Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold341
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: 1349338
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
Warning! 499 characters in sequence are not A, C, G, or T
File 8 of 9
Found at i:1062253 original size:3 final size:3
Alignment explanation
Indices: 1062247--1062272 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1062237 TTTTACATAG
1062247 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
1062273 GTTGTTGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1066630 original size:19 final size:20
Alignment explanation
Indices: 1066606--1066656 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
1066596 TCGATACATT
* *
1066606 GTATCGATACATATT-TATA
1 GTATCGATACATATTGAAAA
*
1066625 GTATCGATACATCTTGAAAA
1 GTATCGATACATATTGAAAA
1066645 GTATCGATACAT
1 GTATCGATACAT
1066657 GAAACTGGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (20 bp):
GTATCGATACATATTGAAAA
Found at i:1068781 original size:15 final size:15
Alignment explanation
Indices: 1068757--1068811 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
1068747 AATAAATAAA
1068757 AAATTGTTGAGAATG
1 AAATTGTTGAGAATG
* *
1068772 AAATTTTTGA-AAAG
1 AAATTGTTGAGAATG
*
1068786 AAAATTGTTGAGAATA
1 -AAATTGTTGAGAATG
*
1068802 AAATTCTTGA
1 AAATTGTTGA
1068812 AAAGAAAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
14 3 0.09
15 27 0.84
16 2 0.06
ACGTcount: A:0.45, C:0.02, G:0.18, T:0.35
Consensus pattern (15 bp):
AAATTGTTGAGAATG
Found at i:1068792 original size:30 final size:30
Alignment explanation
Indices: 1068756--1068823 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
1068746 AAATAAATAA
* *
1068756 AAAATTGTTGAGAATGAAATTTTTGAAAAG
1 AAAATTGTTGAGAATAAAATTCTTGAAAAG
1068786 AAAATTGTTGAGAATAAAATTCTTGAAAAG
1 AAAATTGTTGAGAATAAAATTCTTGAAAAG
1068816 AAAATTGT
1 AAAATTGT
1068824 CGAACTAGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.49, C:0.01, G:0.18, T:0.32
Consensus pattern (30 bp):
AAAATTGTTGAGAATAAAATTCTTGAAAAG
Found at i:1068819 original size:15 final size:15
Alignment explanation
Indices: 1068772--1068821 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
1068762 GTTGAGAATG
*
1068772 AAATTTTTGAAAAGA
1 AAATTCTTGAAAAGA
* * *
1068787 AAATTGTTGAGAATA
1 AAATTCTTGAAAAGA
1068802 AAATTCTTGAAAAGA
1 AAATTCTTGAAAAGA
1068817 AAATT
1 AAATT
1068822 GTCGAACTAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.52, C:0.02, G:0.14, T:0.32
Consensus pattern (15 bp):
AAATTCTTGAAAAGA
Found at i:1070017 original size:19 final size:20
Alignment explanation
Indices: 1069993--1070047 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
1069983 GTATCGATAT
*
1069993 ATTGTATCGATACATGTTC-
1 ATTGTATCGATACATGCTCA
*
1070012 ATTGTATCGATACATACTCA
1 ATTGTATCGATACATGCTCA
1070032 ATTGTATCGATACATG
1 ATTGTATCGATACATG
1070048 AAAGTGGTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (20 bp):
ATTGTATCGATACATGCTCA
Found at i:1078771 original size:19 final size:20
Alignment explanation
Indices: 1078747--1078798 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
1078737 ATGCTTTGTA
*
1078747 GTATCGATACATGTTC-ATT
1 GTATCGATACATGCTCAATT
*
1078766 GTATCGATACATACTCAATT
1 GTATCGATACATGCTCAATT
1078786 GTATCGATACATG
1 GTATCGATACATG
1078799 AAAGTGGCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (20 bp):
GTATCGATACATGCTCAATT
Found at i:1080535 original size:20 final size:19
Alignment explanation
Indices: 1080493--1080586 Score: 75
Period size: 20 Copynumber: 4.6 Consensus size: 19
1080483 ACCCTTAAAA
1080493 GTATCGATACATATCCAGA-T
1 GTATCGATACATAT-CA-ATT
