAAATAAGGTTGAAGTATCTC
* * *
1301616 TCTCGGAAGATGGGGTT-AGAGTATC-CTTGATG
66 -CTCAGAAGATGGAGTTGA-AGTATCTC-CGATG
1301648 ATGACAATTTAAGCAAAAATAAGATTTAAATCTTGACAAGTTTAAAAATAAGGTTGAAGTATCTC
1 ATGACAATTTAAGCAAAAATAAGATTTAAATCTTGACAAGTTTAAAAATAAGGTTGAAGTATCTC
1301713 CTCAGAAGATGGAGTTGAAGTATCTCCGATG
66 CTCAGAAGATGGAGTTGAAGTATCTCCGATG
1301744 ATGACAATTT
1 ATGACAATTT
1301754 CGATACATTT
Statistics
Matches: 95, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
96 92 0.97
97 3 0.03
ACGTcount: A:0.38, C:0.10, G:0.20, T:0.31
Consensus pattern (96 bp):
ATGACAATTTAAGCAAAAATAAGATTTAAATCTTGACAAGTTTAAAAATAAGGTTGAAGTATCTC
CTCAGAAGATGGAGTTGAAGTATCTCCGATG
Found at i:1305184 original size:61 final size:63
Alignment explanation
Indices: 1305075--1305384 Score: 262
Period size: 65 Copynumber: 5.0 Consensus size: 63
1305065 TGCCACTACT
* * * ** *
1305075 TGTGTGAGC-TTTTAGGTGTCGCTAGCTCGTGCAAG-CTTTGGAAAGGTTTGAGTGCCACCAA
1 TGTGTGAGCTTTTTGGGTGTCGCCAACTCGTGCGGGCCTTTAGAAAGGTTTGAGTGCCACCAA
* *
1305136 TGTG-G-GCGTTTTGGGTG-CTGCCAACTCGTACGGGCCTTTAGAAAGGTTTGAGTGCCACCAAC
1 TGTGTGAGCTTTTTGGGTGTC-GCCAACTCGTGCGGGCCTTTAGAAAGGTTTGAGTGCCACC-A-
1305198 A
63 A
* * * * * * *
1305199 TGTGTGTGTTTTTTGGGTGTCACCAATTCATGCGGGCTTTTAGAAAGGTTTAAGTGCCACCAA
1 TGTGTGAGCTTTTTGGGTGTCGCCAACTCGTGCGGGCCTTTAGAAAGGTTTGAGTGCCACCAA
* * *
1305262 CTTGTGTGAGCTTTTTGGGTGTCGCCAACTCGTGCAGGCTTTTAGGAAA-G---GA-TGCCACTA
1 --TGTGTGAGCTTTTTGGGTGTCGCCAACTCGTGCGGGCCTTTA-GAAAGGTTTGAGTGCCACCA
*
1305322 GCT
63 --A
* * * * *
1305325 TGTGTGGGCTTTTTAGGTGTCACCAACTCGTGCGGGCTTTTGGAAAGGTTTGAGTGCCAC
1 TGTGTGAGCTTTTTGGGTGTCGCCAACTCGTGCGGGCCTTTAGAAAGGTTTGAGTGCCAC
1305385 TATCTTATGT
Statistics
Matches: 202, Mismatches: 29, Indels: 32
0.77 0.11 0.12
Matches are distributed among these distances:
59 3 0.01
60 23 0.11
61 72 0.36
62 2 0.01
63 6 0.03
64 4 0.02
65 87 0.43
66 5 0.02
ACGTcount: A:0.18, C:0.19, G:0.31, T:0.32
Consensus pattern (63 bp):
TGTGTGAGCTTTTTGGGTGTCGCCAACTCGTGCGGGCCTTTAGAAAGGTTTGAGTGCCACCAA
Found at i:1305243 original size:65 final size:64
Alignment explanation
Indices: 1305115--1305384 Score: 288
Period size: 65 Copynumber: 4.3 Consensus size: 64
1305105 GCAAGCTTTG
* * * *
1305115 GAAAGGTTTGAGTGCCACC-A-ATGTG-GGCGTTTTGGGTG-CTGCCAACTCGTACGGGCCTTTA
1 GAAAGGTTTGAGTGCCACCAACATGTGTGGCTTTTTGGGTGTC-ACCAACTCGTGCGGGCTTTTA
* * *
1305176 GAAAGGTTTGAGTGCCACCAACATGTGTGTGTTTTTTGGGTGTCACCAATTCATGCGGGCTTTTA
1 GAAAGGTTTGAGTGCCACCAACATGTGTG-GCTTTTTGGGTGTCACCAACTCGTGCGGGCTTTTA
* * * *
1305241 GAAAGGTTTAAGTGCCACCAACTTGTGTGAGCTTTTTGGGTGTCGCCAACTCGTGCAGGCTTTTA
1 GAAAGGTTTGAGTGCCACCAACATGTGTG-GCTTTTTGGGTGTCACCAACTCGTGCGGGCTTTTA
* * * *
1305306 GGAAA-G---GA-TGCCACTAGCTTGTGTGGGCTTTTTAGGTGTCACCAACTCGTGCGGGCTTTT
1 -GAAAGGTTTGAGTGCCACCAACATGTGT-GGCTTTTTGGGTGTCACCAACTCGTGCGGGCTTTT
*
1305366 G
64 A
1305367 GAAAGGTTTGAGTGCCAC
1 GAAAGGTTTGAGTGCCAC
1305385 TATCTTATGT
Statistics
Matches: 175, Mismatches: 22, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
60 4 0.02
61 65 0.37
62 3 0.02
63 5 0.03
64 3 0.02
65 90 0.51
66 5 0.03
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.31
Consensus pattern (64 bp):
GAAAGGTTTGAGTGCCACCAACATGTGTGGCTTTTTGGGTGTCACCAACTCGTGCGGGCTTTTA
Found at i:1305401 original size:126 final size:123
Alignment explanation
Indices: 1305054--1305405 Score: 324
Period size: 126 Copynumber: 2.8 Consensus size: 123
1305044 AACATTAGGC
* * * * **
1305054 TTAG-AAGGAGATGCCACTACTTGTGTGAGC-TTTTAGGTGTCGCTAGCTCGTGCAAGC-TTTGG
1 TTAGAAAGGTGATGCCACTACTTGTGTGAGCTTTTTAGGTGTCACCAACTCGTGCGGGCTTTTGG
* * *
1305116 AAAGGTTTGAGTGCCAC-C-AATGTGGGCGTTTTGGGTGCTGCCAACTCGTACGGGCCT
66 AAAGGTTTGAGTGCCACACTTATGT-GGCTTTTTGGGTGCTGCCAACTCGTACAGGCCT
* * * * * * *
1305173 TTAGAAAGGTTTGAGTGCCACCAACATGTGTGTGTTTTTTGGGTGTCACCAATTCATGCGGGCTT
1 TTAGAAAGG--TGA-TGCCA-CTACTTGTGTGAGCTTTTTAGGTGTCACCAACTCGTGCGGGCTT
* * * * *
1305238 TTAGAAAGGTTTAAGTGCCACCAACTTGTGTGAGCTTTTTGGGTG-TCGCCAACTCGTGCAGGCT
62 TTGGAAAGGTTTGAGTGCCA-C-ACTTATGTG-GCTTTTTGGGTGCT-GCCAACTCGTACAGGCC
1305302 T
123 T
*
1305303 TTAGGAAA-G-GATGCCACTAGCTTGTGTGGGCTTTTTAGGTGTCACCAACTCGTGCGGGCTTTT
1 TTA-GAAAGGTGATGCCACTA-CTTGTGTGAGCTTTTTAGGTGTCACCAACTCGTGCGGGCTTTT
1305366 GGAAAGGTTTGAGTGCCACTATCTTATGTAGGCTTTTTGG
64 GGAAAGGTTTGAGTGCCAC-A-CTTATGT-GGCTTTTTGG
1305406 ATTACTCCAC
Statistics
Matches: 184, Mismatches: 32, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
119 4 0.02
120 4 0.02
122 2 0.01
123 5 0.03
124 10 0.05
125 23 0.12
126 92 0.50
127 4 0.02
129 3 0.02
130 33 0.18
131 4 0.02
ACGTcount: A:0.19, C:0.18, G:0.30, T:0.33
Consensus pattern (123 bp):
TTAGAAAGGTGATGCCACTACTTGTGTGAGCTTTTTAGGTGTCACCAACTCGTGCGGGCTTTTGG
