Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
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: 10425128
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 51
Found at i:1538611 original size:16 final size:16
Alignment explanation
Indices: 1538590--1538639 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
1538580 CAATTAAAAC
1538590 AAAAAAATAAT-TAATT
1 AAAAAAATAATATAA-T
1538606 AAAAAAAT-ATATAAT
1 AAAAAAATAATATAAT
*
1538621 AAAAAATTAATAATAAT
1 AAAAAAATAAT-ATAAT
1538638 AA
1 AA
1538640 TAATAGTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 10 0.33
16 13 0.43
17 7 0.23
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAAAAATAATATAAT
Found at i:1538621 original size:23 final size:23
Alignment explanation
Indices: 1538602--1538671 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 23
1538592 AAAAATAATT
1538602 AATTAA-AAAAATATATAATAAAA
1 AATTAATAAAAATA-ATAATAAAA
*
1538625 AATTAATAATAATAATAATAGTAAA
1 AATTAATAAAAATAATAATA--AAA
*
1538650 AATAATAATAACAATAATAATA
1 AAT--TAATAAAAATAATAATA
1538672 TATTATATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 12 0.30
24 6 0.15
25 6 0.15
27 16 0.40
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.29
Consensus pattern (23 bp):
AATTAATAAAAATAATAATAAAA
Found at i:1538622 original size:3 final size:3
Alignment explanation
Indices: 1538611--1538671 Score: 63
Period size: 3 Copynumber: 20.3 Consensus size: 3
1538601 TAATTAAAAA
* *
1538611 AAT ATAT AAT AA- AA- AATT AAT AAT AAT AAT AAT AGT AAA AAT AAT
1 AAT A-AT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
1538656 AAT AAC AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
1538672 TATTATATAT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.08
3 40 0.82
4 5 0.10
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:1538641 original size:27 final size:26
Alignment explanation
Indices: 1538593--1538671 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 26
1538583 TTAAAACAAA
1538593 AAAATAATTAATTAA-AAAAATATATAAT
1 AAAA-AATTAA-TAATAAAAATA-ATAAT
* *
1538621 AAAAAATTAATAATAATAATAATAGT
1 AAAAAATTAATAATAAAAATAATAAT
*
1538647 -AAAAA-TAATAATAACAATAATAAT
1 AAAAAATTAATAATAAAAATAATAAT
1538671 A
1 A
1538672 TATTATATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
24 17 0.38
25 5 0.11
26 7 0.16
27 12 0.27
28 4 0.09
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (26 bp):
AAAAAATTAATAATAAAAATAATAAT
Found at i:1538726 original size:23 final size:24
Alignment explanation
Indices: 1538677--1538726 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1538667 TAATATATTA
1538677 TATATAAAAAATATTTCCAAAAAC
1 TATATAAAAAATATTTCCAAAAAC
* * *
1538701 TATATAATATATATTTTC-AAAAC
1 TATATAAAAAATATTTCCAAAAAC
1538724 TAT
1 TAT
1538727 TTTAAACTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (24 bp):
TATATAAAAAATATTTCCAAAAAC
Found at i:1538779 original size:73 final size:72
Alignment explanation
Indices: 1538696--1539081 Score: 391
Period size: 73 Copynumber: 5.3 Consensus size: 72
1538686 AATATTTCCA
*
1538696 AAAACTATATA-ATATATATTTTCAAAACTATTTT-AAACTATATATTATATATATATTTTTTAA
1 AAAACTATATATATATATATTTTCAAAA-TATTTTAAAACTATATA-TATATATATA-TTTTCAA
1538759 AAATGTTTTC
63 AAATGTTTTC
* *
1538769 AAAACTATATAT-TATATAGTTTTCAAAAATGTTTTAAAACTATATAT-TATATATGTTTTCAAA
1 AAAACTATATATATATATA-TTTTC-AAAATATTTTAAAACTATATATATATATATATTTTCAAA
1538832 AATGTTTT-
64 AATGTTTTC
* * * * *
1538840 AAAATTATATATTATATATGTTTTCAAAAATGTTTTAAAAACTATATAT-TATATA-AGTTTCCA
1 AAAACTATATA-TATATATATTTTC-AAAATATTTT-AAAACTATATATATATATATATTTTCAA
*
1538903 AAATGATTTC
63 AAATGTTTTC
*
1538913 AAAACTATATAT-TATATAAGTTTTCAAAATGATTTCAAAACTATATACTATATA-AGT-TTTT-
1 AAAACTATATATATATAT-A-TTTTCAAAAT-ATTTTAAAACTATATA-TATATATA-TATTTTC
* *
1538974 TAAATTGTTTTC
61 AAAAATGTTTTC
1538986 AAAAACTATATATTATATATATTTTCAAAATATTTTCAAAACTATATAT-TATATATATATTTCA
1 -AAAACTATATA-TATATATATTTTCAAAATATTTT-AAAACTATATATATATATATAT-TTTCA
** *
1539050 AAAATCATTTG
62 AAAATGTTTTC
1539061 AAAACTATAATATATATATAT
1 AAAACTAT-ATATATATATAT
1539082 ATATAATAAA
Statistics
Matches: 266, Mismatches: 23, Indels: 47
0.79 0.07 0.14
Matches are distributed among these distances:
71 15 0.06
72 67 0.25
73 83 0.31
74 70 0.26
75 26 0.10
76 5 0.02
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (72 bp):
AAAACTATATATATATATATTTTCAAAATATTTTAAAACTATATATATATATATATTTTCAAAAA
TGTTTTC
Found at i:1538797 original size:36 final size:36
Alignment explanation
Indices: 1538696--1539080 Score: 399
Period size: 36 Copynumber: 10.5 Consensus size: 36
1538686 AATATTTCCA
* * *
1538696 AAAACTATATAATATATA-TTTTCAAAACTATTTT-
1 AAAACTATATATTATATAGTTTTCAAAAATGTTTTC
* *
1538730 -AAACTATATATTATATATATATTTTTTAAAAATGTTTTC
1 AAAAC--TATA-TAT-TATATAGTTTTCAAAAATGTTTTC
1538769 AAAACTATATATTATATAGTTTTCAAAAATGTTTT-
1 AAAACTATATATTATATAGTTTTCAAAAATGTTTTC
1538804 AAAACTATATATTATATATGTTTTCAAAAATGTTTT-
1 AAAACTATATATTATATA-GTTTTCAAAAATGTTTTC
* *
1538840 AAAATTATATATTATATATGTTTTCAAAAATGTTTTA
1 AAAACTATATATTATATA-GTTTTCAAAAATGTTTTC
* *
1538877 AAAACTATATATTATATAAG-TTTCCAAAATGATTTC
1 AAAACTATATATTATAT-AGTTTTCAAAAATGTTTTC
*
1538913 AAAACTATATATTATATAAGTTTTC-AAAATGATTTC
1 AAAACTATATATTATAT-AGTTTTCAAAAATGTTTTC
* ** *
1538949 AAAACTATATACTATATAAGTTTTTTAAATTGTTTTC
1 AAAACTATATATTATAT-AGTTTTCAAAAATGTTTTC
* *
1538986 AAAAACTATATATTATATATATTTTC-AAAATATTTTC
1 -AAAACTATATATTATATA-GTTTTCAAAAATGTTTTC
* ** *
1539023 AAAACTATATATTATATATATATTTCAAAAATCATTTG
1 AAAACTATATATTATATA-GT-TTTCAAAAATGTTTTC
1539061 AAAACTATAATATATATATA
1 AAAACTAT-ATAT-TATATA
1539081 TATATAATAA
Statistics
Matches: 310, Mismatches: 23, Indels: 30
0.85 0.06 0.08
Matches are distributed among these distances:
33 4 0.01
35 22 0.07
36 163 0.53
37 53 0.17
38 54 0.17
39 4 0.01
40 10 0.03
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (36 bp):
AAAACTATATATTATATAGTTTTCAAAAATGTTTTC
Found at i:1539205 original size:29 final size:30
Alignment explanation
Indices: 1539169--1539289 Score: 153
Period size: 29 Copynumber: 4.2 Consensus size: 30
1539159 AATAAAGGAC
*
1539169 AACTTTTTGGAATTTACAATAAAGGT-CAA
1 AACTTTTTGGAATTTACAATAAAGATACAA
1539198 AACTTTTTGGAATTTACAATAAA-ATACAA
1 AACTTTTTGGAATTTACAATAAAGATACAA
*
1539227 AACTTTTTGGAATTTGCAATAAAG-TACAA
1 AACTTTTTGGAATTTACAATAAAGATACAA
** *
1539256 AA-TATTTTATAAATTACAATAAA-ATACAA
1 AACT-TTTTGGAATTTACAATAAAGATACAA
1539285 AACTT
1 AACTT
1539290 CATAGAAATT
Statistics
Matches: 81, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
28 2 0.02
29 78 0.96
30 1 0.01
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (30 bp):
AACTTTTTGGAATTTACAATAAAGATACAA
Found at i:1539238 original size:58 final size:58
Alignment explanation
Indices: 1539169--1539289 Score: 174
Period size: 58 Copynumber: 2.1 Consensus size: 58
1539159 AATAAAGGAC
* *
1539169 AACTTTTTGGAATTTACAATAAAGGT-CAAAACT-TTTTGGAATTTACAATAAAATACAA
1 AACTTTTTGGAATTTACAATAAA-GTACAAAA-TATTTTAGAAATTACAATAAAATACAA
* *
1539227 AACTTTTTGGAATTTGCAATAAAGTACAAAATATTTTATAAATTACAATAAAATACAA
1 AACTTTTTGGAATTTACAATAAAGTACAAAATATTTTAGAAATTACAATAAAATACAA
1539285 AACTT
1 AACTT
1539290 CATAGAAATT
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
57 3 0.05
58 54 0.95
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (58 bp):
AACTTTTTGGAATTTACAATAAAGTACAAAATATTTTAGAAATTACAATAAAATACAA
Found at i:1539298 original size:29 final size:29
Alignment explanation
Indices: 1539169--1539306 Score: 127
Period size: 29 Copynumber: 4.8 Consensus size: 29
1539159 AATAAAGGAC
* * *
1539169 AACTTTTTGGAATTTACAATAAAGGT-CAA
1 AACTTTTTAGAAATTACAATAAA-ATACAA
* *
1539198 AACTTTTTGGAATTTACAATAAAATACAA
1 AACTTTTTAGAAATTACAATAAAATACAA
* * * *
1539227 AACTTTTTGGAATTTGCAATAAAGTACAA
1 AACTTTTTAGAAATTACAATAAAATACAA
*
1539256 AA-TATTTTATAAATTACAATAAAATACAA
1 AACT-TTTTAGAAATTACAATAAAATACAA
** *
1539285 AACTTCATAGAAATTCCAATAA
1 AACTTTTTAGAAATTACAATAA
1539307 TGACACTTCT
Statistics
Matches: 94, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
28 2 0.02
29 91 0.97
30 1 0.01
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.33
Consensus pattern (29 bp):
AACTTTTTAGAAATTACAATAAAATACAA
Found at i:1542069 original size:2 final size:2
Alignment explanation
Indices: 1542064--1542088 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1542054 AAGGTCTTCA
1542064 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1542089 AGTTTGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1548532 original size:20 final size:21
Alignment explanation
Indices: 1548507--1548549 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
1548497 TCATAAAATC
*
1548507 ATTTATGAGTA-CAAAATAAA
1 ATTTATCAGTATCAAAATAAA
1548527 ATTTATCAGTATTCAAAATAAA
1 ATTTATCAGTA-TCAAAATAAA
1548549 A
1 A
1548550 CAGATTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 10 0.50
22 10 0.50
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (21 bp):
ATTTATCAGTATCAAAATAAA
Found at i:1560213 original size:108 final size:109
Alignment explanation
Indices: 1559920--1560218 Score: 356
Period size: 110 Copynumber: 2.7 Consensus size: 109
1559910 GACCAGAATG
**
1559920 AAAAACACGCTTAAATAAGAGGGACTAATTAGA-AAATATTCCAATAAATATATAACATACATGA
1 AAAAACACGCTTAAATAAGAGGGACTAAACA-ACAAATATTCCAATAAATATATAACATACATGA
* * *
1559984 AAAAGTGGTAAATAACATATTTTGTCATCGCAAGTGACTAAAGTAC
65 AAAA-TGGTAAATAATATATTTAGTCATCGCAAGTGACCAAAGTAC
* *
1560030 AAAAACACGCTTAAATAAGAGGGATTAAACAACAAATATTCCAA-ATAATATATAACATATATGA
1 AAAAACACGCTTAAATAAGAGGGACTAAACAACAAATATTCCAATA-AATATATAACATACATG-
* * * *
1560094 AAAAAGGGTAAATAATATATTTAGTCCTCGCAGGTGACCAAAGT-G
64 AAAAATGGTAAATAATATATTTAGTCATCGCAAGTGACCAAAGTAC
* * * * * *
1560139 AAAAA-GCGC-TAAACTATGGGGGACTAAACAACAAATGTTCCAATAAATATATAAAATGCATGA
1 AAAAACACGCTTAAA-TAAGAGGGACTAAACAACAAATATTCCAATAAATATATAACATACATGA
1560202 AAAATGAGTAAATAATA
65 AAAATG-GTAAATAATA
1560219 GTTGGTCCTC
Statistics
Matches: 163, Mismatches: 20, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
107 10 0.06
108 52 0.32
109 8 0.05
110 88 0.54
111 5 0.03
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.24
Consensus pattern (109 bp):
AAAAACACGCTTAAATAAGAGGGACTAAACAACAAATATTCCAATAAATATATAACATACATGAA
AAATGGTAAATAATATATTTAGTCATCGCAAGTGACCAAAGTAC
Found at i:1560251 original size:108 final size:109
Alignment explanation
Indices: 1559931--1560261 Score: 315
Period size: 110 Copynumber: 3.0 Consensus size: 109
1559921 AAAACACGCT
**
1559931 TAAA-TAAGAGGGACTAATTAGA-AAATATTCCAATAAATATATAACATACATGAAAAAGTGGTA
1 TAAACTAAGAGGGACTAAACA-ACAAATATTCCAATAAATATATAACATACATGAAAAA-TGGTA
* * *
1559994 AATAACATATTTTGTCATCGCA-AGTGACTAAAGTACAAAAACA-CGC
64 AATAACATATTTAGTCCTCGCAGA-TGACCAAAGTACAAAAA-AGCGC
* * *
1560040 TTAAA-TAAGAGGGATTAAACAACAAATATTCCAA-ATAATATATAACATATATGAAAAAAGGGT
1 -TAAACTAAGAGGGACTAAACAACAAATATTCCAATA-AATATATAACATACATG-AAAAATGGT
* * *
1560103 AAATAATATATTTAGTCCTCGCAGGTGACCAAAGT--GAAAAAGCGC
63 AAATAACATATTTAGTCCTCGCAGATGACCAAAGTACAAAAAAGCGC
* * * * *
1560148 TAAACTATGGGGGACTAAACAACAAATGTTCCAATAAATATATAAAATGCATGAAAAATGAGTAA
1 TAAACTAAGAGGGACTAAACAACAAATATTCCAATAAATATATAACATACATGAAAAATG-GTAA
* * * *
1560213 AT-A-ATAGTTGGTCCTCGCAGATAACCAAA-TAACAAAAAATGAGC
65 ATAACATATTTAGTCCTCGCAGATGACCAAAGT-ACAAAAAA-GCGC
1560257 TAAAC
1 TAAAC
1560262 CTGGGGACTT
Statistics
Matches: 184, Mismatches: 25, Indels: 25
0.79 0.11 0.11
Matches are distributed among these distances:
105 1 0.01
106 22 0.12
107 12 0.07
108 57 0.31
109 11 0.06
110 76 0.41
111 5 0.03
ACGTcount: A:0.49, C:0.13, G:0.15, T:0.24
Consensus pattern (109 bp):
TAAACTAAGAGGGACTAAACAACAAATATTCCAATAAATATATAACATACATGAAAAATGGTAAA
TAACATATTTAGTCCTCGCAGATGACCAAAGTACAAAAAAGCGC
Found at i:1560267 original size:108 final size:107
Alignment explanation
Indices: 1559953--1560275 Score: 241
Period size: 108 Copynumber: 3.0 Consensus size: 107
1559943 ACTAATTAGA
* * * * * *
1559953 AAATATTCC-AATAAATATATAACATACATG-AAAAAGTGGTAAATAACATATTTTGTCATCGCA
1 AAATATTCCAAAT-AATATATAAAATACATGAAAAAAG-AGTAAATAATATAGTTAGTCCTCGCA
* * * * *
1560016 -AGTGACTAAAGTACAAAAACACGCTTAAA-TAAGAGGGATTAAACAAC
64 GA-TAACCAAAGTA-AAAAAGA-GC-TAAACTATG-GGGACTAAACAAC
* * * * *
1560063 AAATATTCCAAATAATATATAACATATATGAAAAAAGGGTAAATAATATATTTAGTCCTCGCAGG
1 AAATATTCCAAATAATATATAAAATACATGAAAAAAGAGTAAATAATATAGTTAGTCCTCGCAGA
* * *
1560128 TGACCAAAGTGAAAAAGCGCTAAACTATGGGGGACTAAACAAC
66 TAACCAAAGTAAAAAAGAGCTAAACTAT-GGGGACTAAACAAC
* * * *
1560171 AAATGTTCC-AATAAATATATAAAATGCATGAAAAATGAGTAAAT-A-ATAGTTGGTCCTCGCAG