**
1080513 GTATCGATACATCATGCTTTGT
1 GTATCGATACAT-AT-CAAT-T
*
1080535 AGTATCGATACATGTTC-ATT
1 -GTATCGATACAT-ATCAATT
1080555 GTATCGATACATAATCAATT
1 GTATCGATACAT-ATCAATT
1080575 GTATCGATACAT
1 GTATCGATACAT
1080587 GAAAGTGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
19 14 0.23
20 28 0.46
21 4 0.07
22 2 0.03
23 13 0.21
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (19 bp):
GTATCGATACATATCAATT
Found at i:1080560 original size:19 final size:20
Alignment explanation
Indices: 1080536--1080588 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
1080526 ATGCTTTGTA
*
1080536 GTATCGATACATGTTC-ATT
1 GTATCGATACATGATCAATT
*
1080555 GTATCGATACATAATCAATT
1 GTATCGATACATGATCAATT
1080575 GTATCGATACATGA
1 GTATCGATACATGA
1080589 AAGTGACAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (20 bp):
GTATCGATACATGATCAATT
Found at i:1080577 original size:42 final size:43
Alignment explanation
Indices: 1080492--1080586 Score: 108
Period size: 43 Copynumber: 2.3 Consensus size: 43
1080482 AACCCTTAAA
* *
1080492 AGTATCGATACATATCCAGATGTATCGATACATCATGCTTTGT
1 AGTATCGATACATATCCAGATGTATCGATACATAATGCATTGT
* * * *
1080535 AGTATCGATACATGTTCA-TTGTATCGATACATAAT-CAAT-T
1 AGTATCGATACATATCCAGATGTATCGATACATAATGCATTGT
1080575 -GTATCGATACAT
1 AGTATCGATACAT
1080587 GAAAGTGACA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
39 12 0.26
40 1 0.02
41 2 0.04
42 15 0.33
43 16 0.35
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.36
Consensus pattern (43 bp):
AGTATCGATACATATCCAGATGTATCGATACATAATGCATTGT
Found at i:1080654 original size:13 final size:13
Alignment explanation
Indices: 1080636--1080661 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1080626 CATGGGATAC
1080636 TGTATCGATACAT
1 TGTATCGATACAT
1080649 TGTATCGATACAT
1 TGTATCGATACAT
1080662 GAAGAATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1080675 original size:33 final size:33
Alignment explanation
Indices: 1080616--1080682 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
1080606 CTAAGTGAAA
* *
1080616 TGTATCGATACATGGGATACTGTATCGATACAT
1 TGTATCGATACATGAGATACTATATCGATACAT
*
1080649 TGTATCGATACATGAAGA-ATTATATCGATACAT
1 TGTATCGATACATG-AGATACTATATCGATACAT
1080682 T
1 T
1080683 ATGCCTAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (33 bp):
TGTATCGATACATGAGATACTATATCGATACAT
Found at i:1083976 original size:17 final size:17
Alignment explanation
Indices: 1083954--1083992 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
1083944 AATACCGCAT
1083954 GTTATATTGTAAACTGA
1 GTTATATTGTAAACTGA
1083971 GTTATATTGTAAACTGA
1 GTTATATTGTAAACTGA
1083988 GTTAT
1 GTTAT
1083993 GATTAGGCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (17 bp):
GTTATATTGTAAACTGA
Found at i:1086480 original size:13 final size:13
Alignment explanation
Indices: 1086462--1086552 Score: 59
Period size: 13 Copynumber: 6.9 Consensus size: 13
1086452 ACTGCGTTAT
1086462 TTGTATCGATACA
1 TTGTATCGATACA
1086475 TTGTATCGATACTAA
1 TTGTATCGATAC--A
1086490 GTTCTTTGTATCGATACA
1 -----TTGTATCGATACA
1086508 TTGTATCGAT--A
1 TTGTATCGATACA
**
1086519 TTGTAT---T-TT
1 TTGTATCGATACA
1086528 TTGTATCGATACA
1 TTGTATCGATACA
1086541 TTGTATCGATAC
1 TTGTATCGATAC
1086553 TGCGTTCTTT
Statistics
Matches: 63, Mismatches: 3, Indels: 24
0.70 0.03 0.27
Matches are distributed among these distances:
8 1 0.02
9 6 0.10
11 7 0.11
12 1 0.02
13 34 0.54
15 1 0.02
18 1 0.02
20 12 0.19
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.45
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1086485 original size:33 final size:33
Alignment explanation