AAAGGTTTGAGTGCCACACTTATGTGGCTTTTTGGGTGCTGCCAACTCGTACAGGCCT
Found at i:1305555 original size:30 final size:30
Alignment explanation
Indices: 1305519--1305593 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 30
1305509 AAAAGGATTG
* * *
1305519 GGTGCCACCAACTTGTGTGGGCTTTAAAGA
1 GGTGCCACTAACTTGTATGGGCTTTAAAAA
*
1305549 GGTGCCACTAAC-T-CATGGGCTTTAAAAA
1 GGTGCCACTAACTTGTATGGGCTTTAAAAA
*
1305577 AGTGCCACTAACTTGTA
1 GGTGCCACTAACTTGTA
1305594 GCCTTTGAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
28 23 0.62
29 2 0.05
30 12 0.32
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (30 bp):
GGTGCCACTAACTTGTATGGGCTTTAAAAA
Found at i:1305599 original size:28 final size:28
Alignment explanation
Indices: 1305540--1305604 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
1305530 CTTGTGTGGG
* * * *
1305540 CTTTAAAGAGGTGCCACTAACTCATGGG
1 CTTTAAAAAAGTGCCACTAACTCATAGC
**
1305568 CTTTAAAAAAGTGCCACTAACTTGTAGC
1 CTTTAAAAAAGTGCCACTAACTCATAGC
*
1305596 CTTTGAAAA
1 CTTTAAAAA
1305605 TGGTGCCGTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (28 bp):
CTTTAAAAAAGTGCCACTAACTCATAGC
Found at i:1305697 original size:29 final size:29
Alignment explanation
Indices: 1305568--1305715 Score: 102
Period size: 29 Copynumber: 5.1 Consensus size: 29
1305558 AACTCATGGG
* * * *
1305568 CTTTAAAAA-AGTGCCACTAACTTGTAGC
1 CTTTAAAAAGAGTGCCGCTGACTTGTGGA
* * *
1305596 CTTTGAAAATG-GTGCCGTTGATTTGTGGA
1 CTTT-AAAAAGAGTGCCGCTGACTTGTGGA
* ** * * * *
1305625 CTTTGAGGAGGGCGCCACTGACTTATGGA
1 CTTTAAAAAGAGTGCCGCTGACTTGTGGA
* * * *
1305654 CTTTGAAGAGGGTGCCGCTGACTTGTTGA
1 CTTTAAAAAGAGTGCCGCTGACTTGTGGA
*
1305683 CTTTAAAAAGAGTGCCGCTCACTTGTGGA
1 CTTTAAAAAGAGTGCCGCTGACTTGTGGA
1305712 CTTT
1 CTTT
1305716 GGAAAAGGTT
Statistics
Matches: 91, Mismatches: 26, Indels: 5
0.75 0.21 0.04
Matches are distributed among these distances:
28 6 0.07
29 85 0.93
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (29 bp):
CTTTAAAAAGAGTGCCGCTGACTTGTGGA
Found at i:1305712 original size:58 final size:58
Alignment explanation
Indices: 1305568--1305723 Score: 152
Period size: 58 Copynumber: 2.7 Consensus size: 58
1305558 AACTCATGGG
* * * * *
1305568 CTTTAAAAA-AGTGCCACTAACTTGTAGCCTTTGAAAATGGTGCCGTTGATTTGTGGA
1 CTTTAAAAAGAGTGCCACTAACTTGTGGACTTTGAAAAGGGTGCCGCTGACTTGTGGA
* ** * * * * * *
1305625 CTTTGAGGAGGGCGCCACTGACTTATGGACTTTGAAGAGGGTGCCGCTGACTTGTTGA
1 CTTTAAAAAGAGTGCCACTAACTTGTGGACTTTGAAAAGGGTGCCGCTGACTTGTGGA
* *
1305683 CTTTAAAAAGAGTGCCGCTCACTTGTGGACTTTGGAAAAGG
1 CTTTAAAAAGAGTGCCACTAACTTGTGGACTTT-GAAAAGG
1305724 TTTCGACTTT
Statistics
Matches: 74, Mismatches: 23, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
57 6 0.08
58 62 0.84
59 6 0.08
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.29
Consensus pattern (58 bp):
CTTTAAAAAGAGTGCCACTAACTTGTGGACTTTGAAAAGGGTGCCGCTGACTTGTGGA
Found at i:1305917 original size:13 final size:13
Alignment explanation
Indices: 1305899--1305946 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 13
1305889 GGATGACAAA
1305899 TTTTGACAAAATT
1 TTTTGACAAAATT
*
1305912 TTTTGACACAATT
1 TTTTGACAAAATT
** *
1305925 TTTT-AGTAAATA
1 TTTTGACAAAATT
1305937 TTTTGACAAA
1 TTTTGACAAA
1305947 GATTCCTAAG
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
12 8 0.30
13 19 0.70
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
TTTTGACAAAATT
Found at i:1306105 original size:13 final size:13
Alignment explanation
Indices: 1306079--1306190 Score: 70
Period size: 13 Copynumber: 8.6 Consensus size: 13
1306069 ACACAAGTTT
* *
1306079 TTCTTGATAGAAG
1 TTCTTGACAAAAG
1306092 TTCTTGACAAAAG
1 TTCTTGACAAAAG
* * *
1306105 TTCCCTGATGAAAGG
1 TT-CTTGA-CAAAAG
* *
1306120 GTCTGGACAAAAG
1 TTCTTGACAAAAG
1306133 TTCTTGACAAAA-
1 TTCTTGACAAAAG
*
1306145 TTCTTGA-TAAAG
1 TTCTTGACAAAAG
1306157 TT-TCTGACAAACA-
1 TTCT-TGACAAA-AG
* *
1306170 TTCTCGACAAAAA
1 TTCTTGACAAAAG
1306183 TTCTTGAC
1 TTCTTGAC
1306191 GATAGTTCCA
Statistics
Matches: 75, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
11 4 0.05
12 13 0.17
13 44 0.59
14 9 0.12
15 5 0.07
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (13 bp):
TTCTTGACAAAAG
Found at i:1306186 original size:25 final size:24
Alignment explanation
Indices: 1306125--1306186 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 24
1306115 AAAGGGTCTG
* *
1306125 GACAAAAGTTCTTGACAAAATTCTT
1 GACAAAAATTC-TGACAAAATTCTC
* **
1306150 GATAAAGTTTCTGACAAACATTCTC
1 GACAAAAATTCTGACAAA-ATTCTC
1306175 GACAAAAATTCT
1 GACAAAAATTCT
1306187 TGACGATAGT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
24 7 0.24
25 22 0.76
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (24 bp):
GACAAAAATTCTGACAAAATTCTC
Found at i:1306919 original size:32 final size:32