1 AAATATTCCAAAT-AATATATAAAATACATGAAAAAAGAGTAAATAATATAGTTAGTCCTCGCAG
*
1560233 ATAACCAAA-TAACAAAAAATGAGCTAAAC-CTGGGGACTTAAAC
65 ATAACCAAAGT---AAAAAA-GAGCTAAACTATGGGGAC-TAAAC
1560276 GTGATTTTAT
Statistics
Matches: 178, Mismatches: 24, Indels: 24
0.79 0.11 0.11
Matches are distributed among these distances:
105 1 0.01
106 22 0.12
107 14 0.08
108 61 0.34
109 14 0.08
110 57 0.32
111 9 0.05
ACGTcount: A:0.48, C:0.14, G:0.15, T:0.24
Consensus pattern (107 bp):
AAATATTCCAAATAATATATAAAATACATGAAAAAAGAGTAAATAATATAGTTAGTCCTCGCAGA
TAACCAAAGTAAAAAAGAGCTAAACTATGGGGACTAAACAAC
Found at i:1560368 original size:9 final size:9
Alignment explanation
Indices: 1560356--1560385 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
1560346 AAAAAAACTT
*
1560356 TCTCCCCTC
1 TCTCCTCTC
1560365 TCTCCTCTC
1 TCTCCTCTC
1560374 TCTCCTCTC
1 TCTCCTCTC
1560383 TCT
1 TCT
1560386 TAGTCGACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (9 bp):
TCTCCTCTC
Found at i:1560566 original size:9 final size:9
Alignment explanation
Indices: 1560554--1560583 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
1560544 AAAAAAACTT
*
1560554 TCTCCCCTC
1 TCTCCTCTC
1560563 TCTCCTCTC
1 TCTCCTCTC
1560572 TCTCCTCTC
1 TCTCCTCTC
1560581 TCT
1 TCT
1560584 TAGTCGACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (9 bp):
TCTCCTCTC
Found at i:1561998 original size:17 final size:18
Alignment explanation
Indices: 1561963--1562004 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
1561953 TACTTTATAT
**
1561963 TATATTTACTTATTTGCA
1 TATATTTACTTATGAGCA
1561981 TATATTTA-TTATGAGCA
1 TATATTTACTTATGAGCA
*
1561998 TACATTT
1 TATATTT
1562005 TCATATAGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.31, C:0.10, G:0.07, T:0.52
Consensus pattern (18 bp):
TATATTTACTTATGAGCA
Found at i:1563327 original size:22 final size:21
Alignment explanation
Indices: 1563291--1563331 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
1563281 CATCTCCATT
1563291 TCATCATCAACACCATCAACA
1 TCATCATCAACACCATCAACA
*
1563312 TCATCCATCAAGACCATCAA
1 TCAT-CATCAACACCATCAA
1563332 TTCCGCAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.41, C:0.37, G:0.02, T:0.20
Consensus pattern (21 bp):
TCATCATCAACACCATCAACA
Found at i:1564214 original size:22 final size:22
Alignment explanation
Indices: 1564171--1564223 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
1564161 TATACCCTTG
1564171 GTATCGATA--CTCTCAACTCA
1 GTATCGATACCCTCTCAACTCA
1564191 GTATCGATACCCTCTTCAAC-CA
1 GTATCGATACCCTC-TCAACTCA
*
1564213 GTACCGATACC
1 GTATCGATACC
1564224 ATACTTCGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 9 0.31
22 15 0.52
23 5 0.17
ACGTcount: A:0.28, C:0.34, G:0.11, T:0.26
Consensus pattern (22 bp):
GTATCGATACCCTCTCAACTCA
Found at i:1564230 original size:23 final size:24
Alignment explanation
Indices: 1564177--1564230 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
1564167 CTTGGTATCG
*
1564177 ATACTCTCAACTCAGTATCGATACC
1 ATACT-TCAACTCAGTACCGATACC
*
1564202 CT-CTTCAAC-CAGTACCGATACC
1 ATACTTCAACTCAGTACCGATACC
1564224 ATACTTC
1 ATACTTC
1564231 GAAATCCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 13 0.52
23 9 0.36
24 2 0.08
25 1 0.04
ACGTcount: A:0.30, C:0.35, G:0.07, T:0.28
Consensus pattern (24 bp):
ATACTTCAACTCAGTACCGATACC
Found at i:1564635 original size:17 final size:17
Alignment explanation
Indices: 1564615--1564661 Score: 94
Period size: 17 Copynumber: 2.8 Consensus size: 17
1564605 TAATTTATTT
1564615 CTCTTATTGTTTTACTC
1 CTCTTATTGTTTTACTC
1564632 CTCTTATTGTTTTACTC
1 CTCTTATTGTTTTACTC
1564649 CTCTTATTGTTTT
1 CTCTTATTGTTTT
1564662 GCTCTCATAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.11, C:0.21, G:0.06, T:0.62
Consensus pattern (17 bp):
CTCTTATTGTTTTACTC
Found at i:1565067 original size:3 final size:3
Alignment explanation
Indices: 1565061--1565118 Score: 80
Period size: 3 Copynumber: 19.3 Consensus size: 3
1565051 ATATATTTTA
** **
1565061 AAT AAT AAT AAT AAT GGT AAT AAT AAT AAT AAT GGT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1565109 AAT AAT AAT A
1 AAT AAT AAT A
1565119 TAAAGTATTA
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1565118 original size:18 final size:18
Alignment explanation
Indices: 1565061--1565111 Score: 102
Period size: 18 Copynumber: 2.8 Consensus size: 18
1565051 ATATATTTTA
1565061 AATAATAATAATAATGGT
1 AATAATAATAATAATGGT
1565079 AATAATAATAATAATGGT
1 AATAATAATAATAATGGT
1565097 AATAATAATAATAAT
1 AATAATAATAATAAT
1565112 AATAATATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (18 bp):
AATAATAATAATAATGGT
Found at i:1565791 original size:203 final size:203
Alignment explanation
Indices: 1565363--1566469 Score: 1409
Period size: 203 Copynumber: 5.5 Consensus size: 203
1565353 TGCGATGGTT
* *
1565363 GAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTCCATCATCGGATGAGTTCTTCTC
1 GAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTC
* ** *
1565428 ATTATGAACTCTCCACTGGAAATGTTAATCCA-CTATTTCTGTGATGGAATCGAACAAAGTGATG
66 ATTATGAACTCTCCACTGGAAATGTTGATCCACCTCCTTATGTGATGGAATCGAACAAAGTGATG
* * * * * *
1565492 ATGCTGATCCAACTCAATATACGATGGATGAGCCAATTATCGGT-ACTGTTCCAACTCTTTATGT
131 ATGCTGATCCAACTCCATATGCAATGGATGAGCCAAGTATTGGTGA-TGTTCCAACTCCTTATGT
*
1565556 GATGGAGTT
195 GATGGAGTC
* * *
1565565 AAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTCCCTCATCGGATGAGTTCTTATC
1 GAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTC
* * * * *
1565630 ATTATGAACCCTCCACTGGAAATATTGACCCACCTCCTTCTGTGATGGAGTCGAACAAAGTGATG
66 ATTATGAACTCTCCACTGGAAATGTTGATCCACCTCCTTATGTGATGGAATCGAACAAAGTGATG
* * * *
1565695 ATGGTGATCGAAATCCATATGTAATGGATGAGCCAAGTATTGGTGATGTTCCAACTCCTTATGTG
131 ATGCTGATCCAACTCCATATGCAATGGATGAGCCAAGTATTGGTGATGTTCCAACTCCTTATGTG
*
1565760 ATGTAGTC
196 ATGGAGTC
* * * * * ** *
1565768 GAGCTAAGATTGAACATGTTCTTCTTATTATGAACTTCTTCTCCATTATCGGCCGAATTCTTCTC
1 GAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTC
* * * * * * *
1565833 ATTATGAACTCTCCATTAGAATTGTTAATCCTCCTCCTTTTGTGATGGAATCGAACAAAGTGATT
66 ATTATGAACTCTCCACTGGAAATGTTGATCCACCTCCTTATGTGATGGAATCGAACAAAGTGATG
* * * * * * *
1565898 ATGCTAATCCAACTCCACATGTC-ATAGATGAGCCAATTATCGGAGATGTTCCAACTTCTTATGT
131 ATGCTGATCCAACTCCATATG-CAATGGATGAGCCAAGTATTGGTGATGTTCCAACTCCTTATGT
* *
1565962 GATGAACTC
195 GATGGAGTC
*
1565971 GAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTT
1 GAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTC
* * *
1566036 AATATGAACCCTCCACTGGAAATGTTGATCCACCTTCTTATGTGATGGAATCGAACAAAGTGATG
66 ATTATGAACTCTCCACTGGAAATGTTGATCCACCTCCTTATGTGATGGAATCGAACAAAGTGATG
* *
1566101 ATGCTGATCCAACTCCATATGCGATGGATGAGCCAAGTATTGGTG-TGGTTCCAACTCTTTATGT
131 ATGCTGATCCAACTCCATATGCAATGGATGAGCCAAGTATTGGTGAT-GTTCCAACTCCTTATGT
1566165 GATGGAGTC
195 GATGGAGTC
* * * *
1566174 GAG-TTAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTCATCGGA-CAGGTTCTTTT
1 GAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGA-GTTCTTCT
* * * * * **
1566237 CATTATGAACTCTCTACTGGAATTGTTGATCTATCTCTTTATGTGATTAAATCGAACAAAGTGAT
65 CATTATGAACTCTCCACTGGAAATGTTGATCCACCTCCTTATGTGATGGAATCGAACAAAGTGAT
* * * * * *
1566302 GATGTTGTTTCAAATCCAAATGCAATGGATGAGCCAAGTATTGGTGATGTTCTAACTCCTTATGT
130 GATGCTGATCCAACTCCATATGCAATGGATGAGCCAAGTATTGGTGATGTTCCAACTCCTTATGT
**
1566367 GATGGAAAC
195 GATGGAGTC
*
1566376 GAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCA-CTGGATGAGTTCTTTT
1 GAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATC-GGATGAGTTCTTCT
* *
1566440 CATTATTAACTCTCCCATTGGAAATGTTGA
65 CATTATGAACTCT-CCACTGGAAATGTTGA
1566470 CTAGTTTATC
Statistics
Matches: 776, Mismatches: 118, Indels: 20
0.85 0.13 0.02
Matches are distributed among these distances:
201 1 0.00
202 266 0.34
203 494 0.64
204 15 0.02
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.35
Consensus pattern (203 bp):
GAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTTCTTCTC
ATTATGAACTCTCCACTGGAAATGTTGATCCACCTCCTTATGTGATGGAATCGAACAAAGTGATG
ATGCTGATCCAACTCCATATGCAATGGATGAGCCAAGTATTGGTGATGTTCCAACTCCTTATGTG
ATGGAGTC
Found at i:1566413 original size:405 final size:403
Alignment explanation
Indices: 1565363--1566470 Score: 1469
Period size: 405 Copynumber: 2.7 Consensus size: 403
1565353 TGCGATGGTT
* *
1565363 GAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTCCATCATCGGA-TGAGTTCTTCT
1 GAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCATCATCGGACAGAGTTCTTCT
* * *
1565427 CATTATGAACTCTCCACTGGAAATGTTAATCCACTATTTCTGTGATGGAATCGAACAAAGTGATG
66 CATTATGAACTCTCCACTGGAATTGTTAATCTACTCTTT-TGTGATGGAATCGAACAAAGTGATG
* *
1565492 ATGCTGATCCAACT-CAATATACGATGGATGAGCCAATTATCGGT-ACTGTTCCAACTCTTTATG
130 ATGCTGATCCAACTCCAA-ATGC-ATGGATGAGCCAATTATCGGTGA-TGTTCCAACTCCTTATG
* ** *
1565555 TGATGGAGTTAAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTTTTCTCCCTCATCGGATG
192 TGATGGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATG
* * * *
1565620 AGTTCTTATCATTATGAACCCTCCACTGGAAATATTGACCCACCTCCTTCTGTGATGGAGTCGAA
257 AGTTCTT-TTATTATGAACCCTCCACTGGAAATGTTGACCCACCTCCTTATGTGATGGAATCGAA
* * *
1565685 CAAAGTGATGATGGTGATCGAAATCCATATGTAATGGATGAGCCAAGTATTGGTGATGTTCCAAC
321 CAAAGTGATGATGCTGATCCAAATCCATATGCAATGGATGAGCCAAGTATTGGTGATGTTCCAAC
*
1565750 TCCTTATGTGATGTAGTC
386 TCCTTATGTGATGGAGTC
* * * * * *
1565768 GAGCTAAGATTGAACATGTTCTTCTTATTATGAACTTCTTCTCCATTATCGG-CCGAATTCTTCT
1 GAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCATCATCGGACAGAGTTCTTCT
* * *
1565832 CATTATGAACTCTCCATTAGAATTGTTAATCCTCCTCCTTTTGTGATGGAATCGAACAAAGTGAT
66 CATTATGAACTCTCCACTGGAATTGTTAAT-CTACT-CTTTTGTGATGGAATCGAACAAAGTGAT
* * * * * *
1565897 TATGCTAATCCAACTCCACATGTCATAGATGAGCCAATTATCGGAGATGTTCCAACTTCTTATGT
129 GATGCTGATCCAACTCCAAATG-CATGGATGAGCCAATTATCGGTGATGTTCCAACTCCTTATGT
1565962 GAT-GAACTCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATG
193 GATGGAA-TCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATG
* * *
1566026 AGTTCTTCTTAATATGAACCCTCCACTGGAAATGTTGATCCACCTTCTTATGTGATGGAATCGAA
257 AGTTCTT-TTATTATGAACCCTCCACTGGAAATGTTGACCCACCTCCTTATGTGATGGAATCGAA
* *
1566091 CAAAGTGATGATGCTGATCCAACTCCATATGCGATGGATGAGCCAAGTATTGGTG-TGGTTCCAA
321 CAAAGTGATGATGCTGATCCAAATCCATATGCAATGGATGAGCCAAGTATTGGTGAT-GTTCCAA
*
1566155 CTCTTTATGTGATGGAGTC
385 CTCCTTATGTGATGGAGTC
* * * *
1566174 GAG-TTAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTCATCGGACAG-GTTCTTTT
1 GAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCATCATCGGACAGAGTTCTTCT
* * **
1566237 CATTATGAACTCTCTACTGGAATTGTTGATCTATCTCTTTATGTGATTAAATCGAACAAAGTGAT
66 CATTATGAACTCTCCACTGGAATTGTTAATCTA-CTCTTT-TGTGATGGAATCGAACAAAGTGAT
* * * * * * *
1566302 GATGTTGTTTCAAATCCAAATGCAATGGATGAGCCAAGTATTGGTGATGTTCTAACTCCTTATGT
129 GATGCTGATCCAACTCCAAATGC-ATGGATGAGCCAATTATCGGTGATGTTCCAACTCCTTATGT
*
1566367 GATGGAAACGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCA-CTGGATG
193 GATGGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATC-GGATG
* * *
1566431 AGTTCTTTTCATTATTAACTCTCCCATTGGAAATGTTGAC
257 AGTTCTTTT-ATTATGAACCCT-CCACTGGAAATGTTGAC
1566471 TAGTTTATCC
Statistics
Matches: 611, Mismatches: 76, Indels: 31
0.85 0.11 0.04
Matches are distributed among these distances:
404 10 0.02
405 306 0.50
406 288 0.47
407 7 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.35
Consensus pattern (403 bp):
GAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCATCATCGGACAGAGTTCTTCT
CATTATGAACTCTCCACTGGAATTGTTAATCTACTCTTTTGTGATGGAATCGAACAAAGTGATGA
TGCTGATCCAACTCCAAATGCATGGATGAGCCAATTATCGGTGATGTTCCAACTCCTTATGTGAT
GGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAGTT
CTTTTATTATGAACCCTCCACTGGAAATGTTGACCCACCTCCTTATGTGATGGAATCGAACAAAG
TGATGATGCTGATCCAAATCCATATGCAATGGATGAGCCAAGTATTGGTGATGTTCCAACTCCTT
ATGTGATGGAGTC
Found at i:1567202 original size:24 final size:22
Alignment explanation
Indices: 1567175--1567224 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
1567165 CCTCAAGGGG
1567175 CACTGAATATTTATCCCGAAGGAC
1 CACTGAATA--TATCCCGAAGGAC
* *
1567199 CACTGGATATGTCCCGAAGGAC
1 CACTGAATATATCCCGAAGGAC
1567221 CACT
1 CACT
1567225 ATAACCCTCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 16 0.67
24 8 0.33
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (22 bp):
CACTGAATATATCCCGAAGGAC
Found at i:1567848 original size:62 final size:64
Alignment explanation
Indices: 1567738--1567901 Score: 170
Period size: 62 Copynumber: 2.6 Consensus size: 64
1567728 TGCATTTCAT
* * * *