Indices: 1086443--1086574 Score: 192
Period size: 33 Copynumber: 4.0 Consensus size: 33
1086433 AAAACCCAAA
*
1086443 TGTATCGATACTGCGTTATTTGTATCGATACAT
1 TGTATCGATACTGCGTTCTTTGTATCGATACAT
**
1086476 TGTATCGATACTAAGTTCTTTGTATCGATACAT
1 TGTATCGATACTGCGTTCTTTGTATCGATACAT
* ** *
1086509 TGTATCGATATTGTATTTTTTGTATCGATACAT
1 TGTATCGATACTGCGTTCTTTGTATCGATACAT
*
1086542 TGTATCGATACTGCGTTCTTTATATCGATACAT
1 TGTATCGATACTGCGTTCTTTGTATCGATACAT
1086575 GGGTATTATT
Statistics
Matches: 86, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 86 1.00
ACGTcount: A:0.25, C:0.14, G:0.16, T:0.45
Consensus pattern (33 bp):
TGTATCGATACTGCGTTCTTTGTATCGATACAT
Found at i:1088469 original size:57 final size:60
Alignment explanation
Indices: 1088366--1088507 Score: 175
Period size: 57 Copynumber: 2.4 Consensus size: 60
1088356 TATTTTTGCT
*
1088366 ATAATAAAAAGGGAGAGAAATATTTTGAAATTGAAATTAAATTTGTAAAAAGGGGGAGAG
1 ATAATAAAAAGGGGGAGAAATATTTTGAAATTGAAATTAAATTTGTAAAAAGGGGGAGAG
*** ****
1088426 ATAA-AAAAAGGGGGAGAAATATTTTGAAA-T-AAATTTTTTTTGTAAATTTTGGGAGAG
1 ATAATAAAAAGGGGGAGAAATATTTTGAAATTGAAATTAAATTTGTAAAAAGGGGGAGAG
*
1088483 ATAATAAAAATGGGGAGAAA-ATTTT
1 ATAATAAAAAGGGGGAGAAATATTTT
1088508 TTAAATCAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
57 29 0.40
58 15 0.21
59 24 0.33
60 4 0.06
ACGTcount: A:0.47, C:0.00, G:0.23, T:0.30
Consensus pattern (60 bp):
ATAATAAAAAGGGGGAGAAATATTTTGAAATTGAAATTAAATTTGTAAAAAGGGGGAGAG
Found at i:1088555 original size:21 final size:21
Alignment explanation
Indices: 1088531--1088589 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
1088521 AGCATTAAAT
*
1088531 ATTTTATTAAGGGGGAGACAA
1 ATTTTATTAAGGGGGAGAAAA
1088552 ATTTTATTAAGGGGGAGAAAA
1 ATTTTATTAAGGGGGAGAAAA
1088573 ATTTTATTAAGGGGGAG
1 ATTTTATTAAGGGGGAG
1088590 TTTTATATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.37, C:0.02, G:0.31, T:0.31
Consensus pattern (21 bp):
ATTTTATTAAGGGGGAGAAAA
Found at i:1091848 original size:23 final size:25
Alignment explanation
Indices: 1091822--1091867 Score: 60
Period size: 23 Copynumber: 1.9 Consensus size: 25
1091812 TTTATTATTT
1091822 ATAATATATA-TTTGA-ATTTTGTA
1 ATAATATATATTTTGATATTTTGTA
* *
1091845 ATAATTTTTATTTTGATATTTTG
1 ATAATATATATTTTGATATTTTG
1091868 ATATTTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 5 0.26
25 6 0.32
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.59
Consensus pattern (25 bp):
ATAATATATATTTTGATATTTTGTA
Found at i:1092180 original size:3 final size:3
Alignment explanation
Indices: 1092172--1092205 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
1092162 TATATTAGGT
*
1092172 TTA TTA TTA TTC TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1092206 ATAATACATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1092382 original size:16 final size:16
Alignment explanation
Indices: 1092357--1092387 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1092347 AAATTAAATA
1092357 ATTATATATTAATTTT
1 ATTATATATTAATTTT
*
1092373 ATTATTTATTAATTT
1 ATTATATATTAATTT
1092388 ATGATTTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTATATATTAATTTT
Found at i:1093810 original size:18 final size:18
Alignment explanation
Indices: 1093787--1093823 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
1093777 GTTTAGCTCA
1093787 TTGTTTGGACTTTTGCCT
1 TTGTTTGGACTTTTGCCT
1093805 TTGTTTGGACTTTTGCCT
1 TTGTTTGGACTTTTGCCT
1093823 T
1 T
1093824 AAGGATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.16, G:0.22, T:0.57
Consensus pattern (18 bp):
TTGTTTGGACTTTTGCCT
Found at i:1098531 original size:20 final size:20
Alignment explanation