Alignment explanation
Indices: 1306875--1306955 Score: 117
Period size: 32 Copynumber: 2.5 Consensus size: 32
1306865 ACTTTTAATT
* * * *
1306875 GATACATTACTGTTGATCATTGTTCATGTATC
1 GATACATCACTGTTCATAACTGTTCATGTATC
1306907 GATACATCACTGTTCATAACTGTTCATGTATC
1 GATACATCACTGTTCATAACTGTTCATGTATC
*
1306939 GATACATCATTGTTCAT
1 GATACATCACTGTTCAT
1306956 GTATCGATAC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.41
Consensus pattern (32 bp):
GATACATCACTGTTCATAACTGTTCATGTATC
Found at i:1309098 original size:21 final size:21
Alignment explanation
Indices: 1309065--1309114 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
1309055 AAAAAAGTAC
**
1309065 ATGAGTTGGAAAA-GAAAATA
1 ATGAGTTATAAAATGAAAATA
*
1309085 AGTGAGTTATAAAATGAAAATG
1 A-TGAGTTATAAAATGAAAATA
1309107 ATGAGTTA
1 ATGAGTTA
1309115 ACTAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.68
22 7 0.28
ACGTcount: A:0.50, C:0.00, G:0.24, T:0.26
Consensus pattern (21 bp):
ATGAGTTATAAAATGAAAATA
Found at i:1312563 original size:32 final size:32
Alignment explanation
Indices: 1312519--1312589 Score: 115
Period size: 32 Copynumber: 2.2 Consensus size: 32
1312509 ACTTTTAATT
* * *
1312519 GATACATTACTGTTTATCATTGTTCATGTATC
1 GATACATCACTGTTCATCACTGTTCATGTATC
1312551 GATACATCACTGTTCATCACTGTTCATGTATC
1 GATACATCACTGTTCATCACTGTTCATGTATC
1312583 GATACAT
1 GATACAT
1312590 ATGAATAGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.41
Consensus pattern (32 bp):
GATACATCACTGTTCATCACTGTTCATGTATC
Found at i:1313605 original size:20 final size:21
Alignment explanation
Indices: 1313565--1313637 Score: 87
Period size: 21 Copynumber: 3.5 Consensus size: 21
1313555 TTCTATGACT
*
1313565 TGTATCGATACAAACAGTGAA
1 TGTATCGATACATACAGTGAA
*
1313586 TGTATCAATACATA-AGTGAA
1 TGTATCGATACATACAGTGAA
**
1313606 TGTATCGATACATGTA-TGAAA
1 TGTATCGATACATACAGTG-AA
1313627 TGTATCGATAC
1 TGTATCGATAC
1313638 GGGACCATGT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
20 20 0.43
21 26 0.57
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.30
Consensus pattern (21 bp):
TGTATCGATACATACAGTGAA
Found at i:1313730 original size:51 final size:52
Alignment explanation
Indices: 1313675--1313794 Score: 143
Period size: 51 Copynumber: 2.3 Consensus size: 52
1313665 TCTGGAAAGA
* *
1313675 AAATGTATCGATACATTTGTTATTGTATCGATAAATT-TTGGATTCTAACCT
1 AAATGTATCGATACATTTGTTATTGTATCAATAAATTCTGGGATTCTAACCT
* * * * * * * *
1313726 AAATGTATTGATACTTTTTTTGTTGTATCAATACATTCTGGGTTTTTGACCT
1 AAATGTATCGATACATTTGTTATTGTATCAATAAATTCTGGGATTCTAACCT
1313778 AAATGTATCGATACATT
1 AAATGTATCGATACATT
1313795 CTTTAATGTA
Statistics
Matches: 56, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
51 31 0.55
52 25 0.45
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (52 bp):
AAATGTATCGATACATTTGTTATTGTATCAATAAATTCTGGGATTCTAACCT
Found at i:1313812 original size:52 final size:50
Alignment explanation
Indices: 1313675--1313813 Score: 143
Period size: 52 Copynumber: 2.7 Consensus size: 50
1313665 TCTGGAAAGA
* *
1313675 AAATGTATCGATACATTTGTTATTGTATCGATAAATTTTGGATTCTAACCT
1 AAATGTATCGATACATTT-TTATTGTATCGATACATTTGGGATTCTAACCT
* * * * * * *
1313726 AAATGTATTGATACTTTTTTTGTTGTATCAATACATTCTGGGTTTTTGACCT
1 AAATGTATCGATAC-ATTTTTATTGTATCGATACATT-TGGGATTCTAACCT
* *
1313778 AAATGTATCGATACATTCTTTAATGTATTGATACAT
1 AAATGTATCGATACATT-TTTATTGTATCGATACAT
1313814 ACAGGCTATT
Statistics
Matches: 70, Mismatches: 15, Indels: 5
0.78 0.17 0.06
Matches are distributed among these distances:
51 30 0.43
52 40 0.57
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (50 bp):
AAATGTATCGATACATTTTTATTGTATCGATACATTTGGGATTCTAACCT
Found at i:1316335 original size:78 final size:79
Alignment explanation
Indices: 1316214--1316573 Score: 241
Period size: 78 Copynumber: 4.6 Consensus size: 79
1316204 ATTGAGAATG
* * * * **
1316214 CTCTAACCCCATTATTTTTGAGAGGATACTCTAACCCTATTTTTACTTCCAAAATATTAAAATTT
1 CTCTAACCTCGTTA-TTTCGAGTGGATACTCTAACCCCGTTTTTACTTCCAAAATATTAAAATTT
* *
1316279 TCATC-TTGGGGATA
65 TCACCATCGGGGATA
* * * ** *
1316293 CTTTAAGCTCGTTATTTCAGAG-GGATACTCTAACCCCGTTTTTATTTCCAAAAT-TTTGATTTT
1 CTCTAACCTCGTTATTTC-GAGTGGATACTCTAACCCCGTTTTTACTTCCAAAATATTAAAATTT
1316356 TCACCATCGGGGATA
65 TCACCATCGGGGATA
* *** * *
1316371 CTCTAACCTCGTTATTTCGAGTGGATACTCCAATATCGTTTTTACTTCCAATATATCAAAATTTT
1 CTCTAACCTCGTTATTTCGAGTGGATACTCTAACCCCGTTTTTACTTCCAAAATATTAAAATTTT
* * *
1316436 CACCATCAGAGATG
66 CACCATCGGGGATA
* * * * * **
1316450 TTGC-AACC-CTATTATTTTTGAAGAGG-TACTCTAATCCCGTTTTTACTTTTAAAAT-TTAAAA
1 CT-CTAACCTC-GTTA-TTTCG-AGTGGATACTCTAACCCCGTTTTTACTTCCAAAATATTAAAA
**
1316511 TTTTTCTTC-TCGGGGATA
62 -TTTTCACCATCGGGGATA
* * * * ** *