1567738 AATGTGTGCACCGATGCACTACCTGTGCATCGGTACACAAATCACATTCGATGTTTTAATATT-
1 AATGAGTGCATCGATGCACTACATGTGCATCGATACACAAATCACATTCGATGTTTTAATATTA
* * * ** ** * *
1567801 AA-GGGTGCATCGATGCACTACTTGTGCATCGATGCACTGATGGCATTCGATGTTTTTATTTTA
1 AATGAGTGCATCGATGCACTACATGTGCATCGATACACAAATCACATTCGATGTTTTAATATTA
* * *
1567864 AATGAGTGAATCGATACACTTCATGTGCATCGATACAC
1 AATGAGTGCATCGATGCACTACATGTGCATCGATACAC
1567902 CTTGAACAAT
Statistics
Matches: 82, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
62 49 0.60
63 4 0.05
64 29 0.35
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (64 bp):
AATGAGTGCATCGATGCACTACATGTGCATCGATACACAAATCACATTCGATGTTTTAATATTA
Found at i:1569364 original size:19 final size:19
Alignment explanation
Indices: 1569340--1569384 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
1569330 TGATAAACAT
1569340 AATCTTTACGTAATCAAAC
1 AATCTTTACGTAATCAAAC
1569359 AATCTTTACGTAATCAAAC
1 AATCTTTACGTAATCAAAC
1569378 AATCTTT
1 AATCTTT
1569385 CACATTACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.40, C:0.20, G:0.04, T:0.36
Consensus pattern (19 bp):
AATCTTTACGTAATCAAAC
Found at i:1570720 original size:2 final size:2
Alignment explanation
Indices: 1570713--1570743 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1570703 CAAACTATCC
1570713 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1570744 ATCTTTCCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1572701 original size:40 final size:40
Alignment explanation
Indices: 1572655--1572792 Score: 197
Period size: 40 Copynumber: 3.5 Consensus size: 40
1572645 ACTGAATATT
*
1572655 TGTCCCGAAGGACCACTACGTCCTGAATGACCACTGGATA
1 TGTCCCGAAGGACCACTACGTCCTGAAAGACCACTGGATA
* *
1572695 TGTCCCGAAGGATCACTACAT-CTCGAAAGACCACTGGATA
1 TGTCCCGAAGGACCACTACGTCCT-GAAAGACCACTGGATA
* * *
1572735 TGTCTCGAATGACCACTACGTCCCGAAAGACCACTGGATA
1 TGTCCCGAAGGACCACTACGTCCTGAAAGACCACTGGATA
*
1572775 TGTCCCGAATGACCACTA
1 TGTCCCGAAGGACCACTA
1572793 TAACCCTCGA
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
39 2 0.02
40 84 0.97
41 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (40 bp):
TGTCCCGAAGGACCACTACGTCCTGAAAGACCACTGGATA
Found at i:1572729 original size:18 final size:18
Alignment explanation
Indices: 1572708--1572769 Score: 52
Period size: 18 Copynumber: 3.2 Consensus size: 18
1572698 CCCGAAGGAT
1572708 CACTACATCTCGAAAGAC
1 CACTACATCTCGAAAGAC
* *
1572726 CACTGGATATGTCTCGAATGAC
1 CACT--ACA--TCTCGAAAGAC
* *
1572748 CACTACGTCCCGAAAGAC
1 CACTACATCTCGAAAGAC
1572766 CACT
1 CACT
1572770 GGATATGTCC
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
18 17 0.50
20 3 0.09
22 14 0.41
ACGTcount: A:0.32, C:0.32, G:0.16, T:0.19
Consensus pattern (18 bp):
CACTACATCTCGAAAGAC
Found at i:1572743 original size:22 final size:22
Alignment explanation
Indices: 1572674--1572791 Score: 90
Period size: 22 Copynumber: 5.7 Consensus size: 22
1572664 GGACCACTAC
* *
1572674 GTCCTGAATGACCACTGGATAT
1 GTCCCGAAAGACCACTGGATAT
* * *
1572696 GTCCCGAAGGATCACT--ACA-
1 GTCCCGAAAGACCACTGGATAT
*
1572715 -TCTCGAAAGACCACTGGATAT
1 GTCCCGAAAGACCACTGGATAT
* * *
1572736 GTCTCGAATGACCAC----TAC
1 GTCCCGAAAGACCACTGGATAT
1572754 GTCCCGAAAGACCACTGGATAT
1 GTCCCGAAAGACCACTGGATAT
*
1572776 GTCCCGAATGACCACT
1 GTCCCGAAAGACCACT
1572792 ATAACCCTCG
Statistics
Matches: 74, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
18 27 0.36
20 4 0.05
22 43 0.58
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (22 bp):
GTCCCGAAAGACCACTGGATAT
Found at i:1573292 original size:20 final size:23
Alignment explanation
Indices: 1573267--1573324 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 23
1573257 AATGAAGGTA
1573267 TGCATCGATGCACTC-T-ACA-G
1 TGCATCGATGCACTCATAACATG
*
1573287 TGCATCGATGCATTTCATAACATG
1 TGCATCGATGCA-CTCATAACATG
1573311 TGCATCGATGCACT
1 TGCATCGATGCACT
1573325 ACCTGTGCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 12 0.38
21 2 0.06
22 1 0.03
23 4 0.12
24 13 0.41
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (23 bp):
TGCATCGATGCACTCATAACATG
Found at i:1575173 original size:11 final size:11
Alignment explanation
Indices: 1575157--1575203 Score: 62
Period size: 11 Copynumber: 4.5 Consensus size: 11
1575147 ATTTTCATCA
1575157 TTTTTCTTTTC
1 TTTTTCTTTTC
1575168 TTTTTCTTTTC
1 TTTTTCTTTTC
*
1575179 TTTTT-GTTTC
1 TTTTTCTTTTC
*
1575189 -TTTTCCTTTC
1 TTTTTCTTTTC
1575199 TTTTT
1 TTTTT
1575204 TTTATTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 4 0.12
10 8 0.25
11 20 0.62
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (11 bp):
TTTTTCTTTTC
Found at i:1575197 original size:6 final size:5
Alignment explanation
Indices: 1575158--1575206 Score: 57
Period size: 5 Copynumber: 9.8 Consensus size: 5
1575148 TTTTCATCAT
*
1575158 TTTTC TTTTC TTTTTC TTTTC TTTT- TGTTTC TTTTC CTTTC TTTT- TTTT
1 TTTTC TTTTC -TTTTC TTTTC TTTTC T-TTTC TTTTC TTTTC TTTTC TTTT
1575207 ATTATTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
4 5 0.13
5 28 0.72
6 6 0.15
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:1575224 original size:9 final size:10
Alignment explanation
Indices: 1575201--1575226 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
1575191 TTCCTTTCTT
1575201 TTTTTTATTA
1 TTTTTTATTA
1575211 TTTTTTATTA
1 TTTTTTATTA
1575221 TTTTTT
1 TTTTTT
1575227 TTCTCTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTATTA
Found at i:1584441 original size:129 final size:129
Alignment explanation
Indices: 1584211--1584464 Score: 454
Period size: 129 Copynumber: 2.0 Consensus size: 129
1584201 CATACTTGTG
* *
1584211 GGAGATATTCTATTGACTCCCTAATAAGTGAAAATTTCCTTAGGTTTTAAAATAAGATGCTATCA
1 GGAGATATGCTATTGACTCCCTAATAAGTGAAAATTGCCTTAGGTTTTAAAATAAGATGCTATCA
*
1584276 AACAATTTATTATTAATCCTAATTAAACTAAAGATAGATTAAGGCTTTCTTTATCTTAAATGCA
66 AACAATTTATTATTAATCCTAATTAAACTAAAGATAGATTAAGGCTTTATTTATCTTAAATGCA
* *
1584340 GGAGATATGCTATTGACTCCTTAATAAGTGAACATTGCCTTAGGTTTTAAAATAAGATGCTATCA
1 GGAGATATGCTATTGACTCCCTAATAAGTGAAAATTGCCTTAGGTTTTAAAATAAGATGCTATCA
*
1584405 AACAATTTATTATTAATCTTAATTAAACTAAAGATAGATTAAGGCTTTATTTATCTTAAA
66 AACAATTTATTATTAATCCTAATTAAACTAAAGATAGATTAAGGCTTTATTTATCTTAAA
1584465 GTGTCAAATT
Statistics
Matches: 119, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
129 119 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.37
Consensus pattern (129 bp):
GGAGATATGCTATTGACTCCCTAATAAGTGAAAATTGCCTTAGGTTTTAAAATAAGATGCTATCA
AACAATTTATTATTAATCCTAATTAAACTAAAGATAGATTAAGGCTTTATTTATCTTAAATGCA
Found at i:1585257 original size:29 final size:30
Alignment explanation
Indices: 1585203--1585262 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
1585193 AAGGGACTTG
* *
1585203 ATTAAAACAAAATAAAAATTACATAATTAA
1 ATTAAAACAAAATAAAAAATACATAAGTAA
*
1585233 ATTAAAAC-AAATAAAAAATAGATAAGTAA
1 ATTAAAACAAAATAAAAAATACATAAGTAA
1585262 A
1 A
1585263 ACATGCTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.23
Consensus pattern (30 bp):
ATTAAAACAAAATAAAAAATACATAAGTAA
Found at i:1585585 original size:110 final size:110
Alignment explanation
Indices: 1585416--1585632 Score: 328
Period size: 110 Copynumber: 2.0 Consensus size: 110
1585406 GCAAAAACAC
** * * * *
1585416 GCTTAAATAAGAGGGACTAATTAGCAAATATTTCAATAAATGTATAACATGCATGAAAAAGGGGT
1 GCTTAAATAAGAGGGACTAAACAGCAAATATTCCAATAAATATATAACATACATGAAAAAAGGGT
*
1585481 AAATAATAGATTTGGTCCTCGCAGGTGACCAAAGTGAAAAAATGT
66 AAATAATAGATTTGGTCCTCACAGGTGACCAAAGTGAAAAAATGT
1585526 GCTTAAATAAGAGGGACTAAACAGCAAATATTCCAA-ATAATATATAACATACATGAAAAAAGGG
1 GCTTAAATAAGAGGGACTAAACAGCAAATATTCCAATA-AATATATAACATACATGAAAAAAGGG
* * *
1585590 TAAATAATGGATTTGGTCCTTACAGGTGACCAAAGTGCAAAAA
65 TAAATAATAGATTTGGTCCTCACAGGTGACCAAAGTGAAAAAA
1585633 CGAACTAAAA
Statistics
Matches: 96, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
109 1 0.01
110 95 0.99
ACGTcount: A:0.45, C:0.12, G:0.19, T:0.24
Consensus pattern (110 bp):
GCTTAAATAAGAGGGACTAAACAGCAAATATTCCAATAAATATATAACATACATGAAAAAAGGGT
AAATAATAGATTTGGTCCTCACAGGTGACCAAAGTGAAAAAATGT
Found at i:1585713 original size:94 final size:95
Alignment explanation
Indices: 1585541--1585737 Score: 281
Period size: 94 Copynumber: 2.1 Consensus size: 95
1585531 AATAAGAGGG
* **
1585541 ACTAAACAGCAAATATTCCAAATAATATATAACATACATGAAAAAAGGGTAAATAATGGATTTGG
1 ACTAAACAGCAAATATTCCAAATAATATATAACATACATGAAAAAAGAGTAAATAACAGATTTGG
*
1585606 TCCTTACAGGTGACCAAAGTGCAAAAACGA
66 TCCTCACAGGTGACCAAAGTGCAAAAACGA
* * *
1585636 ACTAAA-ATCAAATGTTCC-AATAAATATATAACATACATGAAAAATGAGTAAATAACAGATTTG
1 ACTAAACAGCAAATATTCCAAAT-AATATATAACATACATGAAAAAAGAGTAAATAACAGATTTG
* *
1585699 GTCCTCACATGTGACCAAAGTGCAAAAACGC
65 GTCCTCACAGGTGACCAAAGTGCAAAAACGA
*
1585730 GCTAAACA
1 ACTAAACA
1585738 TGGGGGAACT
Statistics
Matches: 90, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
93 3 0.03
94 80 0.89
95 7 0.08
ACGTcount: A:0.47, C:0.16, G:0.14, T:0.22
Consensus pattern (95 bp):
ACTAAACAGCAAATATTCCAAATAATATATAACATACATGAAAAAAGAGTAAATAACAGATTTGG
TCCTCACAGGTGACCAAAGTGCAAAAACGA
Found at i:1586163 original size:2 final size:2
Alignment explanation
Indices: 1586156--1586195 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1586146 TTTTCTGTAA
1586156 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1586196 TCGAAACTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1586633 original size:23 final size:25
Alignment explanation
Indices: 1586606--1586661 Score: 73
Period size: 23 Copynumber: 2.3 Consensus size: 25
1586596 AGGATTTTAA
1586606 TTTGGGCCT-GAGTTTA-GGTTT-GG
1 TTTGGGCCTAG-GTTTAGGGTTTCGG
*
1586629 TTTGGGCCTAGGTTTAGGGTTTCTG
1 TTTGGGCCTAGGTTTAGGGTTTCGG
1586654 TTTGGGCC
1 TTTGGGCC
1586662 AGGATATTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
23 14 0.48
24 6 0.21
25 9 0.31
ACGTcount: A:0.07, C:0.12, G:0.38, T:0.43
Consensus pattern (25 bp):
TTTGGGCCTAGGTTTAGGGTTTCGG
Found at i:1586719 original size:3 final size:3
Alignment explanation
Indices: 1586713--1586753 Score: 64
Period size: 3 Copynumber: 13.3 Consensus size: 3
1586703 ATATATTTTA
*
1586713 AAT AAT AAT AAT AAT AAA AAGT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT A
1586754 TAAACTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 33 0.94
4 2 0.06
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:1591802 original size:15 final size:15
Alignment explanation
Indices: 1591782--1591994 Score: 151
Period size: 15 Copynumber: 13.7 Consensus size: 15
1591772 TGCGTATTAA
*
1591782 TAATTCTGATCGTAT
1 TAATTCTGCTCGTAT
*
1591797 TAATTCTGCTTGTATT
1 TAATTCTGCTCGTA-T
1591813 GATAATTCTGCTCGT-T
1 --TAATTCTGCTCGTAT
* *
1591829 TCAATTCTGCTTGTAA
1 T-AATTCTGCTCGTAT
*
1591845 TAATTCTGCTAGTAT
1 TAATTCTGCTCGTAT
*
1591860 TAATTCTGCTCAT-T
1 TAATTCTGCTCGTAT
* *
1591874 TCAATTCTGCTTGTAA
1 T-AATTCTGCTCGTAT
*
1591890 TAATTATGCTTCGTAT
1 TAATTCTGC-TCGTAT
* * *
1591906 TAATTATGCTTGTAA
1 TAATTCTGCTCGTAT
*
1591921 TAATTTTGCTCGTAT
1 TAATTCTGCTCGTAT
* *
1591936 TAATTATGCTTGTATT
1 TAATTCTGCTCGTA-T
*
1591952 GATAATTCTGCTTGTAT
1 --TAATTCTGCTCGTAT
* * *
1591969 TAATTCTTCTTGTAA
1 TAATTCTGCTCGTAT
*
1591984 TAATTGTGCTC
1 TAATTCTGCTC
1591995 ATAATTTTTT
Statistics
Matches: 159, Mismatches: 28, Indels: 22
0.76 0.13 0.11
Matches are distributed among these distances:
14 3 0.02
15 112 0.70
16 18 0.11
17 1 0.01
18 25 0.16
ACGTcount: A:0.24, C:0.14, G:0.13, T:0.49
Consensus pattern (15 bp):
TAATTCTGCTCGTAT
Found at i:1591812 original size:33 final size:33
Alignment explanation
Indices: 1591775--1591869 Score: 126
Period size: 33 Copynumber: 3.0 Consensus size: 33
1591765 ATCTGTCTGC
*
1591775 GTATTAATAATTCTGATCGTATTAATTCTGCTT
1 GTATTAATAATTCTGCTCGTATTAATTCTGCTT
*
1591808 GTATTGATAATTCTGCTCGT-TTCAATTCTGCTT
1 GTATTAATAATTCTGCTCGTATT-AATTCTGCTT
*
1591841 G---TAATAATTCTGCTAGTATTAATTCTGCT
1 GTATTAATAATTCTGCTCGTATTAATTCTGCT
1591870 CATTTCAATT
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
30 23 0.41
31 2 0.04
32 2 0.04
33 29 0.52
ACGTcount: A:0.24, C:0.15, G:0.14, T:0.47
Consensus pattern (33 bp):
GTATTAATAATTCTGCTCGTATTAATTCTGCTT
Found at i:1591936 original size:30 final size:30
Alignment explanation
Indices: 1591782--1591994 Score: 169
Period size: 30 Copynumber: 6.9 Consensus size: 30
1591772 TGCGTATTAA
* * * *
1591782 TAATTCTGATCGTATTAATTCTGCTTGTATT
1 TAATTCTGCTTGTAATAATTCTGCTCGTA-T
* * * *
1591813 GATAATTCTGCTCGT-TTCAATTCTGCTTGTAA
1 --TAATTCTGCTTGTAAT-AATTCTGCTCGTAT
* * *
1591845 TAATTCTGCTAGTATTAATTCTGCTCAT-T
1 TAATTCTGCTTGTAATAATTCTGCTCGTAT
*
1591874 TCAATTCTGCTTGTAATAATTATGCTTCGTAT