Indices: 1098506--1098544 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
1098496 ATTGGATATG
1098506 TTAAAATGCATGAACATGGC
1 TTAAAATGCATGAACATGGC
1098526 TTAAAATGCATGAACATGG
1 TTAAAATGCATGAACATGG
1098545 GCTGTTTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.26
Consensus pattern (20 bp):
TTAAAATGCATGAACATGGC
Found at i:1099502 original size:20 final size:21
Alignment explanation
Indices: 1099477--1099529 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1099467 AAAAACCCAG
1099477 AATGTATCAATAC-AATGAAT-
1 AATGTATCAATACAAAT-AATA
* *
1099497 AATGTATCGATACAAATAGTA
1 AATGTATCAATACAAATAATA
1099518 AATGTATCAATA
1 AATGTATCAATA
1099530 GATTTATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.49, C:0.09, G:0.11, T:0.30
Consensus pattern (21 bp):
AATGTATCAATACAAATAATA
Found at i:1099856 original size:13 final size:13
Alignment explanation
Indices: 1099838--1099883 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
1099828 TATCGTATCG
1099838 ACAAAAAGTCTCA
1 ACAAAAAGTCTCA
1099851 ACAAAAAGTCTCA
1 ACAAAAAGTCTCA
* * * *
1099864 AGAACATGTATCA
1 ACAAAAAGTCTCA
1099877 ACAAAAA
1 ACAAAAA
1099884 TCCTCATCCC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.57, C:0.20, G:0.09, T:0.15
Consensus pattern (13 bp):
ACAAAAAGTCTCA
Found at i:1104509 original size:79 final size:81
Alignment explanation
Indices: 1104410--1104631 Score: 232
Period size: 79 Copynumber: 2.7 Consensus size: 81
1104400 ACTTAAGGGT
* * * *
1104410 AAGGAAGTCTCTAAGGTCAAAGCCGACAGACAGACTGAAGGCAAGATAGTCTATAGGGTAAAAGT
1 AAGGAAGTCTCTAGGGTCAAAGCCGACAGACAGACTAAAGGCAAGAAAGTCTACAGGGTAAAAGT
* *
1104475 CGACAGGTAGAC-T-A
66 CGACAAGCAGACTTGA
* * * * * *
1104489 AAGGTAGTCTCTAGGGTCAAAACCAACAGACAGACTAAAGGTAAGAAAGTCTCCAGGGTCAAAGT
1 AAGGAAGTCTCTAGGGTCAAAGCCGACAGACAGACTAAAGGCAAGAAAGTCTACAGGGTAAAAGT
1104554 CGACAAGCAGACTTGA
66 CGACAAGCAGACTTGA
* * * * * * *
1104570 AATGAAGCAGTTTCTAGGGTCAAAGCTGACAGACAAACTAAAGGTAGGAAAGTCTCCAGGGT
1 AA-G--GAAGTCTCTAGGGTCAAAGCCGACAGACAGACTAAAGGCAAGAAAGTCTACAGGGT
1104632 CAAGGCCAAC
Statistics
Matches: 119, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
79 65 0.55
80 1 0.01
81 3 0.03
82 1 0.01
84 49 0.41
ACGTcount: A:0.39, C:0.18, G:0.27, T:0.17
Consensus pattern (81 bp):
AAGGAAGTCTCTAGGGTCAAAGCCGACAGACAGACTAAAGGCAAGAAAGTCTACAGGGTAAAAGT
CGACAAGCAGACTTGA
Found at i:1104541 original size:42 final size:42
Alignment explanation
Indices: 1104361--1104940 Score: 262
Period size: 42 Copynumber: 14.0 Consensus size: 42
1104351 TGGGTAGATA
* * **
1104361 AAAGGTAAAAAAGTCTCTAAGGTCAAAGTTGACA-AGCAGACTT
1 AAAGGTAAGAAAGTCTCTAGGGTCAAAGCCGACAGA-CAGAC-T
* * *
1104404 AAGGGTAAGGAAGTCTCTAAGGTCAAAGCCGACAGACAGACT
1 AAAGGTAAGAAAGTCTCTAGGGTCAAAGCCGACAGACAGACT
* * * * * * **
1104446 GAAGGCAAGATAGTCTATAGGGTAAAAGTCGACAGGTAGACT
1 AAAGGTAAGAAAGTCTCTAGGGTCAAAGCCGACAGACAGACT
* *
1104488 AAAGGT-----AGTCTCTAGGGTCAAAACCAACAGACAGACT
1 AAAGGTAAGAAAGTCTCTAGGGTCAAAGCCGACAGACAGACT
* *
1104525 AAAGGTAAGAAAGTCTCCAGGGTCAAAGTCGACA-AGCAGACTT
1 AAAGGTAAGAAAGTCTCTAGGGTCAAAGCCGACAGA-CAGAC-T
* * * * *
1104568 GAAATG-AAG-CAGTTTCTAGGGTCAAAGCTGACAGACAAACT
1 -AAAGGTAAGAAAGTCTCTAGGGTCAAAGCCGACAGACAGACT
* * * * *
1104609 AAAGGTAGGAAAGTCTCCAGGGTCAAGGCCAACAGGCATGA--
1 AAAGGTAAGAAAGTCTCTAGGGTCAAAGCCGACAGACA-GACT
* * * * * * * *
1104650 GATGG---GACTA-TCTCCAAGGTCAAAGCCAACAAATAGACT
1 AAAGGTAAGA-AAGTCTCTAGGGTCAAAGCCGACAGACAGACT
* * * * * * *
1104689 GAAGGTAGGAAAGTCTCTACGGTCAAAGTCGATAGGCAAACT
1 AAAGGTAAGAAAGTCTCTAGGGTCAAAGCCGACAGACAGACT
** * *
1104731 TGAGATGAAG-CAGTCTCTAGGGTCAAAGCCGACAGACAGACT
1 AAAGGT-AAGAAAGTCTCTAGGGTCAAAGCCGACAGACAGACT