1316529 CTTTAACCTCATTATTTTCAAGGGGAGGCTCTAACCCCATTTTTA
1 CTCTAACCTCGTTA-TTTCGAGTGGATACTCTAACCCCGTTTTTA
1316574 TTTTTATTTC
Statistics
Matches: 216, Mismatches: 53, Indels: 24
0.74 0.18 0.08
Matches are distributed among these distances:
77 13 0.06
78 87 0.40
79 77 0.36
80 35 0.16
81 4 0.02
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.40
Consensus pattern (79 bp):
CTCTAACCTCGTTATTTCGAGTGGATACTCTAACCCCGTTTTTACTTCCAAAATATTAAAATTTT
CACCATCGGGGATA
Found at i:1316717 original size:79 final size:78
Alignment explanation
Indices: 1316586--1316850 Score: 225
Period size: 79 Copynumber: 3.4 Consensus size: 78
1316576 TTTATTTCGA
* * * *
1316586 GGATACTCAAACCCCATCATTTCTGAAGGGATACTCCAA-CCTCGTTTTTATTTCT-AAAATATC
1 GGATACTCCAACCCCATCATTTTTGAGGGGATACTCTAACCCT-GTTTTTATTT-TAAAAATATC
1316649 GATTTTTCACCATCGG
64 GA-TTTTCACCATCGG
* *
1316665 GGATACTCCAACCCCATTATTTTTGAGGGGATACTCTAACCCTGTTTTTATTTTAAAAATATTAA
1 GGATACTCCAACCCCATCATTTTTGAGGGGATACTCTAACCCTGTTTTTATTTTAAAAATA-T-C
* * * *
1316730 AATTTGCATC-TCAG
64 GATTTTCACCATCGG
* * * * * * ** *
1316744 GTATACCCCAACCCCCTTATTTTTGAGGGGATACTCTAGCTCC-CTTTTTATTTTCGAGATATCG
1 GGATACTCCAACCCCATCATTTTTGAGGGGATACTCTAAC-CCTGTTTTTATTTTAAAAATATCG
*
1316808 ATTTTCACCATTGG
65 ATTTTCACCATCGG
* * * *
1316822 GGAGATTTCAACCCTATCATTTTT-AGGGG
1 GGATACTCCAACCCCATCATTTTTGAGGGG
1316851 GATATTCCAA
Statistics
Matches: 148, Mismatches: 32, Indels: 14
0.76 0.16 0.07
Matches are distributed among these distances:
77 12 0.08
78 20 0.14
79 103 0.70
80 12 0.08
81 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.37
Consensus pattern (78 bp):
GGATACTCCAACCCCATCATTTTTGAGGGGATACTCTAACCCTGTTTTTATTTTAAAAATATCGA
TTTTCACCATCGG
Found at i:1316766 original size:220 final size:221
Alignment explanation
Indices: 1316393--1316797 Score: 471
Period size: 220 Copynumber: 1.8 Consensus size: 221
1316383 TATTTCGAGT
* * ** *
1316393 GGATACTCCAATATCGTTTTTACTTCCAATATATCAAAATTTTCACCATCAGAGATGTTGCAACC
1 GGATACTCCAACATCGTTTTTACTTCCAAAATATCAAAATTTTCACCATCAGAGATACTCCAACC
* * * *
1316458 CTATTATTTTTGAAGAGGTACTCTAATCCCGTTTTTACTTTTAAAATTTAAAATTTTTCTTCTCG
66 CCATTATTTTTGAAGAGGTACTCTAATCCCGTTTTTACTTTTAAAATTTAAAATTTTGCATCTCA
*** * *
1316523 GGGATACTTTAACCTCATTATTTTCAAGGGGAGGCTCTAAC-CCCATTTTTATTTTTATTTCGAG
131 GGGATACCCCAACCCCATTATTTTCAAGGGGAGACTCTAACTCCC-TTTTTATTTTTATTTCGAG
1316587 GATACTCAAACCCCATCATTTCTGAAG
195 GATACTCAAACCCCATCATTTCTGAAG
* * * * * * *
1316614 GGATACTCCAACCTCGTTTTTATTTCTAAAATATC-GATTTTTCACCATCGGGGATACTCCAACC
1 GGATACTCCAACATCGTTTTTACTTCCAAAATATCAAAATTTTCACCATCAGAGATACTCCAACC
*
1316678 CCATTATTTTTG-AGGGGATACTCTAA-CCCTGTTTTTA-TTTTAAAAATATTAAAA-TTTGCAT
66 CCATTATTTTTGAAGAGG-TACTCTAATCCC-GTTTTTACTTTT-AAAAT-TTAAAATTTTGCAT
* * ** * *
1316739 CTCAGGTATACCCCAACCCCCTTATTTTTGAGGGGATACTCTAGCTCCCTTTTTATTTT
127 CTCAGGGATACCCCAACCCCATTATTTTCAAGGGGAGACTCTAACTCCCTTTTTATTTT
1316798 CGAGATATCG
Statistics
Matches: 151, Mismatches: 28, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
219 11 0.07
220 101 0.67
221 39 0.26
ACGTcount: A:0.27, C:0.21, G:0.12, T:0.39
Consensus pattern (221 bp):
GGATACTCCAACATCGTTTTTACTTCCAAAATATCAAAATTTTCACCATCAGAGATACTCCAACC
CCATTATTTTTGAAGAGGTACTCTAATCCCGTTTTTACTTTTAAAATTTAAAATTTTGCATCTCA
GGGATACCCCAACCCCATTATTTTCAAGGGGAGACTCTAACTCCCTTTTTATTTTTATTTCGAGG
ATACTCAAACCCCATCATTTCTGAAG
Found at i:1320269 original size:20 final size:20
Alignment explanation
Indices: 1320217--1320270 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
1320207 AGAAAGAAAA
* *
1320217 TGTATCCATACAATTTTCAT
1 TGTATCGATACATTTTTCAT
1320237 TGTATCGATACATTTTTCAT
1 TGTATCGATACATTTTTCAT
1320257 TGTATCGATACATT
1 TGTATCGATACATT
1320271 CTAGGTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.28, C:0.17, G:0.09, T:0.46
Consensus pattern (20 bp):
TGTATCGATACATTTTTCAT
Found at i:1320314 original size:20 final size:20
Alignment explanation
Indices: 1320289--1320339 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
1320279 TTAACCAAAG
*
1320289 TGTATCGATACATTCTTTAA
1 TGTATCGATACATTCTTCAA
1320309 TGTATCGATACATTCTTCAA
1 TGTATCGATACATTCTTCAA
1320329 TGTATCGATAC
1 TGTATCGATAC
1320340 GCGTAGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATTCTTCAA
Found at i:1324540 original size:10 final size:8
Alignment explanation
Indices: 1324509--1324547 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
1324499 GTAGAAATTG
*
1324509 AAAATTAA
1 AAAATAAA
1324517 AAAATAAA
1 AAAATAAA
1324525 AAAATAAA
1 AAAATAAA
1324533 AATTAATAAA
1 AA--AATAAA
1324543 AAAAT
1 AAAAT
1324548 CATGAAATGC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 20 0.71
10 8 0.29
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAATAAA
Found at i:1324543 original size:15 final size:16
Alignment explanation
Indices: 1324509--1324547 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
1324499 GTAGAAATTG
1324509 AAAATTAAAAAATAAA
1 AAAATTAAAAAATAAA
*
1324525 AAAATAAAAATTAATAAA
1 AAAATTAAAA--AATAAA
1324543 AAAAT
1 AAAAT
1324548 CATGAAATGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
18 11 0.55
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (16 bp):
AAAATTAAAAAATAAA
Found at i:1324791 original size:16 final size:16
Alignment explanation
Indices: 1324766--1324797 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1324756 CGCATGGAAC
*
1324766 ATGCAGCACGTGAAGT
1 ATGCAACACGTGAAGT
1324782 ATGCAACACGTGAAGT
1 ATGCAACACGTGAAGT
1324798 GCTGTGAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.19
Consensus pattern (16 bp):
ATGCAACACGTGAAGT
Found at i:1325135 original size:56 final size:55
Alignment explanation
Indices: 1324966--1325220 Score: 339
Period size: 56 Copynumber: 4.6 Consensus size: 55
1324956 CAAAGGAAAA
* * * *
1324966 ATAGCACGAACAGCAACCTCCAGCAATCAAGAAACTCCAACCAGCAGCTTCTACG
1 ATAGCACGAACAACAACCTCCAGCAATAAAAAAACTCCAACCAGCAGCTTCCACG
* * * * *
1325021 ATAGCACGAACAACAACCTCCATCAATTAAGAAACTTCAACCAGTAGCTTCCACG
1 ATAGCACGAACAACAACCTCCAGCAATAAAAAAACTCCAACCAGCAGCTTCCACG
*
1325076 ATAGCACGAACAACAACCTCCAGCAATAAAAAAAACTCCAACCAGCAGCTTCCATG
1 ATAGCACGAACAACAACCTCCAGCAAT-AAAAAAACTCCAACCAGCAGCTTCCACG
* * * * * *
1325132 ATAGCACAAACAACAACCTCCAACAATCAAAAAAACTCTAGCTAACAGCTTCCACG
1 ATAGCACGAACAACAACCTCCAGCAAT-AAAAAAACTCCAACCAGCAGCTTCCACG
*
1325188 ATAGCACGAACAGCAACCTCCAGCAATAAAAAA
1 ATAGCACGAACAACAACCTCCAGCAATAAAAAA
1325221 TAACCTAGTC
Statistics
Matches: 176, Mismatches: 23, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
55 81 0.46
56 95 0.54
ACGTcount: A:0.44, C:0.32, G:0.11, T:0.14
Consensus pattern (55 bp):
ATAGCACGAACAACAACCTCCAGCAATAAAAAAACTCCAACCAGCAGCTTCCACG
Found at i:1325219 original size:111 final size:110
Alignment explanation
Indices: 1324966--1325220 Score: 359
Period size: 111 Copynumber: 2.3 Consensus size: 110
1324956 CAAAGGAAAA
* * * *
1324966 ATAGCACGAACAGCAACCTCCAGCAATCAAGAAACTCCAACCAGCAGCTTCTACGATAGCACGAA
1 ATAGCACGAACAGCAACCTCCAGCAATAAAAAAACTCCAACCAGCAGCTTCCACGATAGCACAAA
* * * **
1325031 CAACAACCTCCATCAATTAAGAAACTTCAACCAGTAGCTTCCACG
66 CAACAACCTCCAACAATAAAAAAACTTCAACCAACAGCTTCCACG
* *
1325076 ATAGCACGAACAACAACCTCCAGCAATAAAAAAAACTCCAACCAGCAGCTTCCATGATAGCACAA
1 ATAGCACGAACAGCAACCTCCAGCAAT-AAAAAAACTCCAACCAGCAGCTTCCACGATAGCACAA
* *
1325141 ACAACAACCTCCAACAATCAAAAAAAC-TCTAGCTAACAGCTTCCACG
65 ACAACAACCTCCAACAAT-AAAAAAACTTC-AACCAACAGCTTCCACG
1325188 ATAGCACGAACAGCAACCTCCAGCAATAAAAAA
1 ATAGCACGAACAGCAACCTCCAGCAATAAAAAA
1325221 TAACCTAGTC
Statistics
Matches: 128, Mismatches: 14, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
110 26 0.20
111 57 0.45
112 45 0.35
ACGTcount: A:0.44, C:0.32, G:0.11, T:0.14
Consensus pattern (110 bp):
ATAGCACGAACAGCAACCTCCAGCAATAAAAAAACTCCAACCAGCAGCTTCCACGATAGCACAAA
CAACAACCTCCAACAATAAAAAAACTTCAACCAACAGCTTCCACG
Found at i:1325926 original size:65 final size:65
Alignment explanation
Indices: 1325852--1325982 Score: 235
Period size: 65 Copynumber: 2.0 Consensus size: 65
1325842 CAAAACAAAA
1325852 TTCATGGATGCGAATATGAAATTTGCTAAGTTGTTGAACCCCATAATGTGTACGTGATGACCTTG
1 TTCATGGATGCGAATATGAAATTTGCTAAGTTGTTGAACCCCATAATGTGTACGTGATGACCTTG
* * *
1325917 TTCATGGATGCGAATATGAAATTTGCTGAGTTGTTGAACCCCATCATGTGTACGTGGTGACCTTG
1 TTCATGGATGCGAATATGAAATTTGCTAAGTTGTTGAACCCCATAATGTGTACGTGATGACCTTG
1325982 T
1 T
1325983 CATTCTTGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.34
Consensus pattern (65 bp):
TTCATGGATGCGAATATGAAATTTGCTAAGTTGTTGAACCCCATAATGTGTACGTGATGACCTTG
Found at i:1332689 original size:20 final size:19
Alignment explanation
Indices: 1332664--1332716 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
1332654 TATCACTTTT
1332664 TGTATCGATACATG-GTACAA
1 TGTATCGATACATGAG-A-AA
1332684 TGTATCGATACATGAAGAAA
1 TGTATCGATACATG-AGAAA
1332704 TGTATCGATACAT
1 TGTATCGATACAT
1332717 AGCCTGTAAC
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:1337209 original size:33 final size:32
Alignment explanation
Indices: 1337149--1337210 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 32
1337139 TTTGTCCATG
*
1337149 TATCGATACAATGAACACGTATCGATACAATC
1 TATCGATACAAAGAACACGTATCGATACAATC
* *
1337181 TATCGATACAAAGTAGCATGTATCGATACA
1 TATCGATACAAAG-AACACGTATCGATACA
1337211 TCTGGGTGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 12 0.46
33 14 0.54
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (32 bp):
TATCGATACAAAGAACACGTATCGATACAATC
Found at i:1339669 original size:13 final size:13