1 T-AATTCTGCTTGTAATAATTCTGC-TCGTAT
* *
1591906 TAATTATGCTTGTAATAATTTTGCTCGTAT
1 TAATTCTGCTTGTAATAATTCTGCTCGTAT
* *
1591936 TAATTATGCTTGTATTGATAATTCTGCTTGTAT
1 TAATTCTGCTTGTA---ATAATTCTGCTCGTAT
* *
1591969 TAATTCTTCTTGTAATAATTGTGCTC
1 TAATTCTGCTTGTAATAATTCTGCTC
1591995 ATAATTTTTT
Statistics
Matches: 154, Mismatches: 18, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
29 1 0.01
30 72 0.47
31 26 0.17
32 4 0.03
33 51 0.33
ACGTcount: A:0.24, C:0.14, G:0.13, T:0.49
Consensus pattern (30 bp):
TAATTCTGCTTGTAATAATTCTGCTCGTAT
Found at i:1604012 original size:2 final size:2
Alignment explanation
Indices: 1604005--1604047 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1603995 GCTGACTTGC
1604005 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1604047 A
1 A
1604048 ATCACGCACT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1604410 original size:20 final size:18
Alignment explanation
Indices: 1604387--1604432 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
1604377 AAAATTTTTA
1604387 ATATTTAAAAGATAATTAAT
1 ATATTTAAAAGA-AATT-AT
**
1604407 ATATTTAAATTAAATTAT
1 ATATTTAAAAGAAATTAT
1604425 ATATTTAA
1 ATATTTAA
1604433 TTTATATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 10 0.42
19 4 0.17
20 10 0.42
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (18 bp):
ATATTTAAAAGAAATTAT
Found at i:1604426 original size:18 final size:18
Alignment explanation
Indices: 1604400--1604449 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
1604390 TTTAAAAGAT
1604400 AATTAATATATTTAAATTA
1 AATT-ATATATTTAAATTA
*
1604419 AATTATATATTTAATTTA
1 AATTATATATTTAAATTA
* *
1604437 TATTATTTATTTA
1 AATTATATATTTA
1604450 GAAATATGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AATTATATATTTAAATTA
Found at i:1608381 original size:10 final size:10
Alignment explanation
Indices: 1608368--1608398 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1608358 TTAAACATAA
*
1608368 ATAAATGAAC
1 ATAAACGAAC
1608378 ATAAACGAAC
1 ATAAACGAAC
1608388 ATAAACGAAC
1 ATAAACGAAC
1608398 A
1 A
1608399 AACATAACCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.61, C:0.16, G:0.10, T:0.13
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:1609868 original size:14 final size:14
Alignment explanation
Indices: 1609849--1609875 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1609839 GGTCCAGTTA
1609849 CTGAGTCAACTCAG
1 CTGAGTCAACTCAG
1609863 CTGAGTCAACTCA
1 CTGAGTCAACTCA
1609876 TTAACTTTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (14 bp):
CTGAGTCAACTCAG
Found at i:1611495 original size:23 final size:23
Alignment explanation
Indices: 1611466--1611514 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
1611456 GGTACCGATA
1611466 CCCCTATGAATGAGTATCAATAC
1 CCCCTATGAATGAGTATCAATAC
1611489 CCCCTATGAATGAGTATCAATAC
1 CCCCTATGAATGAGTATCAATAC
1611512 CCC
1 CCC
1611515 TTTCAATACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.33, C:0.31, G:0.12, T:0.24
Consensus pattern (23 bp):
CCCCTATGAATGAGTATCAATAC
Found at i:1611532 original size:35 final size:35
Alignment explanation
Indices: 1611482--1611550 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
1611472 TGAATGAGTA
*
1611482 TCAATACCCCCTATGAATGAGTATCAATACCCCTT
1 TCAATACCCCCTATGAACGAGTATCAATACCCCTT
* * * *
1611517 TCAATACCTCTTATGAACGGGTATCGATACCCCT
1 TCAATACCCCCTATGAACGAGTATCAATACCCCT
1611551 ATGAAAGGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.29, C:0.30, G:0.12, T:0.29
Consensus pattern (35 bp):
TCAATACCCCCTATGAACGAGTATCAATACCCCTT
Found at i:1611554 original size:22 final size:22
Alignment explanation
Indices: 1611517--1611576 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
1611507 AATACCCCTT
* *
1611517 TCAATACCTCTTATGAACGGGTA
1 TCAATACC-CCTATGAAAGGGTA
*
1611540 TCGATACCCCTATGAAAGGGTA
1 TCAATACCCCTATGAAAGGGTA
1611562 TCAATACCCC-ATGAA
1 TCAATACCCCTATGAA
1611577 GGCTCAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.15
22 21 0.64
23 7 0.21
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (22 bp):
TCAATACCCCTATGAAAGGGTA
Found at i:1614778 original size:18 final size:18
Alignment explanation
Indices: 1614755--1614812 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
1614745 CAACAATTGG
*
1614755 TAACAATTAATATCTTTT
1 TAACAATTAGTATCTTTT
*
1614773 TAACAATTTGTATCCTTTT
1 TAACAATTAGTAT-CTTTT
*
1614792 GTAAACAATTGGTATCTTTT
1 -T-AACAATTAGTATCTTTT
1614812 T
1 T
1614813 CATTAAACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 11 0.32
19 6 0.18
20 6 0.18
21 11 0.32
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.50
Consensus pattern (18 bp):
TAACAATTAGTATCTTTT
Found at i:1615060 original size:22 final size:22
Alignment explanation
Indices: 1615024--1615155 Score: 79
Period size: 22 Copynumber: 5.9 Consensus size: 22
1615014 AATATTAAGA
*
1615024 GGTATCGATACCCCTATGAATG
1 GGTATCAATACCCCTATGAATG
*
1615046 GGTATCAATATCCCTATGAATG
1 GGTATCAATACCCCTATGAATG
* * * * *
1615068 AGTATCGATTCCCCTATCAATACC
1 GGTATCAATACCCCTATGAAT--G
** * *
1615092 CCTATCAATACCTCTTATGAACG
1 GGTATCAATACC-CCTATGAATG
* * *
1615115 GGTA-CTGATACCCCTATTAAAG
1 GGTATC-AATACCCCTATGAATG
*
1615137 GGTATGAATA-CCCTATGAA
1 GGTATCAATACCCCTATGAA
1615156 GGCTAAAATT
Statistics
Matches: 80, Mismatches: 25, Indels: 11
0.69 0.22 0.09
Matches are distributed among these distances:
21 8 0.10
22 51 0.64
23 7 0.09
24 8 0.10
25 6 0.08
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (22 bp):
GGTATCAATACCCCTATGAATG
Found at i:1615093 original size:12 final size:12
Alignment explanation
Indices: 1615078--1615103 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1615068 AGTATCGATT
1615078 CCCCTATCAATA
1 CCCCTATCAATA
1615090 CCCCTATCAATA
1 CCCCTATCAATA
1615102 CC
1 CC
1615104 TCTTATGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.46, G:0.00, T:0.23
Consensus pattern (12 bp):
CCCCTATCAATA
Found at i:1615597 original size:33 final size:33
Alignment explanation
Indices: 1615560--1615629 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1615550 TTTTGTAAAG
* *
1615560 GGGAAAGGTTCTAGGTGATCCCGTGAAAAGCTA
1 GGGAAAGGTTCTAGGTGAGCCCGTGAAAAACTA
* *
1615593 GGGAAAGGTTCTAGTTTAGCCCGTGAAAAACTA
1 GGGAAAGGTTCTAGGTGAGCCCGTGAAAAACTA
1615626 GGGA
1 GGGA
1615630 GTTTCTAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.31, C:0.14, G:0.33, T:0.21
Consensus pattern (33 bp):
GGGAAAGGTTCTAGGTGAGCCCGTGAAAAACTA
Found at i:1617062 original size:17 final size:17
Alignment explanation
Indices: 1617036--1617070 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1617026 GATTCAAATT
* *
1617036 ATAATTATATTATGAAC
1 ATAATAATATTATAAAC
1617053 ATAATAATATTATAAAC
1 ATAATAATATTATAAAC
1617070 A
1 A
1617071 AAATTTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.37
Consensus pattern (17 bp):
ATAATAATATTATAAAC
Found at i:1617437 original size:21 final size:21
Alignment explanation
Indices: 1617411--1617456 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
1617401 GGATTAAAAT
1617411 GGTCCCTCATCTAAAGTTCAA
1 GGTCCCTCATCTAAAGTTCAA
1617432 GGTCCCTCATCTAAAGTTCAA
1 GGTCCCTCATCTAAAGTTCAA
1617453 GGTC
1 GGTC
1617457 TAACTAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.28
Consensus pattern (21 bp):
GGTCCCTCATCTAAAGTTCAA
Found at i:1627989 original size:20 final size:20
Alignment explanation
Indices: 1627964--1628019 Score: 96
Period size: 20 Copynumber: 2.8 Consensus size: 20
1627954 AGAACAATCA
1627964 TTAGGAATTATCTTTTATTT
1 TTAGGAATTATCTTTTATTT
1627984 TTAGG-ATATATCTTTTATTT
1 TTAGGAAT-TATCTTTTATTT
1628004 TTAGGAATTATCTTTT
1 TTAGGAATTATCTTTT
1628020 CATTGTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.06
20 30 0.88
21 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.59
Consensus pattern (20 bp):
TTAGGAATTATCTTTTATTT
Found at i:1628808 original size:18 final size:18
Alignment explanation
Indices: 1628787--1628865 Score: 74
Period size: 18 Copynumber: 4.5 Consensus size: 18
1628777 TAATTATTTA
1628787 TTTATTTTATCCTTATCT
1 TTTATTTTATCCTTATCT
* *
1628805 TTTA-TTTA--ATTATTT
1 TTTATTTTATCCTTATCT
* *
1628820 ATTTATTTAATCTTTATCT
1 -TTTATTTTATCCTTATCT
* *
1628839 TTTATTTTATTCTAATCT
1 TTTATTTTATCCTTATCT
1628857 TTTATTTTA
1 TTTATTTTA
1628866 AAAATAATTT
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
15 5 0.10
16 4 0.08
17 7 0.15
18 27 0.56
19 5 0.10
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTATTTTATCCTTATCT
Found at i:1628813 original size:34 final size:34
Alignment explanation
Indices: 1628774--1628845 Score: 126
Period size: 34 Copynumber: 2.1 Consensus size: 34
1628764 ATTACTTTAA
*
1628774 ATTTAATTATTTATTTATTTTATCCTTATCTTTT
1 ATTTAATTATTTATTTATTTAATCCTTATCTTTT
*
1628808 ATTTAATTATTTATTTATTTAATCTTTATCTTTT
1 ATTTAATTATTTATTTATTTAATCCTTATCTTTT
1628842 ATTT
1 ATTT
1628846 TATTCTAATC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (34 bp):
ATTTAATTATTTATTTATTTAATCCTTATCTTTT
Found at i:1628864 original size:23 final size:22
Alignment explanation
Indices: 1628817--1628865 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
1628807 TATTTAATTA
*
1628817 TTTATTTATTTAATCTTTATCT
1 TTTATTTATTTAATCTTTATAT
1628839 TTTATTTTATTCTAATCTTT-TAT
1 TTTA-TTTATT-TAATCTTTATAT
1628862 TTTA
1 TTTA
1628866 AAAATAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
23 12 0.50
24 8 0.33
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTATTTATTTAATCTTTATAT
Found at i:1637669 original size:19 final size:19
Alignment explanation
Indices: 1637647--1637692 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
1637637 GAAGCAAAAA
*
1637647 AAAAAAGTGAAAAAGAAAG
1 AAAAAAGAGAAAAAGAAAG
* **
1637666 AAAAAACAGAAAAAGATTG
1 AAAAAAGAGAAAAAGAAAG
1637685 AAAAAAGA
1 AAAAAAGA
1637693 TGTTTATGTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.07
Consensus pattern (19 bp):
AAAAAAGAGAAAAAGAAAG
Found at i:1637703 original size:6 final size:6
Alignment explanation
Indices: 1637692--1637739 Score: 64
Period size: 6 Copynumber: 8.3 Consensus size: 6
1637682 TTGAAAAAAG
* *
1637692 ATGTTT ATGTTT ACGTTT ATGTTT ATGTTT ATGTTT -T-TAT ATGTTT
1 ATGTTT ATGTTT ATGTTT ATGTTT ATGTTT ATGTTT ATGTTT ATGTTT
1637738 AT
1 AT
1637740 AATTTTGCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
4 2 0.06
5 2 0.06
6 32 0.89
ACGTcount: A:0.19, C:0.02, G:0.15, T:0.65
Consensus pattern (6 bp):
ATGTTT
Found at i:1637751 original size:22 final size:22
Alignment explanation
Indices: 1637709--1637753 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
1637699 TGTTTACGTT
* *
1637709 TATGTTTATGTTTATGTTTTTA
1 TATGTTTATATTTATGCTTTTA
1637731 TATGTTTATAATTT-TGCTTTTA
1 TATGTTTAT-ATTTATGCTTTTA
1637753 T
1 T
1637754 TTTATTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 17 0.85
23 3 0.15
ACGTcount: A:0.20, C:0.02, G:0.11, T:0.67
Consensus pattern (22 bp):
TATGTTTATATTTATGCTTTTA
Found at i:1639736 original size:6 final size:6
Alignment explanation
Indices: 1639727--1639780 Score: 90
Period size: 6 Copynumber: 8.8 Consensus size: 6
1639717 CGTTTTTCTC
*
1639727 TCATTT TCATTT TCTTTTT TCATTT TCATTT TCATTT TCATTT TCATTT
1 TCATTT TCATTT TC-ATTT TCATTT TCATTT TCATTT TCATTT TCATTT
1639776 TCATT
1 TCATT
1639781 CTTCTTCTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
6 40 0.89
7 5 0.11
ACGTcount: A:0.15, C:0.17, G:0.00, T:0.69
Consensus pattern (6 bp):
TCATTT
Found at i:1640890 original size:36 final size:36
Alignment explanation
Indices: 1640850--1641180 Score: 134
Period size: 36 Copynumber: 9.8 Consensus size: 36
1640840 TTTTAAGAAA
*
1640850 AAACAATATCAAGTGAGATAAATTTTGTTTCAAGTG
1 AAACAATCTCAAGTGAGATAAATTTTGTTTCAAGTG
* * * *
1640886 AAACAAT-T---TTAAGAT---TTGTGTTTCAAGGG
1 AAACAATCTCAAGTGAGATAAATTTTGTTTCAAGTG
*** * * * * * * **
1640915 AAATTGTCTTAAGCGAGACAAAATTGGTTTTAAGAA
1 AAACAATCTCAAGTGAGATAAATTTTGTTTCAAGTG
1640951 AAACAATCTCAAGTGAGATAAATTTTGTTTCAAGTG
1 AAACAATCTCAAGTGAGATAAATTTTGTTTCAAGTG
*
1640987 AAACAATTTCAA---A-AT---TTTTGTTTCAAG-G
1 AAACAATCTCAAGTGAGATAAATTTTGTTTCAAGTG
* ** * **
1641015 AAAACTATCTCAAGCAAGATGAAA-TTTGTTTTAAGAA
1 -AAACAATCTCAAGTGAGAT-AAATTTTGTTTCAAGTG
* *
1641052 AAACAATCTCAAGTGCGATAAATTTTGTTTGAAGTG
1 AAACAATCTCAAGTGAGATAAATTTTGTTTCAAGTG
* * * *
1641088 AAATAATTTCAA---A-AT--A-TGTGTTTCATG-G
1 AAACAATCTCAAGTGAGATAAATTTTGTTTCAAGTG
* * * * * * **
1641116 AAACTATCTCAAGCGAGACAAAATTGGTTTTAAGAA
1 AAACAATCTCAAGTGAGATAAATTTTGTTTCAAGTG
*
1641152 AAACAATCTCAAGTGAGATAAAATTTGTT
1 AAACAATCTCAAGTGAGATAAATTTTGTT
1641181 GTATTAAATG