* * * *
1104773 GAAGAT-AGAAAAGTCTCCAAGGTCAAAGCCGACA-AGCAGACT
1 AAAGGTAAG-AAAGTCTCTAGGGTCAAAGCCGACAGA-CAGACT
* * * *** * * *
1104815 GAGGGTAAGAAAGTCTCCAACATCAAAGCCGATAGGCAGATT
1 AAAGGTAAGAAAGTCTCTAGGGTCAAAGCCGACAGACAGACT
** * * **
1104857 TGAGGTGAGGCAA-TCTCTAGGGTCAAAGCCGACAGGTAGACT
1 AAAGGT-AAGAAAGTCTCTAGGGTCAAAGCCGACAGACAGACT
* * * * * * *
1104899 GAAGGTAGGAAAGTCTCCAAGGTCAAAGTCGATAGGCAGACT
1 AAAGGTAAGAAAGTCTCTAGGGTCAAAGCCGACAGACAGACT
1104941 TGAGATGAGG
Statistics
Matches: 402, Mismatches: 107, Indels: 57
0.71 0.19 0.10
Matches are distributed among these distances:
37 32 0.08
38 22 0.05
39 5 0.01
40 6 0.01
41 14 0.03
42 270 0.67
43 48 0.12
44 5 0.01
ACGTcount: A:0.38, C:0.18, G:0.27, T:0.17
Consensus pattern (42 bp):
AAAGGTAAGAAAGTCTCTAGGGTCAAAGCCGACAGACAGACT
Found at i:1104611 original size:84 final size:84
Alignment explanation
Indices: 1104361--1104814 Score: 367
Period size: 84 Copynumber: 5.5 Consensus size: 84
1104351 TGGGTAGATA
* * * * ** * *
1104361 AAAGGTAAAAAAGTCTCTAAGGTCAAAGTTGACAAGCAGACTT-AAGGGTAAGGAAGTCTCTAAG
1 AAAGGTAAGAAAGTCTCCAGGGTCAAAGTCGACAAGCAGACTTGAAATG-AA-GCAGTCTCTAGG
1104425 GTCAAAGCCGACAGACAGACT
64 GTCAAAGCCGACAGACAGACT
* * * ** * * * *
1104446 GAAGGCAAGATAGTCTATAGGGTAAAAGTCGACAGGTAGAC-T-AAA-G--GTAGTCTCTAGGGT
1 AAAGGTAAGAAAGTCTCCAGGGTCAAAGTCGACAAGCAGACTTGAAATGAAGCAGTCTCTAGGGT
* *
1104506 CAAAACCAACAGACAGACT
66 CAAAGCCGACAGACAGACT
*
1104525 AAAGGTAAGAAAGTCTCCAGGGTCAAAGTCGACAAGCAGACTTGAAATGAAGCAGTTTCTAGGGT
1 AAAGGTAAGAAAGTCTCCAGGGTCAAAGTCGACAAGCAGACTTGAAATGAAGCAGTCTCTAGGGT
* *
1104590 CAAAGCTGACAGACAAACT
66 CAAAGCCGACAGACAGACT
* * * * * * * *
1104609 AAAGGTAGGAAAGTCTCCAGGGTC-AAG--GCCAA-CAGGCATGAGATG-GGACTA-TCTCCAAG
1 AAAGGTAAGAAAGTCTCCAGGGTCAAAGTCGACAAGCAGACTTGAAATGAAG-C-AGTCTCTAGG
* * *
1104668 GTCAAAGCCAACAAATAGACT
64 GTCAAAGCCGACAGACAGACT
* * * * * * * *
1104689 GAAGGTAGGAAAGTCTCTACGGTCAAAGTCGATAGGCAAACTTGAGATGAAGCAGTCTCTAGGGT
1 AAAGGTAAGAAAGTCTCCAGGGTCAAAGTCGACAAGCAGACTTGAAATGAAGCAGTCTCTAGGGT
1104754 CAAAGCCGACAGACAGACT
66 CAAAGCCGACAGACAGACT
* * * *
1104773 GAAGAT-AGAAAAGTCTCCAAGGTCAAAGCCGACAAGCAGACT
1 AAAGGTAAG-AAAGTCTCCAGGGTCAAAGTCGACAAGCAGACT
1104815 GAGGGTAAGA
Statistics
Matches: 289, Mismatches: 66, Indels: 29
0.75 0.17 0.08
Matches are distributed among these distances:
79 63 0.22
80 54 0.19
81 11 0.04
82 1 0.00
83 8 0.03
84 120 0.42
85 32 0.11
ACGTcount: A:0.39, C:0.19, G:0.26, T:0.17
Consensus pattern (84 bp):
AAAGGTAAGAAAGTCTCCAGGGTCAAAGTCGACAAGCAGACTTGAAATGAAGCAGTCTCTAGGGT
CAAAGCCGACAGACAGACT
Found at i:1104673 original size:164 final size:164
Alignment explanation
Indices: 1104503--1104798 Score: 430
Period size: 164 Copynumber: 1.8 Consensus size: 164
1104493 TAGTCTCTAG
* * *
1104503 GGTCAAAACCAACAGACAGACTAAAGGTAAGAAAGTCTCCAGGGTCAAAGTCGACAAGCAGACTT
1 GGTCAAAACCAACAAACAGACTAAAGGTAAGAAAGTCTCCACGGTCAAAGTCGACAAGCAAACTT
* * * * *
1104568 GAAATGAAGCAGTTTCTAGGGTCAAAGCTGACAGACAAACTAAAGGTAGGAAAGTCTCCAGGGTC
66 GAAATGAAGCAGTCTCTAGGGTCAAAGCCGACAGACAAACTAAAGATAGAAAAGTCTCCAAGGTC
1104633 AAGGCCAACAGGCATGAGATGGGACTATCTCCAA
131 AAGGCCAACAGGCATGAGATGGGACTATCTCCAA
* * * * * * *
1104667 GGTCAAAGCCAACAAATAGACTGAAGGTAGGAAAGTCTCTACGGTCAAAGTCGATAGGCAAACTT
1 GGTCAAAACCAACAAACAGACTAAAGGTAAGAAAGTCTCCACGGTCAAAGTCGACAAGCAAACTT
* * *
1104732 GAGATGAAGCAGTCTCTAGGGTCAAAGCCGACAGACAGACTGAAGATAGAAAAGTCTCCAAGGTC
66 GAAATGAAGCAGTCTCTAGGGTCAAAGCCGACAGACAAACTAAAGATAGAAAAGTCTCCAAGGTC
1104797 AA
131 AA
1104799 AGCCGACAAG
Statistics
Matches: 114, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
164 114 1.00
ACGTcount: A:0.39, C:0.20, G:0.26, T:0.16