Alignment explanation
Indices: 1339651--1339679 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1339641 AGATAGTACC
1339651 CAATGTATCGATA
1 CAATGTATCGATA
1339664 CAATGTATCGATA
1 CAATGTATCGATA
1339677 CAA
1 CAA
1339680 GGAATGTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1341630 original size:20 final size:21
Alignment explanation
Indices: 1341605--1341657 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
1341595 ATTGATACAT
**
1341605 TGTATCGATACATGACCAA-A
1 TGTATCGATACATGAAAAAGA
*
1341625 TGTATCGATACTTGAAAAAGA
1 TGTATCGATACATGAAAAAGA
1341646 TGTATCGATACA
1 TGTATCGATACA
1341658 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAAGA
Found at i:1341727 original size:13 final size:13
Alignment explanation
Indices: 1341709--1341733 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1341699 ACACACAGTA
1341709 TGTATCGATACAT
1 TGTATCGATACAT
1341722 TGTATCGATACA
1 TGTATCGATACA
1341734 CCATAAAATG
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:1341752 original size:33 final size:32
Alignment explanation
Indices: 1341689--1341756 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
1341679 GTAGCCAAAC
**
1341689 TTGTATCGATACACACAGTATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
* *
1341721 TTGTATCGATACACCATAAAATGTATTGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
1341754 TTG
1 TTG
1341757 GCTTGTAACG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:1348117 original size:20 final size:21
Alignment explanation
Indices: 1348081--1348121 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
1348071 CAAAATTCTT
1348081 GTTTTTCACTACAAAATACATC
1 GTTTTTCACTACAAAAT-CATC
1348103 GTTTTTCA-T-CAAAATCATC
1 GTTTTTCACTACAAAATCATC
1348122 AAAAACAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.39
Consensus pattern (21 bp):
GTTTTTCACTACAAAATCATC
Found at i:1349651 original size:13 final size:13
Alignment explanation
Indices: 1349633--1349657 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1349623 ATGTTGCACA
1349633 GTATCGATACATT
1 GTATCGATACATT
1349646 GTATCGATACAT
1 GTATCGATACAT
1349658 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:1349670 original size:20 final size:21
Alignment explanation
Indices: 1349645--1349697 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
1349635 ATCGATACAT
**
1349645 TGTATCGATACATGACCAA-A
1 TGTATCGATACATGAAAAAGA
*
1349665 TGTATCGATACTTGAAAAAGA
1 TGTATCGATACATGAAAAAGA
1349686 TGTATCGATACA
1 TGTATCGATACA
1349698 GGTCATTGGC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGAAAAAGA
Found at i:1349858 original size:20 final size:21
Alignment explanation
Indices: 1349833--1349871 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
1349823 TTTCAAATGC
1349833 TTGTATCGATACA-TCACAAA
1 TTGTATCGATACATTCACAAA
1349853 TTGTATCGATACATTCACA
1 TTGTATCGATACATTCACA
1349872 TGGGAAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (21 bp):
TTGTATCGATACATTCACAAA
Found at i:1350586 original size:33 final size:32
Alignment explanation
Indices: 1350521--1350588 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 32
1350511 GTAGCCAAAC
** * *
1350521 TTGTATCGATACACACAGTATGTATTGCTACA
1 TTGTATCGATACACACAAAATGTATCGATACA
*
1350553 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
1350586 TTG
1 TTG
1350589 GCTTGTAACG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 13 0.43
33 17 0.57
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:1354669 original size:15 final size:15
Alignment explanation
Indices: 1354651--1354680 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1354641 CAAATTGAGG
1354651 AAGCTCAAAATGAAA
1 AAGCTCAAAATGAAA
*
1354666 AAGCTCCAAATGAAA
1 AAGCTCAAAATGAAA
1354681 TCGATGAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.17, G:0.13, T:0.13
Consensus pattern (15 bp):
AAGCTCAAAATGAAA
Found at i:1356763 original size:13 final size:13
Alignment explanation
Indices: 1356745--1356783 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1356735 ACAGCATTCT
1356745 TTGTATCGATACA
1 TTGTATCGATACA
1356758 TTGTATCGATACA
1 TTGTATCGATACA
*
1356771 CTGTATCGATACA
1 TTGTATCGATACA
1356784 GGGGGATTAT
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:1359358 original size:13 final size:13
Alignment explanation
Indices: 1359340--1359364 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1359330 ACACACAATA
1359340 TGTATCGATACAT
1 TGTATCGATACAT
1359353 TGTATCGATACA
1 TGTATCGATACA
1359365 CCATAAAATG
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:1359361 original size:32 final size:33
Alignment explanation
Indices: 1359320--1359383 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