Statistics
Matches: 210, Mismatches: 59, Indels: 52
0.65 0.18 0.16
Matches are distributed among these distances:
28 11 0.05
29 46 0.22
30 2 0.01
31 1 0.00
32 11 0.05
33 6 0.03
34 1 0.00
35 11 0.05
36 121 0.58
ACGTcount: A:0.41, C:0.10, G:0.16, T:0.33
Consensus pattern (36 bp):
AAACAATCTCAAGTGAGATAAATTTTGTTTCAAGTG
Found at i:1640903 original size:102 final size:101
Alignment explanation
Indices: 1640641--1641180 Score: 733
Period size: 101 Copynumber: 5.3 Consensus size: 101
1640631 AAATCATTTC
* * * *
1640641 AAGAGAAACTATCTCAAGTGAGATAAAATTTCGCTTT-GAGTGAAACAATTTCAAAATTTGTGTT
1 AAGAAAAACAATCTCAAGTGAGAT-AAATTTTG-TTTCAAGTGAAACAATTTCAAAATTTGTGTT
* * * * *
1640705 TCATGAGAAATTGTCTCAAGGGAGACAAAATTGGTTTT
64 TCAAGGGAAACTATCTCAAGCGAGACAAAATTGGTTTT
* ** * * *
1640743 AAGAAAAACAATCTTAAGTGAGATAAATTTTGTTTTGAGTGAAATAATTTCAGAATTTGTGTCTC
1 AAGAAAAACAATCTCAAGTGAGATAAATTTTGTTTCAAGTGAAACAATTTCAAAATTTGTGTTTC
*
1640808 AAGGGAAACTATCTCAAGCGAGACAAAATTGATTTT
66 AAGGGAAACTATCTCAAGCGAGACAAAATTGGTTTT
* * *
1640844 AAGAAAAAACAATATCAAGTGAGATAAATTTTGTTTCAAGTGAAACAATTTTAAGATTTGTGTTT
1 AAG-AAAAACAATCTCAAGTGAGATAAATTTTGTTTCAAGTGAAACAATTTCAAAATTTGTGTTT
* * *
1640909 CAAGGGAAATTGTCTTAAGCGAGACAAAATTGGTTTT
65 CAAGGGAAACTATCTCAAGCGAGACAAAATTGGTTTT
*
1640946 AAGAAAAACAATCTCAAGTGAGATAAATTTTGTTTCAAGTGAAACAATTTCAAAATTTTTGTTTC
1 AAGAAAAACAATCTCAAGTGAGATAAATTTTGTTTCAAGTGAAACAATTTCAAAATTTGTGTTTC
* * ** *
1641011 AAGGAAAACTATCTCAAGCAAGATGAAATTTGTTTT
66 AAGGGAAACTATCTCAAGCGAGACAAAATTGGTTTT
* * * *
1641047 AAGAAAAACAATCTCAAGTGCGATAAATTTTGTTTGAAGTGAAATAATTTCAAAATATGTGTTTC
1 AAGAAAAACAATCTCAAGTGAGATAAATTTTGTTTCAAGTGAAACAATTTCAAAATTTGTGTTTC
*
1641112 -ATGGAAACTATCTCAAGCGAGACAAAATTGGTTTT
66 AAGGGAAACTATCTCAAGCGAGACAAAATTGGTTTT
*
1641147 AAGAAAAACAATCTCAAGTGAGATAAAATTTGTT
1 AAGAAAAACAATCTCAAGTGAGATAAATTTTGTT
1641181 GTATTAAATG
Statistics
Matches: 385, Mismatches: 51, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
100 64 0.17
101 212 0.55
102 109 0.28
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.32
Consensus pattern (101 bp):
AAGAAAAACAATCTCAAGTGAGATAAATTTTGTTTCAAGTGAAACAATTTCAAAATTTGTGTTTC
AAGGGAAACTATCTCAAGCGAGACAAAATTGGTTTT
Found at i:1641019 original size:65 final size:65
Alignment explanation
Indices: 1640941--1641063 Score: 149
Period size: 65 Copynumber: 1.9 Consensus size: 65
1640931 GACAAAATTG
* ** ** *
1640941 GTTTTAAGAAAAACAATCTCAAGTGAGAT-AAATTTTGTTTCAAGTGAAACAATTTCAAAATTTT
1 GTTTCAAGAAAAACAATCTCAAGCAAGATGAAA-TTTGTTTCAAGAAAAACAATCTCAAAATTTT
1641005 T
65 T
* * *
1641006 GTTTCAAGGAAAACTATCTCAAGCAAGATGAAATTTGTTTTAAGAAAAACAATCTCAA
1 GTTTCAAGAAAAACAATCTCAAGCAAGATGAAATTTGTTTCAAGAAAAACAATCTCAA
1641064 GTGCGATAAA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
65 45 0.94
66 3 0.06
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (65 bp):
GTTTCAAGAAAAACAATCTCAAGCAAGATGAAATTTGTTTCAAGAAAAACAATCTCAAAATTTTT
Found at i:1641028 original size:203 final size:201
Alignment explanation
Indices: 1640654--1641180 Score: 743
Period size: 203 Copynumber: 2.6 Consensus size: 201
1640644 AGAAACTATC
* * * *
1640654 TCAAGTGAGATAAAATTTCGCTTTGAGTGAAACAATTTCAAAATTTGTGTTTCATGAGAAATTGT
1 TCAAGTGAGAT-AAATTTTG-TTTAAGTGAAACAATTTCAAAATTTGTGTTTCAAGGGAAATTGT
* * **
1640719 CTCAAGGGAGACAAAATTGGTTTTAAGAAAAACAATCTTAAGTGAGATAAATTTTGTTTTGAGTG
64 CTCAAGCGAGACAAAATTGGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTTGTTTCAAGTG
* * * *
1640784 AAATAATTTCAGAATTTGTGTCTCAAGGGAAACTATCTCAAGCGAGA-CAAAATTGATTTTAAGA
129 AAACAATTTCAAAATTTGTGTCTCAAGGAAAACTATCTCAAGCAAGATCAAAATTG-TTTTAAG-
1640848 AAAAACAATA
192 AAAAACAATA
* *
1640858 TCAAGTGAGATAAATTTTGTTTCAAGTGAAACAATTTTAAGATTTGTGTTTCAAGGGAAATTGTC
1 TCAAGTGAGATAAATTTTGTTT-AAGTGAAACAATTTCAAAATTTGTGTTTCAAGGGAAATTGTC
*
1640923 TTAAGCGAGACAAAATTGGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTTGTTTCAAGTGA
65 TCAAGCGAGACAAAATTGGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTTGTTTCAAGTGA
* * * *
1640988 AACAATTTCAAAATTTTTGTTTCAAGGAAAACTATCTCAAGCAAGATGAAATTTGTTTTAAGAAA
130 AACAATTTCAAAATTTGTGTCTCAAGGAAAACTATCTCAAGCAAGATCAAAATTGTTTTAAGAAA
*
1641053 AACAATC
195 AACAATA
* * * * * *
1641060 TCAAGTGCGATAAATTTTGTTTGAAGTGAAATAATTTCAAAATATGTGTTTC-ATGGAAACTATC
1 TCAAGTGAGATAAATTTTGTTT-AAGTGAAACAATTTCAAAATTTGTGTTTCAAGGGAAATTGTC
*
1641124 TCAAGCGAGACAAAATTGGTTTTAAGAAAAACAATCTCAAGTGAGATAAAATTTGTT
65 TCAAGCGAGACAAAATTGGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTTGTT
1641181 GTATTAAATG
Statistics
Matches: 290, Mismatches: 31, Indels: 7
0.88 0.09 0.02
Matches are distributed among these distances:
201 64 0.22
202 58 0.20
203 151 0.52
204 17 0.06
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (201 bp):
TCAAGTGAGATAAATTTTGTTTAAGTGAAACAATTTCAAAATTTGTGTTTCAAGGGAAATTGTCT
CAAGCGAGACAAAATTGGTTTTAAGAAAAACAATCTCAAGTGAGATAAATTTTGTTTCAAGTGAA
ACAATTTCAAAATTTGTGTCTCAAGGAAAACTATCTCAAGCAAGATCAAAATTGTTTTAAGAAAA
ACAATA
Found at i:1643204 original size:8 final size:8
Alignment explanation
Indices: 1643191--1643323 Score: 67
Period size: 8 Copynumber: 16.0 Consensus size: 8
1643181 ATCTTGGACC
1643191 CTTTTTTT
1 CTTTTTTT
1643199 C--TTTTT
1 CTTTTTTT
1643205 CTTTTTTT
1 CTTTTTTT
*
1643213 CTCTTTTT
1 CTTTTTTT
*
1643221 ATTTTTTT
1 CTTTTTTT
*
1643229 ATTTTTTCT
1 CTTTTTT-T
1643238 CTTTTTTTT
1 C-TTTTTTT
**
1643247 CCATTTTT
1 CTTTTTTT
* *
1643255 CCTTTTTC
1 CTTTTTTT
1643263 CTTTTTCCTTT
1 C-TTTT--TTT
1643274 CTTTTTTT
1 CTTTTTTT
1643282 -TTATTTTAT
1 CTT-TTTT-T
1643291 -TTCTTTTT
1 CTT-TTTTT
* *
1643299 ATTTATTT
1 CTTTTTTT
*
1643307 CTTTATTT
1 CTTTTTTT
1643315 CTTATTTTT
1 CTT-TTTTT
1643324 TGAACAAGTG
Statistics
Matches: 100, Mismatches: 14, Indels: 21
0.74 0.10 0.16
Matches are distributed among these distances:
6 6 0.06
7 2 0.02
8 60 0.60
9 19 0.19
10 10 0.10
11 3 0.03
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (8 bp):
CTTTTTTT
Found at i:1643226 original size:23 final size:24
Alignment explanation
Indices: 1643191--1643243 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 24
1643181 ATCTTGGACC
*
1643191 CTTTTTTTCTTTTTCT-TTTTTTCT
1 CTTTTTATCTTTTT-TATTTTTTCT
1643215 CTTTTTAT-TTTTTTATTTTTTCT
1 CTTTTTATCTTTTTTATTTTTTCT
1643238 CTTTTT
1 CTTTTT
1643244 TTTCCATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 1 0.04
23 19 0.70
24 7 0.26
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (24 bp):
CTTTTTATCTTTTTTATTTTTTCT
Found at i:1643254 original size:11 final size:11
Alignment explanation
Indices: 1643206--1643247 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
1643196 TTTCTTTTTC
1643206 TTTTTTTCTCT
1 TTTTTTTCTCT
*
1643217 TTTTATTT-TTT
1 TTTT-TTTCTCT
1643228 TATTTTTTCTCT
1 T-TTTTTTCTCT
1643240 TTTTTTTC
1 TTTTTTTC
1643248 CATTTTTCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
11 17 0.65
12 9 0.35
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTTCTCT
Found at i:1643299 original size:15 final size:14
Alignment explanation
Indices: 1643279--1643310 Score: 55
Period size: 14 Copynumber: 2.2 Consensus size: 14
1643269 CCTTTCTTTT
1643279 TTTTTATTTTATTTC
1 TTTTTA-TTTATTTC
1643294 TTTTTATTTATTTC
1 TTTTTATTTATTTC
1643308 TTT
1 TTT
1643311 ATTTCTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTATTTATTTC
Found at i:1643319 original size:15 final size:14
Alignment explanation
Indices: 1643281--1643321 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
1643271 TTTCTTTTTT
1643281 TTTA-TTTTATTTC
1 TTTATTTTTATTTC
1643294 TTT-TTATTTATTTC
1 TTTATT-TTTATTTC
1643308 TTTATTTCTTATTT
1 TTTATTT-TTATTT
1643322 TTTGAACAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
13 4 0.17
14 12 0.50
15 8 0.33
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTATTTTTATTTC
Found at i:1644331 original size:138 final size:139
Alignment explanation
Indices: 1644170--1644535 Score: 322
Period size: 138 Copynumber: 2.6 Consensus size: 139
1644160 GATCCTAAGG
* * * *
1644170 ACTAAACCTAAAAATGCAGGCTCT-AATATTAACTTAAATCATTTTTAATGAATTATTGAATCGA
1 ACTAAACCTAAAAATGCAGGCTCTAAATATAAACCT-AATCAATTTTAATCAATTATTGAATCGA
* *
1644234 ATAGTTAAAATGGAA-CCTTC-AGCAAAAGCG-GATACCAAATCAA-ACATTCTCCTAAATTAAA
65 ATAATTAAAAT-GAATCC-TCGAGCAAAAGCGAG-GACCAAATCAAGA-ATTCTCCTAAATTAAA
1644295 GAACTAGGTTTGAA
126 GAACTAGGTTTGAA
* * ** *
1644309 ACTAAACCT-AAAATGGAGGCTCTAAATATAAACCTATTCAATTTTAATCAATTATTGGTTTGAA
1 ACTAAACCTAAAAATGCAGGCTCTAAATATAAACCTAATCAATTTTAATCAATTATTGAATCGAA
* * *
1644373 TAATTAAAATGAATCCTCGAGCAAATGCGAGGACCAAATTAAGAATTCTCCTAAATTAAAAGGAC
66 TAATTAAAATGAATCCTCGAGCAAAAGCGAGGACCAAATCAAGAATTCTCCTAAATT-AAAGAAC
**
1644438 TAAATTT-AA
130 TAGGTTTGAA
* ** * * * ** * **
1644447 AGTTAGGCCT--AAGTGAAGGCTC-CAATATTACTCCTAATTAATTTTAATTGATTATTGAATCG
1 A-CTAAACCTAAAAATGCAGGCTCTAAATA-TAAACCTAATCAATTTTAATCAATTATTGAATCG
*
1644509 AATAATTAAAATAGAA-CCTCAAGCAAA
64 AATAATTAAAAT-GAATCCTCGAGCAAA
1644536 CCAAATTAAT
Statistics
Matches: 186, Mismatches: 32, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
137 9 0.05
138 138 0.74
139 39 0.21
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.30
Consensus pattern (139 bp):
ACTAAACCTAAAAATGCAGGCTCTAAATATAAACCTAATCAATTTTAATCAATTATTGAATCGAA
TAATTAAAATGAATCCTCGAGCAAAAGCGAGGACCAAATCAAGAATTCTCCTAAATTAAAGAACT
AGGTTTGAA
Found at i:1644668 original size:29 final size:28
Alignment explanation
Indices: 1644595--1644668 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 28
1644585 TTAAAAGGTT
* *
1644595 AGGGACTAAATTAAAAAAAGTCTAACTTT
1 AGGGACTAAATTAAAAAAAGTATAAC-TC
* * *
1644624 AAGGACTATATCAAAAAAAGTGATATA-TC
1 AGGGACTAAATTAAAAAAAGT-ATA-ACTC
1644653 AGGGACTAAATTAAAA
1 AGGGACTAAATTAAAA
1644669 GAAAACAAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
29 32 0.91
30 2 0.06
31 1 0.03
ACGTcount: A:0.51, C:0.09, G:0.15, T:0.24
Consensus pattern (28 bp):
AGGGACTAAATTAAAAAAAGTATAACTC
Found at i:1644900 original size:14 final size:15
Alignment explanation
Indices: 1644862--1644909 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
1644852 TTAATAATTT
*
1644862 ATAGTAAAAATTTAA
1 ATAGCAAAAATTTAA
1644877 ATAGCAAAAATTTAA
1 ATAGCAAAAATTTAA
1644892 A-AGGC-AAAATTGTAA
1 ATA-GCAAAAATT-TAA
1644907 ATA
1 ATA
1644910 AAAATAAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 7 0.24
15 21 0.72
16 1 0.03
ACGTcount: A:0.58, C:0.04, G:0.10, T:0.27
Consensus pattern (15 bp):
ATAGCAAAAATTTAA
Found at i:1661201 original size:173 final size:174
Alignment explanation
Indices: 1660889--1661236 Score: 673
Period size: 173 Copynumber: 2.0 Consensus size: 174
1660879 GAACTGGATG
1660889 TCATCATCATGCTTCTTTAACTGTTCAACACTAGGTTGGCTTCTTCACATCATTTCAGTACCTTA
1 TCATCATCATGCTTCTTTAACTGTTCAACACTAGGTTGGCTTCTTCACATCATTTCAGTACCTTA
1660954 GATAAATTACTGAAGCAACGTTCAAATCATCACCCGAGACAGAGAAATCATCCATAAATATTTCC
66 GATAAATTACTGAAGCAACGTTCAAATCATCACCCGAGACAGAGAAATCATCCATAAATATTTCC
1661019 ATGGCATTCTTCCACCATATCTGAAAATA-TGTCATCGTGCATA
131 ATGGCATTCTTCCACCATATCTGAAAATATTGTCATCGTGCATA
1661062 TCATCATCATGCTTCTTTAACTGTTCAACACTAGGTTGGCTTCTTCACATCATTTCAGTACCTTA
1 TCATCATCATGCTTCTTTAACTGTTCAACACTAGGTTGGCTTCTTCACATCATTTCAGTACCTTA
1661127 GATAAATTACTGAAGCAACGTTCAAAATCATCACCCGAGACAGAGAAATCATCCATAAATATTTC
66 GATAAATTACTGAAGCAACGTTC-AAATCATCACCCGAGACAGAGAAATCATCCATAAATATTTC
1661192 CAT-GCATTCTTCCACCATATCTGAAAATATTGTCATCGTGCATA
130 CATGGCATTCTTCCACCATATCTGAAAATATTGTCATCGTGCATA
1661236 T
1 T
1661237 TTGCAATGTA
Statistics
Matches: 173, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
173 114 0.66
174 59 0.34
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (174 bp):
TCATCATCATGCTTCTTTAACTGTTCAACACTAGGTTGGCTTCTTCACATCATTTCAGTACCTTA
GATAAATTACTGAAGCAACGTTCAAATCATCACCCGAGACAGAGAAATCATCCATAAATATTTCC
ATGGCATTCTTCCACCATATCTGAAAATATTGTCATCGTGCATA
Found at i:1663407 original size:25 final size:27
Alignment explanation
Indices: 1663357--1663408 Score: 90
Period size: 25 Copynumber: 2.0 Consensus size: 27
1663347 TTTGGCACAC
1663357 ACTGCACTGGGCTAACCCATGAACTAT
1 ACTGCACTGGGCTAACCCATGAACTAT
1663384 ACTGCA-TGGGCTAA-CCATGAACTAT
1 ACTGCACTGGGCTAACCCATGAACTAT
1663409 CAGATATAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 11 0.44
26 8 0.32
27 6 0.24
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (27 bp):
ACTGCACTGGGCTAACCCATGAACTAT
Found at i:1668547 original size:23 final size:23
Alignment explanation
Indices: 1668521--1668568 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
1668511 GATTCTACGC
*
1668521 GGTCCTTTGGGACAATTCAATGT