Consensus pattern (164 bp):
GGTCAAAACCAACAAACAGACTAAAGGTAAGAAAGTCTCCACGGTCAAAGTCGACAAGCAAACTT
GAAATGAAGCAGTCTCTAGGGTCAAAGCCGACAGACAAACTAAAGATAGAAAAGTCTCCAAGGTC
AAGGCCAACAGGCATGAGATGGGACTATCTCCAA
Found at i:1104830 original size:84 final size:83
Alignment explanation
Indices: 1104362--1105122 Score: 349
Period size: 84 Copynumber: 9.2 Consensus size: 83
1104352 GGGTAGATAA
* * * * * *
1104362 AAGGTAAAAAAGTCTCTAAGGTCAAAGTTGACAAGCAGACTTAAGGGTAAGGAAGTCTCTAAGGT
1 AAGGTAGAAAAGTCTCCAGGGTCAAAGTCGACAAGCAGACTTGA-GGTAA-GAAGTCTCTAGGGT
1104427 CAAAGCCGACAGACAGACTG
64 CAAAGCCGACAGACAGACTG
* * ** * * * **
1104447 AAGGCA-AGATAGTCTATAGGGTAAAAGTCGACAGGTAGACTAAAGGT----AGTCTCTAGGGTC
1 AAGGTAGA-AAAGTCTCCAGGGTCAAAGTCGACAAGCAGACTTGAGGTAAGAAGTCTCTAGGGTC
* * *
1104507 AAAACCAACAGACAGACTA
65 AAAGCCGACAGACAGACTG
** * *
1104526 AAGGTA-AGAAAGTCTCCAGGGTCAAAGTCGACAAGCAGACTTGAAATGAAGCAGTTTCTAGGGT
1 AAGGTAGA-AAAGTCTCCAGGGTCAAAGTCGACAAGCAGACTTGAGGT-AAGAAGTCTCTAGGGT
* * *
1104590 CAAAGCTGACAGACAAACTA
64 CAAAGCCGACAGACAGACTG
* * * * * ** * *
1104610 AAGGTAGGAAAGTCTCCAGGGTC-AAG--GCCAA-CAGGCATGAGATGGGACTA-TCTCCAAGGT
1 AAGGTAGAAAAGTCTCCAGGGTCAAAGTCGACAAGCAGACTTGAGGTAAGA--AGTCTCTAGGGT
* * *
1104670 CAAAGCCAACAAATAGACTG
64 CAAAGCCGACAGACAGACTG
* * * * * * * *
1104690 AAGGTAGGAAAGTCTCTACGGTCAAAGTCGATAGGCAAACTTGAGATGAAGCAGTCTCTAGGGTC
1 AAGGTAGAAAAGTCTCCAGGGTCAAAGTCGACAAGCAGACTTGAGGT-AAGAAGTCTCTAGGGTC
1104755 AAAGCCGACAGACAGACTG
65 AAAGCCGACAGACAGACTG
* * * * ***
1104774 AAGATAGAAAAGTCTCCAAGGTCAAAGCCGACAAGCAGAC-TGAGGGTAAGAAAGTCTCCAACAT
1 AAGGTAGAAAAGTCTCCAGGGTCAAAGTCGACAAGCAGACTTGA-GGTAAG-AAGTCTCTAGGGT
* * *
1104838 CAAAGCCGATAGGCAGATTTG
64 CAAAGCCGACAGACAGA-CTG
** * * * * * * *
1104859 -AGGTGAGGCAA-TCTCTAGGGTCAAAGCCGACAGGTAGAC-TGAAGGTAGGAAAGTCTCCAAGG
1 AAGGT-AGAAAAGTCTCCAGGGTCAAAGTCGACAAGCAGACTTG-AGGTAAG-AAGTCTCTAGGG
* * *
1104921 TCAAAGTCGATAGGCAGACTTG
63 TCAAAGCCGACAGACAGAC-TG
* ** * * * * * * * *
1104943 -AGATGAGGCAA-TCTCCAGGGTCAAAGTTGACAAGTAGACTTAAGATGAGGCAGTCT-TCAAGA
1 AAGGT-AGAAAAGTCTCCAGGGTCAAAGTCGACAAGCAGACTTGAGGT-AAGAAGTCTCT-AGGG
* * * * *
1105005 TCAAAGCTGATAGGCAAATTG
63 TCAAAGCCGACAGACAGACTG
* * * * * *
1105026 AGGGTA-AGAAAGTCTCCAAGGTCAAAG-CTTACAAGTAGACTTAAGGTAAGGCAGTCTCTAGGG
1 AAGGTAGA-AAAGTCTCCAGGGTCAAAGTC-GACAAGCAGACTTGAGGTAA-GAAGTCTCTAGGG
**
1105089 TCAAAATCGACAGACA-AGCTG
63 TCAAAGCCGACAGACAGA-CTG
*
1105110 AAGGTAGGAAAGT
1 AAGGTAGAAAAGT
1105123 TCAAATGGTT
Statistics
Matches: 520, Mismatches: 124, Indels: 65
0.73 0.17 0.09
Matches are distributed among these distances:
79 65 0.12
80 51 0.10
81 8 0.02
83 19 0.04
84 331 0.64
85 46 0.09
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.18
Consensus pattern (83 bp):
AAGGTAGAAAAGTCTCCAGGGTCAAAGTCGACAAGCAGACTTGAGGTAAGAAGTCTCTAGGGTCA
AAGCCGACAGACAGACTG
Found at i:1104959 original size:126 final size:126
Alignment explanation
Indices: 1104660--1104940 Score: 366
Period size: 126 Copynumber: 2.2 Consensus size: 126
1104650 GATGGGACTA
* ** * * * * *
1104660 TCTCCAAGGTCAAAGCCAACAAATAGACTGAAGGTAGGAAAGTCT-CTACGGTCAAAGTCGATAG
1 TCTCCAAGGTCAAAGCCGACAAGCAGACTGAGGGTAAGAAAGTCTCCAAC-ATCAAAGCCGATAG
*
1104724 GCAAACTTGAGATGAAGCAGTCTCTAGGGTCAAAGCCGACAGACAGACTGAAGATAGAAAAG
65 GCAAACTTGAGATGAAGCAATCTCTAGGGTCAAAGCCGACAGACAGACTGAAGATAGAAAAG
1104786 TCTCCAAGGTCAAAGCCGACAAGCAGACTGAGGGTAAGAAAGTCTCCAACATCAAAGCCGATAGG
1 TCTCCAAGGTCAAAGCCGACAAGCAGACTGAGGGTAAGAAAGTCTCCAACATCAAAGCCGATAGG
* * * * ** * *
1104851 CAGATTTGAGGTGAGGCAATCTCTAGGGTCAAAGCCGACAGGTAGACTGAAGGTAGGAAAG
66 CAAACTTGAGATGAAGCAATCTCTAGGGTCAAAGCCGACAGACAGACTGAAGATAGAAAAG
* * *