1359310 GTAGCCAAAC
*
1359320 TTGTATCGATACA-CACAATATGTATCGATACA
1 TTGTATCGATACACCACAAAATGTATCGATACA
*
1359352 TTGTATCGATACACCATAAAATGTATCGATAC
1 TTGTATCGATACACCACAAAATGTATCGATAC
1359384 TTTGGCTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (33 bp):
TTGTATCGATACACCACAAAATGTATCGATACA
Found at i:1366035 original size:55 final size:54
Alignment explanation
Indices: 1365951--1366489 Score: 542
Period size: 55 Copynumber: 9.4 Consensus size: 54
1365941 ACTTTTTAGC
1365951 CCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTCAGT
1 CCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTCAGT
* * **
1366006 CCTCAAAGAGTAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTCCCCAGT
1 CCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCAGT
* * **
1366061 TCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATGAGTTGGTGGCACCTCTCAGT
1 CCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCT-TCAGT
*
1366116 CCTCAAAGAGCAGGACGCCTTTTAAAGCCCACATAAGTTGGTGGCA-CTTCCCAGT
1 CCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT--CAGT
* * * **
1366171 CCTCAAAGAGTAGGACGCCTTTCAAAGCCCACAAAAGTTGGTGGCATTTTCTAGT
1 CCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC-AGT
* * *
1366226 CCTCAATGAGCAGGATGCTTTCTCTTTGCAAAG-CCACACAAGTTGGTGGCACCTTCCAAT
1 CCTCAAAGAGCAGGACGC---CT-TTT--AAAGCCCACACAAGTTGGTGGCACCTT-CAGT
* **
1366286 CCTTAAAGAGCAGGACGCCTCGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGT
1 CCTCAAAGAGCAGGACGCCT----TTT-AAAGCCCACACAAGTTGGTGGCACCTT-CAGT
* * *
1366346 CCTCAAAGAGCAGGATGCTTTCCCTCTACAAAGTCCACACAAGTTGGTGGCACCTTCCAGT
1 CCTCAAAGAGCAGGACGCCTT---T-T--AAAGCCCACACAAGTTGGTGGCACCTT-CAGT
1366407 CCTCAAAGAGCAGGACGCCTTTTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
1 CCTCAAAGAGCAGGACGCC---T-TTT--AAAGCCCACACAAGTTGGTGGCACC-TTCAGT
* *
1366468 CCCCAAAAAGCAGGACGCCTTT
1 CCTCAAAGAGCAGGACGCCTTT
1366490 CCGTTTCAAA
Statistics
Matches: 412, Mismatches: 45, Indels: 52
0.81 0.09 0.10
Matches are distributed among these distances:
53 1 0.00
54 5 0.01
55 202 0.49
56 3 0.01
57 4 0.01
58 3 0.01
59 8 0.02
60 82 0.20
61 99 0.24
62 3 0.01
64 1 0.00
65 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (54 bp):
CCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
Found at i:1366145 original size:110 final size:111
Alignment explanation
Indices: 1365951--1366489 Score: 604
Period size: 110 Copynumber: 4.7 Consensus size: 111
1365941 ACTTTTTAGC
* *
1365951 CCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTCAGTCCTCAAAGAG
1 CCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAG
*
1366016 TAGGATGCCTTTT-AAAGCCCACACAAGTTGGTGGCA-CTCCCCAGT
66 CAGGATGCCTTTTCAAAGCCCACACAAGTTGGTGGCACCT-CCCAGT
* ** *
1366061 TCTCAAAGAGCAGGACGCCTTTCAAAGCCCACATGAGTTGGTGGCACCTCTCAGTCCTCAAAGAG
1 CCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAG
* * *
1366126 CAGGACGCCTTTT-AAAGCCCACATAAGTTGGTGGCACTTCCCAGT
66 CAGGATGCCTTTTCAAAGCCCACACAAGTTGGTGGCACCTCCCAGT
* * * *
1366171 CCTCAAAGAGTAGGACGCCTTTCAAAGCCCACAAAAGTTGGTGGCA-TTTTCTAGTCCTCAATGA
1 CCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGA
* *
1366235 GCAGGATGCTTTCTCTTTGCAAAG-CCACACAAGTTGGTGGCACCTTCCAAT
65 GCAGGATGC---CT-TTT-CAAAGCCCACACAAGTTGGTGGCACCTCCCAGT
* *
1366286 CCTTAAAGAGCAGGACGCCTCGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTC
1 CCTCAAAGAGCAGGA-----CGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTC
* * *
1366350 AAAGAGCAGGATGCTTTCCCTCTACAAAGTCCACACAAGTTGGTGGCACCTTCCAGT
60 AAAGAGCAGGATGCCTT---T-T-CAAAGCCCACACAAGTTGGTGGCACCTCCCAGT
*
1366407 CCTCAAAGAGCAGGACGCCTTTTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCC
1 CCTCAAAGAGCAGGACG-C----CTTT-CAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTC
* *
1366472 AAAAAGCAGGACGCCTTT
60 AAAGAGCAGGATGCCTTT
1366490 CCGTTTCAAA
Statistics
Matches: 368, Mismatches: 35, Indels: 43
0.83 0.08 0.10
Matches are distributed among these distances:
109 3 0.01
110 159 0.43
111 1 0.00
113 2 0.01
114 3 0.01
115 36 0.10
116 7 0.02
117 2 0.01
119 2 0.01
120 60 0.16
121 45 0.12
122 45 0.12
123 3 0.01
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (111 bp):
CCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAG
CAGGATGCCTTTTCAAAGCCCACACAAGTTGGTGGCACCTCCCAGT
Found at i:1367406 original size:19 final size:19
Alignment explanation
Indices: 1367382--1367445 Score: 77
Period size: 19 Copynumber: 3.7 Consensus size: 19
1367372 TTTCAGCGAT
*
1367382 TTGTATTGATACATAAGTG
1 TTGTATCGATACATAAGTG
1367401 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
1367415 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
1367433 TTGTATCGATACA
1 TTGTATCGATACA