1 GGTCCTTTGGAACAATTCAATGT
* * *
1668544 GGTCTTTTGGAATAATTCTATGT
1 GGTCCTTTGGAACAATTCAATGT
1668567 GG
1 GG
1668569 CACTTTTGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.21, C:0.12, G:0.27, T:0.40
Consensus pattern (23 bp):
GGTCCTTTGGAACAATTCAATGT
Found at i:1676063 original size:18 final size:18
Alignment explanation
Indices: 1676040--1676085 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
1676030 CTAAAGTTCA
1676040 AGCTAAAATTAATATTTT
1 AGCTAAAATTAATATTTT
1676058 AGCTAAAATTAATATTTT
1 AGCTAAAATTAATATTTT
1676076 AGCTAAAATT
1 AGCTAAAATT
1676086 TAAAAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.41
Consensus pattern (18 bp):
AGCTAAAATTAATATTTT
Found at i:1676221 original size:16 final size:17
Alignment explanation
Indices: 1676186--1676226 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
1676176 ATCAAGTGAT
*
1676186 AAAAATATT-ATAAATT
1 AAAAATATTAATAAATC
1676202 AAAAATATTAAT-AATC
1 AAAAATATTAATAAATC
1676218 -AAAATATTA
1 AAAAATATTA
1676227 TTCTTTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 9 0.39
16 12 0.52
17 2 0.09
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAAATATTAATAAATC
Found at i:1677449 original size:25 final size:25
Alignment explanation
Indices: 1677421--1677510 Score: 72
Period size: 25 Copynumber: 3.9 Consensus size: 25
1677411 TTTATAAATT
1677421 ATATTAATTAATTATTAAAATAAGA
1 ATATTAATTAATTATTAAAATAAGA
*
1677446 ATATT-ATT--TTATT--AAT---T
1 ATATTAATTAATTATTAAAATAAGA
*
1677463 ATATTAATTACTTATTAAAATAAGA
1 ATATTAATTAATTATTAAAATAAGA
* *
1677488 ATA-AAATTATAATATTAAAATAA
1 ATATTAATTA-ATTATTAAAATAA
1677511 AAACATTATA
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
17 5 0.10
18 3 0.06
20 8 0.16
22 8 0.16
24 8 0.16
25 19 0.37
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.43
Consensus pattern (25 bp):
ATATTAATTAATTATTAAAATAAGA
Found at i:1677468 original size:42 final size:42
Alignment explanation
Indices: 1677410--1677490 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
1677400 GTTGACAAAT
1677410 TTTTATAAATTATATTAATTAATTATTAAAATAAGAATATTA
1 TTTTATAAATTATATTAATTAATTATTAAAATAAGAATATTA
* *
1677452 TTTTATTAATTATATTAATTACTTATTAAAATAAGAATA
1 TTTTATAAATTATATTAATTAATTATTAAAATAAGAATA
1677491 AAATTATAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.48
Consensus pattern (42 bp):
TTTTATAAATTATATTAATTAATTATTAAAATAAGAATATTA
Found at i:1677560 original size:33 final size:30
Alignment explanation
Indices: 1677522--1677585 Score: 76
Period size: 30 Copynumber: 2.0 Consensus size: 30
1677512 AACATTATAT
1677522 TATATTCTAAAAAATGTTAATAA-ATATATTTTA
1 TATATT-T-AAAAAT-TTAATAATA-ATATTTTA
*
1677555 TATATTTAATAATTTAATAATAATATTTTA
1 TATATTTAAAAATTTAATAATAATATTTTA
1677585 T
1 T
1677586 GAAATTAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 16 0.55
31 6 0.21
32 1 0.03
33 6 0.21
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (30 bp):
TATATTTAAAAATTTAATAATAATATTTTA
Found at i:1677594 original size:30 final size:30
Alignment explanation
Indices: 1677538--1677616 Score: 80
Period size: 30 Copynumber: 2.8 Consensus size: 30
1677528 CTAAAAAATG
*
1677538 TTAATAAATATATTTTATATATTTAATAAT
1 TTAATAAATATATTTTATATAATTAATAAT
1677568 TTAAT-AATAATATTTTATGA-AATTAATAA-
1 TTAATAAAT-ATATTTTAT-ATAATTAATAAT
*
1677597 ATAA-AAATA-ATTTTAT-TAAT
1 TTAATAAATATATTTTATATAAT
1677617 AATTTATTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
26 3 0.07
27 7 0.16
28 1 0.02
29 9 0.21
30 22 0.51
31 1 0.02
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (30 bp):
TTAATAAATATATTTTATATAATTAATAAT
Found at i:1677606 original size:40 final size:41
Alignment explanation
Indices: 1677562--1677646 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 41
1677552 TTATATATTT
1677562 AATAA-TTTAATAATAATATT-TTATGAAATTAAT-AAATAAA
1 AATAATTTTAATAATAAT-TTATTAT-AAATTAATAAAATAAA
* * *
1677602 AATAATTTTATTAATAATTTATTATATATTATTAAAATAAA
1 AATAATTTTAATAATAATTTATTATAAATTAATAAAATAAA
1677643 AATA
1 AATA
1677647 TAATATCATA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
40 13 0.33
41 26 0.67
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (41 bp):
AATAATTTTAATAATAATTTATTATAAATTAATAAAATAAA
Found at i:1677708 original size:22 final size:22
Alignment explanation
Indices: 1677676--1677720 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1677666 AGTATGATTT
*
1677676 AATATATTATTATAATACTAAA
1 AATATAATATTATAATACTAAA
* *
1677698 AATATAATATTATATTATTAAA
1 AATATAATATTATAATACTAAA
1677720 A
1 A
1677721 TTATTATTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
AATATAATATTATAATACTAAA
Found at i:1677735 original size:20 final size:18
Alignment explanation
Indices: 1677696--1677762 Score: 53
Period size: 21 Copynumber: 3.3 Consensus size: 18
1677686 TATAATACTA
1677696 AAAATATAATATTATATTATT
1 AAAAT-TAATATT-T-TTATT
*
1677717 AAAATTATTATTAATTTATTTT
1 AAAATTAATATT--TTTA--TT
1677739 AAATATTAATATTTTTATT
1 AAA-ATTAATATTTTTATT
1677758 AAAAT
1 AAAAT
1677763 GGTACTAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
18 2 0.05
19 5 0.12
20 9 0.22
21 11 0.28
22 5 0.12
23 8 0.20
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
AAAATTAATATTTTTATT
Found at i:1683903 original size:2 final size:2
Alignment explanation
Indices: 1683896--1683937 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1683886 CCTTTGTACA
1683896 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1683938 TGAAGGGGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1684571 original size:3 final size:3
Alignment explanation
Indices: 1684565--1684613 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
1684555 TAATAAATTG
1684565 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1684613 A
1 A
1684614 ATTGGTTTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1684969 original size:134 final size:134
Alignment explanation
Indices: 1684815--1685370 Score: 763
Period size: 134 Copynumber: 4.1 Consensus size: 134
1684805 ATTCCACTAT
* * * * * *
1684815 TCTTCAGGGAAGATTGAATCAGAATCGATTTGTTTCATTGCTTTTCAGGAAGATCAAATATGAAA
1 TCTTCAGGGAAGATTGAATCAGAATCGATTTGCTTCACTACTCTTCAGGAAGACCAAATCTGAAA
* * * * *
1684880 GAAGAAGAATCTGCTTCACTACTCCTTAGGAGAGATTAGACTCGAGAAAATTTTGATCCACCTCA
66 GAAGAAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTTGATCCACTTCA
1684945 CTGC
131 CTGC
* * *
1684949 TCTTCAGGGAAGATTGAATCAGAATCAATTTACTTCACTACTCTTCAGGAAGACCAAATTTGAAA
1 TCTTCAGGGAAGATTGAATCAGAATCGATTTGCTTCACTACTCTTCAGGAAGACCAAATCTGAAA
** * *
1685014 GAAGAAGCGTATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTATT-ATCCGCTTC
66 GAAGAAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAATT-TTGATCCACTTC
1685078 ACTGC
130 ACTGC
* * * * *
1685083 TCTTTAGGGAAGATTGAATCATAATTGATTTGATTCACTTCTCTTCAGGAAGACCAAATCTGAAA
1 TCTTCAGGGAAGATTGAATCAGAATCGATTTGCTTCACTACTCTTCAGGAAGACCAAATCTGAAA
** * * * * *
1685148 GAAGAAGTGTCTGCTCCACTAATATTTAGGGGAGATCAGACTCCATAAAATTTTGATCCGCTTCA
66 GAAGAAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTTGATCCACTTCA
*
1685213 TTGC
131 CTGC
* * * *
1685217 TCTTCAGGGAAGATTTAATTAGAATCGATTTGCTTCACTACTCTTCAGGAATACCAAATCTAAAA
1 TCTTCAGGGAAGATTGAATCAGAATCGATTTGCTTCACTACTCTTCAGGAAGACCAAATCTGAAA
*
1685282 GAAGAAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTTGATCCACTTCT
66 GAAGAAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTTGATCCACTTCA
1685347 CTGC
131 CTGC
*
1685351 TCTTCAAGGAAGATTGAATC
1 TCTTCAGGGAAGATTGAATC
1685371 GAACGTGGTT
Statistics
Matches: 367, Mismatches: 53, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
133 2 0.01
134 363 0.99
135 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (134 bp):
TCTTCAGGGAAGATTGAATCAGAATCGATTTGCTTCACTACTCTTCAGGAAGACCAAATCTGAAA
GAAGAAGAATCTGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTTGATCCACTTCA
CTGC
Found at i:1686096 original size:45 final size:44
Alignment explanation
Indices: 1685988--1687150 Score: 1040
Period size: 45 Copynumber: 26.3 Consensus size: 44
1685978 CTTCTTCGTT
* * ** * * * *
1685988 AGAAAGTCAAAAAGAATAACACTAAAAGATCAAATTCTCTTTATG
1 AGAAAGTCAAGAAG-ACAACACTAAAAGATTGACTCCTCTTCACG
* * * * ** *
1686033 AAAAATTCAAGAAGGACAACACTAAAATATTAACTAATCTTCACA
1 AGAAAGTCAAGAA-GACAACACTAAAAGATTGACTCCTCTTCACG
* * *
1686078 AGAAAGTCAATGAAGACAACACCAAAAGATTGACTCATCTTCGCG
1 AGAAAGTCAA-GAAGACAACACTAAAAGATTGACTCCTCTTCACG
*
1686123 AGAAAGTCAAGAAGGAAAACACTAAAAGATTGACTCCTCTTCACG
1 AGAAAGTCAAGAA-GACAACACTAAAAGATTGACTCCTCTTCACG
* *
1686168 AGAAAGTCAAGAAGGACAACACTAAAATATTGACTCCTCTTCATG
1 AGAAAGTCAAGAA-GACAACACTAAAAGATTGACTCCTCTTCACG
* * *
1686213 AGAAAGTCAAGGAAGACAACACCAAAAGATTGACTCCTCCTCACA
1 AGAAAGTCAA-GAAGACAACACTAAAAGATTGACTCCTCTTCACG
** *
1686258 AGAAAGTCAAAGAAGACAACACCGAAAGATTGACTCCTCTTCGCG
1 AGAAAGTC-AAGAAGACAACACTAAAAGATTGACTCCTCTTCACG
* *
1686303 AGAAATTCAAGAAAGAAAACACTAAAAGATTGACTCCTCTTCACG
1 AGAAAGTCAAG-AAGACAACACTAAAAGATTGACTCCTCTTCACG
* *
1686348 AGAAAGTCAAGAAGGACAACACTAAAATATTGACTCCTATTCACG
1 AGAAAGTCAAGAA-GACAACACTAAAAGATTGACTCCTCTTCACG
* * * *
1686393 AGAAATTCAAGGAAGACAACACCAAAAGATTGACTCCTCCTCGCG
1 AGAAAGTCAA-GAAGACAACACTAAAAGATTGACTCCTCTTCACG
* ** * **
1686438 AGAAAGTAAAGGAAGACAACACCGAAAGATTGACTCCTTTTCGTG
1 AGAAAGTCAA-GAAGACAACACTAAAAGATTGACTCCTCTTCACG
* * * *
1686483 AGAAATTCAAGAAGGAAAACTCTAAAAGATTGATTCCTCTTCACG
1 AGAAAGTCAAGAA-GACAACACTAAAAGATTGACTCCTCTTCACG
* *
1686528 AGAAAGTCAAGAAGGAAAACACTAAAATATTGACTCCTCTTCACG
1 AGAAAGTCAAGAA-GACAACACTAAAAGATTGACTCCTCTTCACG
* * * * * *
1686573 ACAAAGTTAAGGAAGACAACACCAAAAGATTGAATCCTCCTCGCG
1 AGAAAGTCAA-GAAGACAACACTAAAAGATTGACTCCTCTTCACG
* *
1686618 AGAAAGTCAAGAAGGACAACACTAAAATATTGACTCCTCTTCATG
1 AGAAAGTCAAGAA-GACAACACTAAAAGATTGACTCCTCTTCACG
* ** * *
1686663 AGAAAGTCAAGGAAGATAACACCGAAAGATTGACTCCACTTCGCG
1 AGAAAGTCAA-GAAGACAACACTAAAAGATTGACTCCTCTTCACG
*
1686708 AGAAAGTCAAGGAGGACAACACTAAAAGATTGACTCCTCTTCACG
1 AGAAAGTCAA-GAAGACAACACTAAAAGATTGACTCCTCTTCACG
* *
1686753 AGAAAGTCAAG-A-ATAACACTGAAAGATTGACTCCTCTTCACG
1 AGAAAGTCAAGAAGACAACACTAAAAGATTGACTCCTCTTCACG
** * * ** * * *
1686795 AGGGAGTCAAGAATAACAATACCGAGAGATTGATTTCTCTTCACG
1 AGAAAGTCAAGAA-GACAACACTAAAAGATTGACTCCTCTTCACG
* * * ** *
1686840 AGAAAGTCAAGAATGACAATATTGAAAGATTGACTTTTGTTCACG
1 AGAAAGTCAAGAA-GACAACACTAAAAGATTGACTCCTCTTCACG
* * * *
1686885 AGAAAGTCAAG-A-ATAACAGTAAAAGATTAACTCCTCTTCACA
1 AGAAAGTCAAGAAGACAACACTAAAAGATTGACTCCTCTTCACG
** * * * * * *
1686927 AGGGAGTCAAGAATAACAATACTAAGAGATTGATTTCACTTCACG
1 AGAAAGTCAAGAA-GACAACACTAAAAGATTGACTCCTCTTCACG
* * * * *
1686972 AGAAAGTCAAGAATGACAATACTGAAAGATTGAATTCTCTTTACG
1 AGAAAGTCAAGAA-GACAACACTAAAAGATTGACTCCTCTTCACG
* * *
1687017 AGAAAGTCAAG-A-ATAACACTGAAAGATTGACTCCTCTTCATG
1 AGAAAGTCAAGAAGACAACACTAAAAGATTGACTCCTCTTCACG
** * * * *
1687059 AGGGAGTCAAG-A-A-TA-AC--AAAGACTGACTTCTCTTCACA
1 AGAAAGTCAAGAAGACAACACTAAAAGATTGACTCCTCTTCACG
* * * * * *
1687097 AGGAAGTCAAG-A-ATAACATTGAAAGATTGACTTCTCTTCACA
1 AGAAAGTCAAGAAGACAACACTAAAAGATTGACTCCTCTTCACG
*
1687139 AGGAAGTCAAGA
1 AGAAAGTCAAGA
1687151 TTAATATTGA
Statistics
Matches: 930, Mismatches: 165, Indels: 48
0.81 0.14 0.04
Matches are distributed among these distances:
38 29 0.03
39 1 0.00
40 3 0.00
41 1 0.00
42 133 0.14
43 2 0.00
44 17 0.02
45 726 0.78
46 18 0.02
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.21
Consensus pattern (44 bp):
AGAAAGTCAAGAAGACAACACTAAAAGATTGACTCCTCTTCACG
Found at i:1687092 original size:38 final size:38
Alignment explanation
Indices: 1686996--1687177 Score: 139
Period size: 42 Copynumber: 4.5 Consensus size: 38
1686986 GACAATACTG
* * * * *
1686996 AAAGATTGAATTCTCTTTACGAGAAAGTCAAGAATAACAC
1 AAAGATTGACTCCTCTTCACAAGGAAGTCAAGAAT-A-AC
** *
1687036 TGAAAGATTGACTCCTCTTCATGAGGGAGTCAAGAATAAC
1 --AAAGATTGACTCCTCTTCACAAGGAAGTCAAGAATAAC
* *
1687076 AAAGACTGACTTCTCTTCACAAGGAAGTCAAGAATAAC
1 AAAGATTGACTCCTCTTCACAAGGAAGTCAAGAATAAC
* * *
1687114 ATTGAAAGATTGACTTCTCTTCACAAGGAAGTCAAGATTAAT
1 ----AAAGATTGACTCCTCTTCACAAGGAAGTCAAGAATAAC
*
1687156 ATTGAAAATTGACTCCTCTTCA
1 A---AAGATTGACTCCTCTTCA
1687178 TGAGGGAGTT
Statistics
Matches: 117, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
38 34 0.29
40 2 0.02
41 17 0.15
42 64 0.55
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (38 bp):
AAAGATTGACTCCTCTTCACAAGGAAGTCAAGAATAAC
Found at i:1687134 original size:80 final size:80
Alignment explanation
Indices: 1687000--1687292 Score: 266
Period size: 80 Copynumber: 3.6 Consensus size: 80
1686990 ATACTGAAAG
* * * * * *