1104912 TCTCCAAGGTCAAAGTCGATAGGCAGACT
1 TCTCCAAGGTCAAAGCCGACAAGCAGACT
1104941 TGAGATGAGG
Statistics
Matches: 134, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
126 131 0.98
127 3 0.02
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.17
Consensus pattern (126 bp):
TCTCCAAGGTCAAAGCCGACAAGCAGACTGAGGGTAAGAAAGTCTCCAACATCAAAGCCGATAGG
CAAACTTGAGATGAAGCAATCTCTAGGGTCAAAGCCGACAGACAGACTGAAGATAGAAAAG
Found at i:1104992 original size:126 final size:126
Alignment explanation
Indices: 1104660--1105053 Score: 346
Period size: 126 Copynumber: 3.1 Consensus size: 126
1104650 GATGGGACTA
* ** * * * * * * *
1104660 TCTCCAAGGTCAAAGCCAACAAATAGACTGAAGGTAGGAAAGTCT-CTACGGTCAAAGTCGATAG
1 TCTCCAAGGTCAAAGCCGACAAGCAGACTGAGGGTAAGAAAGTCTCCAAC-ATCAAAGCCGACAA
* * * * *
1104724 GCAAACTTGAGATGAAGCAGTCTCTAGGGTCAAAGCCGACAGACAGACTGAAGATAGAAAAG
65 GCAGACTTGAGATGAGGCAGTCTCTAGGGTCAAAGCCGACAGGCAGACTGAAGGTAGGAAAG
* *
1104786 TCTCCAAGGTCAAAGCCGACAAGCAGACTGAGGGTAAGAAAGTCTCCAACATCAAAGCCGATAGG
1 TCTCCAAGGTCAAAGCCGACAAGCAGACTGAGGGTAAGAAAGTCTCCAACATCAAAGCCGACAAG
* * * *
1104851 CAGATTTGAGGTGAGGCAATCTCTAGGGTCAAAGCCGACAGGTAGACTGAAGGTAGGAAAG
66 CAGACTTGAGATGAGGCAGTCTCTAGGGTCAAAGCCGACAGGCAGACTGAAGGTAGGAAAG
* * * * * * *** **
1104912 TCTCCAAGGTCAAAGTCGATAGGCAGACTTGA-GATGAGGCAA-TCTCCAGGGTCAAAGTTGACA
1 TCTCCAAGGTCAAAGCCGACAAGCAGAC-TGAGGGT-AAGAAAGTCTCCAACATCAAAGCCGACA
* * * * * * * * * *
1104975 AGTAGACTTAAGATGAGGCAGTCT-TCAAGATCAAAGCTGATAGGCAAATTGAGGGTAAGAAAG
64 AGCAGACTTGAGATGAGGCAGTCTCT-AGGGTCAAAGCCGACAGGCAGACTGAAGGTAGGAAAG
1105038 TCTCCAAGGTCAAAGC
1 TCTCCAAGGTCAAAGC
1105054 TTACAAGTAG
Statistics
Matches: 219, Mismatches: 45, Indels: 8
0.81 0.17 0.03
Matches are distributed among these distances:
125 1 0.00
126 208 0.95
127 10 0.05
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.18
Consensus pattern (126 bp):
TCTCCAAGGTCAAAGCCGACAAGCAGACTGAGGGTAAGAAAGTCTCCAACATCAAAGCCGACAAG
CAGACTTGAGATGAGGCAGTCTCTAGGGTCAAAGCCGACAGGCAGACTGAAGGTAGGAAAG
Found at i:1105074 original size:42 final size:42
Alignment explanation
Indices: 1104362--1105093 Score: 239
Period size: 42 Copynumber: 17.6 Consensus size: 42
1104352 GGGTAGATAA
* * * *
1104362 AAGGTAAAAAAGTCTCTAAGGTCAAAGTTGACAAGCAGACTT
1 AAGGTAAGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTT
* * * * *
1104404 AAGGGTAAGGAAGTCTCTAAGGTCAAAGCCGACAGACAGACTG
1 AA-GGTAAGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTT
* * ** * * * *
1104447 AAGGCAAGATAGTCTATAGGGTAAAAG-TCGACAGGTAGACTA
1 AAGGTAAGAAAGTCTCCAAGGTCAAAGCT-GACAGGCAGACTT
* * * ** * *
1104489 AAGGT-----AGTCTCTAGGGTCAAAACCAACAGACAGACTA
1 AAGGTAAGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTT
* *
1104526 AAGGTAAGAAAGTCTCCAGGGTCAAAG-TCGACAAGCAGACTT
1 AAGGTAAGAAAGTCTCCAAGGTCAAAGCT-GACAGGCAGACTT
* * * * * * * *
1104568 GAA-ATGAAG-CAGTTTCTAGGGTCAAAGCTGACAGACAAACTA
1 -AAGGT-AAGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTT
* * * ** *
1104610 AAGGTAGGAAAGTCTCCAGGGTCAAGGCCAACAGGCATGA--G
1 AAGGTAAGAAAGTCTCCAAGGTCAAAGCTGACAGGCA-GACTT
* * ** *** *
1104651 ATGG---GACTA-TCTCCAAGGTCAAAGCCAACAAATAGACTG
1 AAGGTAAGA-AAGTCTCCAAGGTCAAAGCTGACAGGCAGACTT
* * * * *
1104690 AAGGTAGGAAAGTCTCTACGGTCAAAG-TCGATAGGCAAACTT
1 AAGGTAAGAAAGTCTCCAAGGTCAAAGCT-GACAGGCAGACTT
* * * * * * * *
1104732 GAGATGAAG-CAGTCTCTAGGGTCAAAGCCGACAGACAGACTG
1 AAGGT-AAGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTT
* * * *
1104774 AAGAT-AGAAAAGTCTCCAAGGTCAAAGCCGACAAGCAGACTG
1 AAGGTAAG-AAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTT
* ** * * *
1104816 AGGGTAAGAAAGTCTCCAACATCAAAGCCGATAGGCAGATTT