1367446 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:1367419 original size:32 final size:32
Alignment explanation
Indices: 1367383--1367458 Score: 134
Period size: 32 Copynumber: 2.4 Consensus size: 32
1367373 TTCAGCGATT
*
1367383 TGTATTGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1367415 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1367447 TGTATCGCTACA
1 TGTATCGATACA
1367459 AAGCTACTGC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1367420 original size:13 final size:13
Alignment explanation
Indices: 1367402--1367459 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
1367392 ACATAAGTGT
1367402 TGTATCGATACAA
1 TGTATCGATACAA
1367415 TGTATCGATACATAA
1 TGTATCGATAC--AA
1367430 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
*
1367447 TGTATCGCTACAA
1 TGTATCGATACAA
1367460 AGCTACTGCG
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1368124 original size:13 final size:13
Alignment explanation
Indices: 1368106--1368136 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1368096 ACATTTCTTC
1368106 ATGTATCGATACA
1 ATGTATCGATACA
1368119 ATGTATCGATACA
1 ATGTATCGATACA
*
1368132 TTGTA
1 ATGTA
1368137 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1368207 original size:21 final size:20
Alignment explanation
Indices: 1368181--1368236 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
1368171 CTGCTAGTTT
**
1368181 CATGTATCGATACAATTTGTC
1 CATGTATCGATACAA-TTGAA
*
1368202 CATGTATTGATACAA-TGAA
1 CATGTATCGATACAATTGAA
1368221 CATGTATCGATACAAT
1 CATGTATCGATACAAT
1368237 CTATCGATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 16 0.53
21 14 0.47
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:1370394 original size:26 final size:28
Alignment explanation
Indices: 1370347--1370405 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 28
1370337 ATGTGATTTT
* * *
1370347 ATGATTTTTGATGATTCATGTTTTGTTGA
1 ATGAATTTTGATGATT-ATGTTATATTGA
1370376 ATGAATTTTGATG-TT-TGTTATATTGA
1 ATGAATTTTGATGATTATGTTATATTGA
1370402 ATGA
1 ATGA
1370406 TTGAATTATG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 13 0.48
28 2 0.07
29 12 0.44
ACGTcount: A:0.25, C:0.02, G:0.20, T:0.53
Consensus pattern (28 bp):
ATGAATTTTGATGATTATGTTATATTGA
Found at i:1370577 original size:13 final size:13
Alignment explanation
Indices: 1370559--1370599 Score: 73
Period size: 13 Copynumber: 3.2 Consensus size: 13
1370549 ACAATATTCC
1370559 TTGTATCGATACA
1 TTGTATCGATACA
1370572 TTGTATCGATACA
1 TTGTATCGATACA
*
1370585 ATGTATCGATACA
1 TTGTATCGATACA
1370598 TT
1 TT
1370600 AGGTACTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.39
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1372486 original size:51 final size:50
Alignment explanation
Indices: 1372431--1372534 Score: 122
Period size: 51 Copynumber: 2.0 Consensus size: 50
1372421 ATGTGAAAAT
*
1372431 AATTTTTTTT-TATTTTATA-AAAGGGGGAGAAGATAATCGTTTAAAGGGGAG
1 AATTTTTTTTAAATTTTATATAAA---GGAGAAGATAATCGTTTAAAGGGGAG
* * *
1372482 AATTTTTTTTAAAATTTTTTATAAAGGAGGAGATAATCGTTTAAGGGGGAG
1 AATTTTTTTT-AAATTTTATATAAAGGAGAAGATAATCGTTTAAAGGGGAG
1372533 AA
1 AA
1372535 AAATGAAAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
51 36 0.78
53 7 0.15
54 3 0.07
ACGTcount: A:0.37, C:0.02, G:0.24, T:0.38
Consensus pattern (50 bp):
AATTTTTTTTAAATTTTATATAAAGGAGAAGATAATCGTTTAAAGGGGAG
Found at i:1373077 original size:19 final size:20
Alignment explanation
Indices: 1373053--1373105 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
1373043 CACACCCAGA
**
1373053 TGTATCGATACATGTTC-AT
1 TGTATCGATACATGGACAAT
1373072 TGTATCGATACATGGACAAT
1 TGTATCGATACATGGACAAT
1373092 TGTATCGATACATG
1 TGTATCGATACATG
1373106 AAACTGGCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATGGACAAT
Found at i:1373176 original size:33 final size:33
Alignment explanation
Indices: 1373134--1373200 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 33
1373124 CTATCACTAT
*
1373134 TTGTATCGATACATGATA-CAATGTATCGATACA
1 TTGTATCGATACATGA-AGAAATGTATCGATACA
1373167 TTGTATCGATACATGAAGAAATGTATCGATACA
1 TTGTATCGATACATGAAGAAATGTATCGATACA
1373200 T
1 T
1373201 AGCCTGCAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 1 0.03
33 31 0.97
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.33
Consensus pattern (33 bp):
TTGTATCGATACATGAAGAAATGTATCGATACA
Found at i:1373180 original size:13 final size:13
Alignment explanation
Indices: 1373148--1373180 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
1373138 ATCGATACAT
*
1373148 GATACAATGTATC
1 GATACATTGTATC
1373161 GATACATTGTATC
1 GATACATTGTATC
1373174 GATACAT
1 GATACAT
1373181 GAAGAAATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
GATACATTGTATC
Done.