1687000 ATTGAATTCTCTTTACGAGAAAGTCAAGAATAACACTGAAAGATTGACTCCTCTTCATGAGGGAG
1 ATTGACTTCTCTTCACAAGAAAGTCAAGAATAACATTGAAAGATTGACTTCTCTTCACGAGGGAG
* *
1687065 TCAAGAATAACAAAG
66 TCAAGAATAAAAAAA
* * * *
1687080 ACTGACTTCTCTTCACAAGGAAGTCAAGAATAACATTGAAAGATTGACTTCTCTTCACAAGGAAG
1 ATTGACTTCTCTTCACAAGAAAGTCAAGAATAACATTGAAAGATTGACTTCTCTTCACGAGGGAG
* *
1687145 TCAAGATTAATATTGAAA
66 TCAAGAATAA-A--AAAA
* ** ** * * * *
1687163 ATTGACTCCTCTTCATGAGGGAGTTAAGAA-AGAAAATGAAAGATTGTC-TCATCTTCACGAGGG
1 ATTGACTTCTCTTCACAAGAAAGTCAAGAATA-ACATTGAAAGATTGACTTC-TCTTCACGAGGG
*
1687226 AGTCAAAAATAAAAAAA
64 AGTCAAGAATAAAAAAA
* ** * *
1687243 ATTGACTTTTCCGCGCAAGAAAGTCAATAATAACATTGAAAGATTGACTT
1 ATTGACTTCTCTTCACAAGAAAGTCAAGAATAACATTGAAAGATTGACTT
1687293 TTAGGGAAAC
Statistics
Matches: 164, Mismatches: 42, Indels: 13
0.75 0.19 0.06
Matches are distributed among these distances:
80 99 0.60
81 2 0.01
82 4 0.02
83 59 0.36
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (80 bp):
ATTGACTTCTCTTCACAAGAAAGTCAAGAATAACATTGAAAGATTGACTTCTCTTCACGAGGGAG
TCAAGAATAAAAAAA
Found at i:1693101 original size:22 final size:21
Alignment explanation
Indices: 1693074--1693115 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
1693064 TCGGTACCCC
*
1693074 TACTATGGTATCGATACTTCTA
1 TACTATGGTACCGATA-TTCTA
1693096 TACTATGGTACCGATATTCT
1 TACTATGGTACCGATATTCT
1693116 CTTCAGTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.40
Consensus pattern (21 bp):
TACTATGGTACCGATATTCTA
Found at i:1698987 original size:20 final size:20
Alignment explanation
Indices: 1698964--1699018 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
1698954 CTATTTGGAT
*
1698964 ATCAATACTGCTATGATGCC
1 ATCAATACTCCTATGATGCC
1698984 ATCAATACTCCTATGATGCC
1 ATCAATACTCCTATGATGCC
1699004 ATCAATACTCCTATG
1 ATCAATACTCCTATG
1699019 TGGGTACCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.31
Consensus pattern (20 bp):
ATCAATACTCCTATGATGCC
Found at i:1701080 original size:138 final size:137
Alignment explanation
Indices: 1700700--1701506 Score: 773
Period size: 138 Copynumber: 5.8 Consensus size: 137
1700690 CATAAAATGT
* * * *
1700700 AGGCTCTAATATT-ATCCCTAATCC-ATTTCAACCAATTATTGAATTGAATAATTAAAATGTAAC
1 AGGCTCTAATATTAAT--CTAA-CCAATTTTAATCAATTATTGAATCGAATAATTAAAATGGAAC
* * * * * *
1700763 CTTGAGCAAAAACGAAGACCAAATTAAAAATTCCCCTAAATTAAAGGACTAATTTTGAAATTAAA
63 CTCGAGCAAAAGCGAGGACCAAATTAAAAATTCTCCTAAATTAAAGGACTAAATTTGAAATTAAG
* *
1700828 CCTAAAATAA
128 CCTAAAGTGA
* * * ** *
1700838 AGGCTCTAAATAGTTAACCTACCCAATTTTAATCGATTATTTCATCGAATAATTAAAATAGAACC
1 AGGCTCT-AATA-TTAATCTAACCAATTTTAATCAATTATTGAATCGAATAATTAAAATGGAACC
* * *
1700903 TCGAGCAAAAGCGAGGACCAAATTGAGAATTCTCTTAAATTAAAGGACTAAATTTGAAATTAAGC
64 TCGAGCAAAAGCGAGGACCAAATTAAAAATTCTCCTAAATTAAAGGACTAAATTTGAAATTAAGC
1700968 CTAAAGTGA
129 CTAAAGTGA
* * * *
1700977 AGGCTCTAATAATTAATCTAGCCAATTCTAATCGATTATTGAATCGAATAATGAAAATGGAACCT
1 AGGCTCTAAT-ATTAATCTAACCAATTTTAATCAATTATTGAATCGAATAATTAAAATGGAACCT
* ** * * * *
1701042 AGAGCAAAAGTAAGGGCCAAATTAAGAACTCTCCTAAATTAAAGGACTAAATTTGAAATTAAACC
65 CGAGCAAAAGCGAGGACCAAATTAAAAATTCTCCTAAATTAAAGGACTAAATTTGAAATTAAGCC
* *
1701107 TAAAATAA
130 TAAAGTGA
* *** * * * * *
1701115 AGGCTCTACTATTAATCCTAATTGATTTTAATCAAATATTTCATTCAAATAATTAAAATGGAACA
1 AGGCTCTAATATTAAT-CTAACCAATTTTAATCAATTA-TTGAATCGAATAATTAAAATGGAACC
* * * ** *
1701180 TTGAGCAAAAGCGAGAACCAAATTAAAAATTCTCCT-AATTTAAGGACTAGGTTTGAAATTAGGC
64 TCGAGCAAAAGCGAGGACCAAATTAAAAATTCTCCTAAATTAAAGGACTAAATTTGAAATTAAGC
1701244 CTAAAGTGA
129 CTAAAGTGA
* *** * * *
1701253 AGGCTATAATATTAATCCTAATTGATTTTAATCAAATATTTGATTCGAATAATTAAAATGGAAAC
1 AGGCTCTAATATTAAT-CTAACCAATTTTAATCAATTA-TTGAATCGAATAATTAAAATGGAACC
* * * ** *
1701318 TCGAGCAAAAGTGATGACCAAATTAAAAATTGC-CCT-AATTTAAGGACTAAGCTTGAAATTAGG
64 TCGAGCAAAAGCGAGGACCAAATTAAAAATT-CTCCTAAATTAAAGGACTAAATTTGAAATTAAG
1701381 CCTAAAGTGA
128 CCTAAAGTGA
* *** * ** *
1701391 AGGCTTTAATATTAATCCTAATTGATATTAATCAATTATTTGGTTCGAATAATTAAAATAGAACC
1 AGGCTCTAATATTAAT-CTAACCAATTTTAATCAATTA-TTGAATCGAATAATTAAAATGGAACC
* * * *
1701456 TCGAGTAAAAGTGATGACCAAATTAAAAATTCCCCT-AA-TATAAGGACTAAA
64 TCGAGCAAAAGCGAGGACCAAATTAAAAATTCTCCTAAATTA-AAGGACTAAA
1701507 ATGTGATAAG
Statistics
Matches: 573, Mismatches: 86, Indels: 20
0.84 0.13 0.03
Matches are distributed among these distances:
137 8 0.01
138 401 0.70
139 161 0.28
140 2 0.00
141 1 0.00
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.29
Consensus pattern (137 bp):
AGGCTCTAATATTAATCTAACCAATTTTAATCAATTATTGAATCGAATAATTAAAATGGAACCTC
GAGCAAAAGCGAGGACCAAATTAAAAATTCTCCTAAATTAAAGGACTAAATTTGAAATTAAGCCT
AAAGTGA
Found at i:1701194 original size:277 final size:274
Alignment explanation
Indices: 1700700--1701506 Score: 910
Period size: 276 Copynumber: 2.9 Consensus size: 274
1700690 CATAAAATGT
* * * * *
1700700 AGGCTCTAATATT-ATCCCTAATCCATTTC-AACCAATTATTGAATTGAATAATTAAAATGTAAC
1 AGGCTATAATATTAAT-CCTAA-CCAATTCTAATCAATTATTGAATCGAATAATTAAAATGGAAC
* *
1700763 CTTGAGCAAAAACG-AAGACCAAATTAAAAATTCCCCTAAATTAAAGGACTAATTTTGAAATTAA
64 CTAGAGC-AAAA-GTAAGACCAAATTAAAAATT-CCCTAAATTAAAGGACTAAATTTGAAATTAA
**** *
1700827 ACCTAAAATAAAGGCTCTAAATAGTTAA-CCTACCCAATTTTAATCGATTATTTCA-TCGAATAA
126 ACCTAAAATAAAGGCTCT-AATA-TTAATCCTAATTGATTTTAATCAATTATTTCATTCGAATAA
* * *
1700890 TTAAAATAGAACCTCGAGCAAAAGCGAGGACCAAATTGAGAATTCTCTTAAATTAAAGGACTAAA
189 TTAAAATAGAACCTCGAGCAAAAGCGAGGACCAAATTAAAAATTCTCCT-AATTAAAGGACTAAA
1700955 TTTGAAATTAAGCCTAAAGTGA
253 TTTGAAATTAAGCCTAAAGTGA
* * * *
1700977 AGGCTCTAATAATTAAT-CTAGCCAATTCTAATCGATTATTGAATCGAATAATGAAAATGGAACC
1 AGGCTATAAT-ATTAATCCTAACCAATTCTAATCAATTATTGAATCGAATAATTAAAATGGAACC
* * *
1701041 TAGAGCAAAAGTAAGGGCCAAATTAAGAACTCTCCTAAATTAAAGGACTAAATTTGAAATTAAAC
65 TAGAGCAAAAGTAA-GACCAAATTAAAAATTC-CCTAAATTAAAGGACTAAATTTGAAATTAAAC
* * *
1701106 CTAAAATAAAGGCTCTACTATTAATCCTAATTGATTTTAATCAAATATTTCATTCAAATAATTAA
128 CTAAAATAAAGGCTCTAATATTAATCCTAATTGATTTTAATCAATTATTTCATTCGAATAATTAA
* * * * * **
1701171 AATGGAACATTGAGCAAAAGCGAGAACCAAATTAAAAATTCTCCTAATTTAAGGACTAGGTTTGA
193 AATAGAACCTCGAGCAAAAGCGAGGACCAAATTAAAAATTCTCCTAATTAAAGGACTAAATTTGA
*
1701236 AATTAGGCCTAAAGTGA
258 AATTAAGCCTAAAGTGA
*** * * * *
1701253 AGGCTATAATATTAATCCTAATTGATTTTAATCAAATATTTGATTCGAATAATTAAAATGGAAAC
1 AGGCTATAATATTAATCCTAACCAATTCTAATCAATTA-TTGAATCGAATAATTAAAATGGAACC
* * * ** **
1701318 TCGAGCAAAAGTGATGACCAAATTAAAAATTGCCCT-AATTTAAGGACTAAGCTTGAAATTAGGC
65 TAGAGCAAAAGT-AAGACCAAATTAAAAATT-CCCTAAATTAAAGGACTAAATTTGAAATTAAAC
* * * * **
1701382 CTAAAGTGAAGGCTTTAATATTAATCCTAATTGATATTAATCAATTATTTGGTTCGAATAATTAA
128 CTAAAATAAAGGCTCTAATATTAATCCTAATTGATTTTAATCAATTATTTCATTCGAATAATTAA
* * * *
1701447 AATAGAACCTCGAGTAAAAGTGATGACCAAATTAAAAATTCCCCTAA-TATAAGGACTAAA
193 AATAGAACCTCGAGCAAAAGCGAGGACCAAATTAAAAATTCTCCTAATTA-AAGGACTAAA
1701507 ATGTGATAAG
Statistics
Matches: 445, Mismatches: 72, Indels: 27
0.82 0.13 0.05
Matches are distributed among these distances:
275 12 0.03
276 219 0.49
277 207 0.47
278 5 0.01
279 2 0.00
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.29
Consensus pattern (274 bp):
AGGCTATAATATTAATCCTAACCAATTCTAATCAATTATTGAATCGAATAATTAAAATGGAACCT
AGAGCAAAAGTAAGACCAAATTAAAAATTCCCTAAATTAAAGGACTAAATTTGAAATTAAACCTA
AAATAAAGGCTCTAATATTAATCCTAATTGATTTTAATCAATTATTTCATTCGAATAATTAAAAT
AGAACCTCGAGCAAAAGCGAGGACCAAATTAAAAATTCTCCTAATTAAAGGACTAAATTTGAAAT
TAAGCCTAAAGTGA
Found at i:1701824 original size:14 final size:15
Alignment explanation
Indices: 1701780--1701829 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
1701770 TTAAGGTAGG
1701780 AATTGAAATAACAAAA
1 AATT-AAATAACAAAA
*
1701796 AATTAAATGGA-AAAA
1 AATTAAAT-AACAAAA
1701811 AA-TAAATAAC-AAA
1 AATTAAATAACAAAA
1701824 AATTAA
1 AATTAA
1701830 GTCAATCGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 6 0.21
14 8 0.28
15 10 0.34
16 5 0.17
ACGTcount: A:0.70, C:0.04, G:0.06, T:0.20
Consensus pattern (15 bp):
AATTAAATAACAAAA
Found at i:1701987 original size:33 final size:33
Alignment explanation
Indices: 1701948--1702032 Score: 116
Period size: 34 Copynumber: 2.5 Consensus size: 33
1701938 TTCAAACAAT
1701948 AAAAGTTAGCGGGTTAGTCCAACAATAAAATAA
1 AAAAGTTAGCGGGTTAGTCCAACAATAAAATAA
* ** *
1701981 AAAAGTTAGCGGGTTAATTTGAACAATGAAATAA
1 AAAAGTTAGCGGGTT-AGTCCAACAATAAAATAA
*
1702015 AAGAGTTAGCGGGTTAGT
1 AAAAGTTAGCGGGTTAGT
1702033 GGTAAGAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
33 17 0.38
34 28 0.62
ACGTcount: A:0.44, C:0.08, G:0.24, T:0.25
Consensus pattern (33 bp):
AAAAGTTAGCGGGTTAGTCCAACAATAAAATAA
Found at i:1703824 original size:183 final size:184
Alignment explanation
Indices: 1703351--1703998 Score: 978
Period size: 183 Copynumber: 3.5 Consensus size: 184
1703341 GTTATACAAT
* **
1703351 TAAAATATGTATCGATCTATAACAATATAACAGGTAAAAATATGACAAAACTGGTTTCATTATGA
1 TAAAATATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGA
** * *
1703416 CAAAACTGGTAAAGCGCTACCGGATATGTT-AAATGTTTCAATTCCATTGAAATAAGTATCGACA
66 CAAAACCAGTAAAGCGCTACCGGATATGTTGAAAT-TATCGATTCCATTGAAATAAGTATCGACA
* *
1703480 CTTTTGGAATTTAAAAGAGAAGCAGTAATAGCGCATATATAGTGTCGATAATTTA
130 CTTTTGGAATTTAAAAGAGAAGCAGTAATAGCGCATATAAAGTGTCGATACTTTA
* **
1703535 TAAAATATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAATTAGTTTCATTATGA
1 TAAAATATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGA
* * *
1703600 CAAAATCAGTAAAGCGCTACCGGATATGTTGAAAGTATCGATTACATTGAAATAAGTATCGACAC
66 CAAAACCAGTAAAGCGCTACCGGATATGTTGAAATTATCGATTCCATTGAAATAAGTATCGACAC
*
1703665 TTTTGGAATTTAAAAGAGAAGCAGTAATAGCGCTTATAAAGTGTCGATACTTTA
131 TTTTGGAATTTAAAAGAGAAGCAGTAATAGCGCATATAAAGTGTCGATACTTTA
*
1703719 TAAAA-ATGTATCGATCCATAACAATATTACAGGTAAAAATATGACAAAACCAGTTTCATTATGA
1 TAAAATATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGA
* * *
1703783 CAAAACCAGTAAAGCGCTATCGAATATTTTGAAATTATCGATTCCATTGAAATAAGTATCGACAC
66 CAAAACCAGTAAAGCGCTACCGGATATGTTGAAATTATCGATTCCATTGAAATAAGTATCGACAC
* * * *
1703848 TTTTGGAATTTAAAAGAAAAGTAGTAATAGCGCCTATAAAGTGTCGTTACTTTA
131 TTTTGGAATTTAAAAGAGAAGCAGTAATAGCGCATATAAAGTGTCGATACTTTA
* * * *
1703902 TAAAA-ATGTTTCGATCCATAACAACATAACAGGTAAAAATATGACAAAATCGGTTTCATTATGA
1 TAAAATATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGA
* * * *
1703966 AAAAATCGGTAAAGCGCTACCAGATATGTTGAA
66 CAAAACCAGTAAAGCGCTACCGGATATGTTGAA
1703999 TGTCTATACT
Statistics
Matches: 423, Mismatches: 40, Indels: 3
0.91 0.09 0.01
Matches are distributed among these distances:
183 249 0.59
184 171 0.40
185 3 0.01
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.29
Consensus pattern (184 bp):
TAAAATATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGA
CAAAACCAGTAAAGCGCTACCGGATATGTTGAAATTATCGATTCCATTGAAATAAGTATCGACAC
TTTTGGAATTTAAAAGAGAAGCAGTAATAGCGCATATAAAGTGTCGATACTTTA
Found at i:1706346 original size:15 final size:15
Alignment explanation
Indices: 1706326--1706359 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1706316 AGATGGTAGT
*
1706326 AGGGGGAAGACGGTG
1 AGGGGGAAGACGATG
*
1706341 AGGGGGATGACGATG
1 AGGGGGAAGACGATG
1706356 AGGG
1 AGGG
1706360 AAAACGGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.26, C:0.06, G:0.59, T:0.09
Consensus pattern (15 bp):
AGGGGGAAGACGATG
Found at i:1711279 original size:31 final size:30
Alignment explanation
Indices: 1711244--1711302 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
1711234 GTTATATGAG
*
1711244 CTATGTCATAAAGGTATGGAAAATGATATGT
1 CTATGTCATAAAGGTAT-GAAAATAATATGT
*
1711275 CTATGTGATAAAGGTATGAAAATAATAT
1 CTATGTCATAAAGGTATGAAAATAATAT
1711303 AGGTATAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 10 0.38
31 16 0.62
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.32
Consensus pattern (30 bp):
CTATGTCATAAAGGTATGAAAATAATATGT
Found at i:1712774 original size:103 final size:103
Alignment explanation
Indices: 1712595--1712800 Score: 412
Period size: 103 Copynumber: 2.0 Consensus size: 103
1712585 TGTTCTGGAT
1712595 CAATTGTGTATTAATGTGCCTTTACTTTAACCCACTCGAAAGATTAGGATTCTCATAAGCGATTA
1 CAATTGTGTATTAATGTGCCTTTACTTTAACCCACTCGAAAGATTAGGATTCTCATAAGCGATTA
1712660 TGACAGTAGCAAACATAATTGTGTTATGGTGATGATTG
66 TGACAGTAGCAAACATAATTGTGTTATGGTGATGATTG
1712698 CAATTGTGTATTAATGTGCCTTTACTTTAACCCACTCGAAAGATTAGGATTCTCATAAGCGATTA
1 CAATTGTGTATTAATGTGCCTTTACTTTAACCCACTCGAAAGATTAGGATTCTCATAAGCGATTA
1712763 TGACAGTAGCAAACATAATTGTGTTATGGTGATGATTG
66 TGACAGTAGCAAACATAATTGTGTTATGGTGATGATTG
1712801 ACACTAACAA
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 103 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (103 bp):
CAATTGTGTATTAATGTGCCTTTACTTTAACCCACTCGAAAGATTAGGATTCTCATAAGCGATTA
TGACAGTAGCAAACATAATTGTGTTATGGTGATGATTG
Found at i:1714388 original size:199 final size:198
Alignment explanation
Indices: 1714048--1715162 Score: 1337
Period size: 199 Copynumber: 5.8 Consensus size: 198
1714038 ATCGATAATT
** * *
1714048 TTTAAAATTGTATCGATCTTAAAAACATTGAACCCGATAATTATAATGTAATAGGTAAATTTACA
1 TTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
* ** * *
1714113 ATGTAGCCAGCAGAAATATACCAGTTTAATTAGAAAATAGGTCAACATAATGTATCGATACTTTT
66 ATGTAACTGGTAGAAATATACCAGTTTAATTAGAAAATAGGTCAACATAATGTATCGACACTTTT
*
1714178 TAAATTTGTGTCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCATGCATAAAGTGTCGA
131 TAAATTTGTGTCGATACTTTTGGTGCAGAATGAATGCCCAACGA-GTGCATGCATAAAGTGTCGA
1714243 TACA
195 TACA
* * *
1714247 TTTAAAATTGTATCGATCCCAAAAACATCGAAATCGATAATTATAATGTAATACGTAAATTTGCA
1 TTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
1714312 ATGTAACAT-GTAGAAATATACC-GATTTAATTAGAAAATAGGTCAACATAATGTATCGACACTT
66 ATGTAAC-TGGTAGAAATATACCAG-TTTAATTAGAAAATAGGTCAACATAATGTATCGACACTT
* * * *
1714375 TTTAAATTTGTGTCGATACTTTTGGGGCAAAATGAATGCCTAACGAGGTGCACGCATAAAGTGTC
129 TTTAAATTTGTGTCGATACTTTTGGTGCAGAATGAATGCCCAACGA-GTGCATGCATAAAGTGTC
1714440 GATACA
193 GATACA
* *
1714446 TTTAAAATTGTATCGATCCCAAGAACATCG-AACCTGATAATTATAATATAATAGGTAAATTTAC
1 TTTAAAATTGTATCGATCCCAAAAACATCGAAACC-GATAATTATAATGTAATAGGTAAATTTAC
* * * *
1714510 AATATAACTGGTAGAAATATATCAGTTTAATTAGAAAAAAGGT---C--AATGTATCGATAC---
65 AATGTAACTGGTAGAAATATACCAGTTTAATTAGAAAATAGGTCAACATAATGTATCGACACTTT
* * * ** * * * * *
1714567 -T---TTTG-GTCCAGAATGAT--TGC---CT-AA----CGA-G-GTGCACGCATAAAATGTCAA
130 TTAAATTTGTGTCGATACTTTTGGTGCAGAATGAATGCCCAACGAGTGCATGCATAAAGTGTCGA
1714615 TACA
195 TACA
* **
1714619 TTTAAAATTGTATCGATCCCAAAAACATTGAAACCGATAATTATAATGTAATACATAAATTTACA
1 TTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
* *
1714684 ATGTAACCGGTAGAATTATACC-GATTTAATTAGAAAATAGGTCAACATAATGTATCGACACTTT
66 ATGTAACTGGTAGAAATATACCAG-TTTAATTAGAAAATAGGTCAACATAATGTATCGACACTTT
* * * * * * *
1714748 TTAAATTTGTGTCGATACTTTTGGTCCAAAATGAATGTCCAACGATGTGCACGCATAAATTTTCT
130 TTAAATTTGTGTCGATACTTTTGGTGCAGAATGAATGCCCAACGA-GTGCATGCATAAAGTGTCG
1714813 ATACA
194 ATACA
* * * *
1714818 TTTAAAATTGTACCAATCTCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTAAA
1 TTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
*
1714883 ATGTAACTAGTAGAAATATACC-GATTTAATTAGAAAATAGGTCAACATAATGTATCGACACTTT
66 ATGTAACTGGTAGAAATATACCAG-TTTAATTAGAAAATAGGTCAACATAATGTATCGACACTTT
*
1714947 TTAAATTTGTGTCGATACTTTTGGTGCAGAATGAATGACCAACGAG-G--TGCATAAAGTGTCGA
130 TTAAATTTGTGTCGATACTTTTGGTGCAGAATGAATGCCCAACGAGTGCATGCATAAAGTGTCGA
1715009 TACA
195 TACA
* *
1715013 TTTAAAATTGTATCGATCCCAAAAACATCGAACCCGATAATTATAATGTAATAGATAAATTTACA
1 TTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
* * * * * * * *
1715078 ATGTAACTGGTAAAAATATATCAGTTTTATGAGAGAATAAGT-ACACATATTGTATGGACACTTT
66 ATGTAACTGGTAGAAATATACCAGTTTAATTAGAAAATAGGTCA-ACATAATGTATCGACACTTT
* *
1715142 TTAAA-TTGTATCGATATTTTT
130 TTAAATTTGTGTCGATACTTTT
1715163 TAAAATTACA
Statistics
Matches: 789, Mismatches: 92, Indels: 75
0.83 0.10 0.08
Matches are distributed among these distances:
172 1 0.00
173 112 0.14
174 4 0.01
175 1 0.00
176 2 0.00
178 12 0.02
180 2 0.00
181 1 0.00
182 1 0.00
184 2 0.00
185 4 0.01
186 14 0.02
187 4 0.01
188 2 0.00
190 1 0.00
191 1 0.00
192 2 0.00
194 27 0.03
195 130 0.16
196 4 0.01
197 2 0.00
198 6 0.01
199 453 0.57
200 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (198 bp):
TTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACA
ATGTAACTGGTAGAAATATACCAGTTTAATTAGAAAATAGGTCAACATAATGTATCGACACTTTT
TAAATTTGTGTCGATACTTTTGGTGCAGAATGAATGCCCAACGAGTGCATGCATAAAGTGTCGAT
ACA
Found at i:1714680 original size:173 final size:173
Alignment explanation
Indices: 1714387--1714728 Score: 508
Period size: 173 Copynumber: 2.0 Consensus size: 173
1714377 TAAATTTGTG
* * *
1714387 TCGATACTTTTGGGGCAAAATGAATGCCTAACGAGGTGCACGCATAAAGTGTCGATACATTTAAA
1 TCGATACTTTTGGGCCAAAATGAATGCCTAACGAGGTGCACGCATAAAATGTCAATACATTTAAA
* **
1714452 ATTGTATCGATCCCAAGAACATCGAACCTGATAATTATAATATAATAGGTAAATTTACAATATAA
66 ATTGTATCGATCCCAAAAACATCGAACCTGATAATTATAATATAATACATAAATTTACAATATAA
*
1714517 CTGGTAGAAATATATCAG-TTTAATTAGAAAAAAGGTCAATGTA
131 CCGGTAGAAATATA-CAGATTTAATTAGAAAAAAGGTCAATGTA
* * *
1714560 TCGATACTTTTGGTCCAGAATGATTGCCTAACGAGGTGCACGCATAAAATGTCAATACATTTAAA
1 TCGATACTTTTGGGCCAAAATGAATGCCTAACGAGGTGCACGCATAAAATGTCAATACATTTAAA
* * *
1714625 ATTGTATCGATCCCAAAAACATTGAAACC-GATAATTATAATGTAATACATAAATTTACAATGTA
66 ATTGTATCGATCCCAAAAACATCG-AACCTGATAATTATAATATAATACATAAATTTACAATATA
* * *
1714689 ACCGGTAGAATTATACCGATTTAATTAGAAAATAGGTCAA
130 ACCGGTAGAAATATACAGATTTAATTAGAAAAAAGGTCAA
1714729 CATAATGTAT
Statistics
Matches: 151, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
172 2 0.01
173 145 0.96
174 4 0.03
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.29
Consensus pattern (173 bp):
TCGATACTTTTGGGCCAAAATGAATGCCTAACGAGGTGCACGCATAAAATGTCAATACATTTAAA
ATTGTATCGATCCCAAAAACATCGAACCTGATAATTATAATATAATACATAAATTTACAATATAA
CCGGTAGAAATATACAGATTTAATTAGAAAAAAGGTCAATGTA
Found at i:1714873 original size:372 final size:372
Alignment explanation
Indices: 1714188--1715162 Score: 1196
Period size: 372 Copynumber: 2.6 Consensus size: 372
1714178 TAAATTTGTG
* * *
1714188 TCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCATGCATAAAGTGTCGATACATTTAAA
1 TCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAATGTCAATACATTTAAA
* * *
1714253 ATTGTATCGATCCCAAAAACATCGAAATCGATAATTATAATGTAATACGTAAATTTGCAATGTAA
66 ATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATACATAAATTTACAATGTAA
*
1714318 CATGTAGAAATATACCGATTTAATTAGAAAATAGGTCAACATAATGTATCGACACTTTTTAAATT
131 CAGGTAGAAATATACCGATTTAATTAGAAAATAGGTCAACATAATGTATCGACACTTTTTAAATT
*
1714383 TGTGTCGATACTTTTGGGGCAAAATGAATGCCTAACGAGGTGCACGCATAAAGTGTCGATACATT
196 TGTGTCGATACTTTTGGGCCAAAATGAATGCCTAACGAGGTGCACGCATAAAGTGTCGATACATT
* * * *
1714448 TAAAATTGTATCGATCCCAAGAACATCGAACCTGATAATTATAATATAATAGGTAAATTTACAAT
261 TAAAATTGTACCAATCCCAAAAACATCGAACCTGATAATTATAATATAATAGGTAAATTTAAAAT
*
1714513 ATAACTGGTAGAAATATATCAG-TTTAATTAGAAAAAAGGTCAATGTA
326 ATAACTAGTAGAAATATA-CAGATTTAATTAGAAAAAAGGTCAATGTA
* *
1714560 TCGATACTTTTGGTCCAGAATGATTGCCTAACGAGGTGCACGCATAAAATGTCAATACATTTAAA
1 TCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAATGTCAATACATTTAAA
*
1714625 ATTGTATCGATCCCAAAAACATTGAAACCGATAATTATAATGTAATACATAAATTTACAATGTAA
66 ATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATACATAAATTTACAATGTAA
* *
1714690 CCGGTAGAATTATACCGATTTAATTAGAAAATAGGTCAACATAATGTATCGACACTTTTTAAATT
131 CAGGTAGAAATATACCGATTTAATTAGAAAATAGGTCAACATAATGTATCGACACTTTTTAAATT
* * * * *
1714755 TGTGTCGATACTTTTGGTCCAAAATGAATGTCC-AACGATGTGCACGCATAAATTTTCTATACAT
196 TGTGTCGATACTTTTGGGCCAAAATGAATG-CCTAACGAGGTGCACGCATAAAGTGTCGATACAT
* *
1714819 TTAAAATTGTACCAATCTCAAAAACATCGAAACC-GATAATTATAATGTAATAGGTAAATTTAAA
260 TTAAAATTGTACCAATCCCAAAAACATCG-AACCTGATAATTATAATATAATAGGTAAATTTAAA
* * *
1714883 ATGTAACTAGTAGAAATATACCGATTTAATTAGAAAATAGGTCAACATAATGTATCGACACTTTT
324 ATATAACTAGTAGAAATATACAGATTTAATTAGAAAAAAGGT---C---A---AT-G--------
1714948 TAAA
371 T--A
* * * *
1714952 TTTGTGTCGATACTTTTGGTGCAGAATGAATGACCAACGAGGT----GCATAAAGTGTCGATACA
1 ------TCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAATGTCAATACA
* *
1715013 TTTAAAATTGTATCGATCCCAAAAACATCGAACCCGATAATTATAATGTAATAGATAAATTTACA
60 TTTAAAATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATACATAAATTTACA
* * * * * * * * *
1715078 ATGTAACTGGTAAAAATATATC-AGTTTTATGAGAGAATAAGT-ACACATATTGTATGGACACTT
125 ATGTAACAGGTAGAAATATACCGA-TTTAATTAGAAAATAGGTCA-ACATAATGTATCGACACTT
* *
1715141 TTTAAA-TTGTATCGATATTTTT
188 TTTAAATTTGTGTCGATACTTTT
1715163 TAAAATTACA
Statistics
Matches: 523, Mismatches: 49, Indels: 41
0.85 0.08 0.07
Matches are distributed among these distances:
371 2 0.00
372 326 0.62
373 6 0.01
375 1 0.00
378 1 0.00
381 2 0.00
382 1 0.00
390 1 0.00
392 1 0.00
393 16 0.03
394 133 0.25
398 33 0.06
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (372 bp):
TCGATACTTTTGGTCCAGAATGAATGCCCAACGAGGTGCACGCATAAAATGTCAATACATTTAAA
ATTGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATACATAAATTTACAATGTAA
CAGGTAGAAATATACCGATTTAATTAGAAAATAGGTCAACATAATGTATCGACACTTTTTAAATT
TGTGTCGATACTTTTGGGCCAAAATGAATGCCTAACGAGGTGCACGCATAAAGTGTCGATACATT
TAAAATTGTACCAATCCCAAAAACATCGAACCTGATAATTATAATATAATAGGTAAATTTAAAAT
ATAACTAGTAGAAATATACAGATTTAATTAGAAAAAAGGTCAATGTA
Found at i:1715151 original size:20 final size:20
Alignment explanation
Indices: 1715126--1715166 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1715116 AAGTACACAT
*
1715126 ATTGTATGGACACTTTTTAA
1 ATTGTATCGACACTTTTTAA
* *
1715146 ATTGTATCGATATTTTTTAA
1 ATTGTATCGACACTTTTTAA
1715166 A
1 A
1715167 ATTACACGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.07, G:0.12, T:0.49
Consensus pattern (20 bp):
ATTGTATCGACACTTTTTAA
Found at i:1716571 original size:21 final size:21
Alignment explanation
Indices: 1716545--1716622 Score: 113
Period size: 21 Copynumber: 3.6 Consensus size: 21
1716535 GCTGTCAAAA
1716545 TGCATCCATGCACCCCTGCAG
1 TGCATCCATGCACCCCTGCAG
1716566 TGCATCCATGCACCCCTGCAG
1 TGCATCCATGCACCCCTGCAG
*
1716587 TGCATCCATGCACCTGCC-ACTAG
1 TGCATCCATGCACC--CCTGC-AG
1716610 TGCATCCATGCAC
1 TGCATCCATGCAC
1716623 TACATTTTGA
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
21 35 0.66
22 1 0.02
23 17 0.32
ACGTcount: A:0.21, C:0.41, G:0.18, T:0.21
Consensus pattern (21 bp):
TGCATCCATGCACCCCTGCAG
Found at i:1719829 original size:21 final size:21
Alignment explanation
Indices: 1719803--1719860 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
1719793 AGGGTGTCAA
1719803 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
* * *
1719824 AGTGCATCCATGCACTCTTGT
1 AGTGCATCCATGCACCCCTGC
1719845 AGTGCATCCATGCACC
1 AGTGCATCCATGCACC
1719861 AGCCACTAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTGC
Found at i:1720870 original size:3 final size:3
Alignment explanation
Indices: 1720839--1720882 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
1720829 CAAGAGCTCA
* * * *
1720839 ATG AAG ATG ACG ATG AAG ATG AAG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1720883 CCAAACAAGT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.41, C:0.02, G:0.32, T:0.25
Consensus pattern (3 bp):
ATG
Found at i:1729374 original size:25 final size:25
Alignment explanation
Indices: 1729340--1729401 Score: 81
Period size: 25 Copynumber: 2.4 Consensus size: 25
1729330 ATAAGTCTAG
*
1729340 ATTCAATATTTTGATACATGATCAT-A
1 ATTC-ATATTATGATACATGA-CATGA
*
1729366 TTTCATATTATGATACATGACATGA
1 ATTCATATTATGATACATGACATGA
1729391 ATTCATATTAT
1 ATTCATATTAT
1729402 ATGCATTATG
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 3 0.09
25 26 0.81
26 3 0.09
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (25 bp):
ATTCATATTATGATACATGACATGA
Found at i:1730352 original size:21 final size:21
Alignment explanation
Indices: 1730326--1730369 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
1730316 TTACGAAAGA
*
1730326 ACTGTAGCAGTGCATCGATAC
1 ACTGTAGCACTGCATCGATAC
1730347 ACTGTAGCACTGCATCGATAC
1 ACTGTAGCACTGCATCGATAC
1730368 AC
1 AC
1730370 AATTTATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (21 bp):
ACTGTAGCACTGCATCGATAC
Found at i:1736252 original size:25 final size:25
Alignment explanation
Indices: 1736197--1736258 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
1736187 ATAAGTCTAG
*
1736197 ATTCTATATTTTGATACATGATCACA
1 ATTC-ATATTATGATACATGATCACA
* *
1736223 TTTCATATTATGATACATGA-CATGA
1 ATTCATATTATGATACATGATCA-CA
1736248 ATTCATATTAT
1 ATTCATATTAT
1736259 ATGCATTATG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 2 0.06
25 26 0.84
26 3 0.10
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (25 bp):
ATTCATATTATGATACATGATCACA
Found at i:1736359 original size:30 final size:31
Alignment explanation
Indices: 1736300--1736360 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
1736290 GTTATATGAG
*
1736300 ATATATGATAAAGGTATGGAAAATGATATGT
1 ATATATGATAAAGGTATGGAAAATAATATGT
*
1736331 ATATGTGATAAAGGTAT-GAAAATAATATGT
1 ATATATGATAAAGGTATGGAAAATAATATGT
1736361 CTACGCGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 12 0.43
31 16 0.57
ACGTcount: A:0.46, C:0.00, G:0.21, T:0.33
Consensus pattern (31 bp):
ATATATGATAAAGGTATGGAAAATAATATGT
Done.