1 AAGGTAAGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTT
* * * * * * * *
1104858 GAGGTGAGGCAA-TCTCTAGGGTCAAAGCCGACAGGTAGACTG
1 AAGGT-AAGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTT
* *
1104900 AAGGTAGGAAAGTCTCCAAGGTCAAAG-TCGATAGGCAGACTT
1 AAGGTAAGAAAGTCTCCAAGGTCAAAGCT-GACAGGCAGACTT
* * * * * * * *
1104942 GAGATGAGGCAA-TCTCCAGGGTCAAAGTTGACAAGTAGACTT
1 AAGGT-AAGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTT
* * ** * * * *
1104984 AAGATGAGGCAGTCTTCAAGATCAAAGCTGATAGGCA-AATT
1 AAGGTAAGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTT
* * * *
1105025 GAGGGTAAGAAAGTCTCCAAGGTCAAAGCTTACAAGTAGACTT
1 -AAGGTAAGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTT
** * *
1105068 AAGGTAAGGCAGTCTCTAGGGTCAAA
1 AAGGTAAGAAAGTCTCCAAGGTCAAA
1105094 ATCGACAGAC
Statistics
Matches: 503, Mismatches: 151, Indels: 72
0.69 0.21 0.10
Matches are distributed among these distances:
37 31 0.06
38 22 0.04
39 5 0.01
40 2 0.00
41 18 0.04
42 366 0.73
43 59 0.12
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.18
Consensus pattern (42 bp):
AAGGTAAGAAAGTCTCCAAGGTCAAAGCTGACAGGCAGACTT
Found at i:1105315 original size:44 final size:44
Alignment explanation
Indices: 1105267--1105380 Score: 147
Period size: 44 Copynumber: 2.6 Consensus size: 44
1105257 GAAGAAGGTT
* * ** * *
1105267 TGACTAAGGTGGTAACTAGATGTCAAATTAGAATGAGAAAAATC
1 TGACTAAGGTGGTAACCACACATCAAATCAAAATGAGAAAAATC
*
1105311 TGACTAAGGTGATAACCACACATCAAATCAAAATGAGAAAAATC
1 TGACTAAGGTGGTAACCACACATCAAATCAAAATGAGAAAAATC
* *
1105355 TGACTAGGGTGGTAACCATACATCAA
1 TGACTAAGGTGGTAACCACACATCAA
1105381 GCTAAAATGA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 60 1.00
ACGTcount: A:0.44, C:0.15, G:0.19, T:0.22
Consensus pattern (44 bp):
TGACTAAGGTGGTAACCACACATCAAATCAAAATGAGAAAAATC
Found at i:1106838 original size:9 final size:9
Alignment explanation
Indices: 1106824--1106890 Score: 57
Period size: 9 Copynumber: 7.7 Consensus size: 9
1106814 TTTCATTCAA
1106824 TTTTTTCTT
1 TTTTTTCTT
1106833 TTTTTTCTT
1 TTTTTTCTT
*
1106842 TTTTTT-TA
1 TTTTTTCTT
* **
1106850 ATTTTAATT
1 TTTTTTCTT
**
1106859 TTTTAAC-T
1 TTTTTTCTT
*
1106867 TTTTCTCTT
1 TTTTTTCTT
1106876 TTTTTTCTT
1 TTTTTTCTT
1106885 TTTTTT
1 TTTTTT
1106891 ATGCATAATA
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
8 11 0.24
9 35 0.76
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:1109701 original size:20 final size:20
Alignment explanation
Indices: 1109676--1109714 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1109666 AGTGTCTTGC
1109676 AGTATTGTCCACCAGTGTAT
1 AGTATTGTCCACCAGTGTAT
*
1109696 AGTATTGTCCACTAGTGTA
1 AGTATTGTCCACCAGTGTA
1109715 CCTATATGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.36
Consensus pattern (20 bp):
AGTATTGTCCACCAGTGTAT
Found at i:1117235 original size:21 final size:21
Alignment explanation
Indices: 1117211--1117287 Score: 154
Period size: 21 Copynumber: 3.7 Consensus size: 21
1117201 ATTGGGACCT
1117211 TGTATCGATACATTCTAGAAA
1 TGTATCGATACATTCTAGAAA
1117232 TGTATCGATACATTCTAGAAA
1 TGTATCGATACATTCTAGAAA
1117253 TGTATCGATACATTCTAGAAA
1 TGTATCGATACATTCTAGAAA
1117274 TGTATCGATACATT
1 TGTATCGATACATT
1117288 TGGACAAAAA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTAGAAA
Found at i:1118190 original size:52 final size:51
Alignment explanation
Indices: 1118125--1119681 Score: 372
Period size: 48 Copynumber: 33.8 Consensus size: 51
1118115 AAGACAAAGT
* **
1118125 GCCAATATGCTGATTCAAGGCCAGCGATATTGGTTTTAAAGTTGACGAAGGC
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAG-TGACGAAGGC
* * *
1118177 GCCAATATACTGATTCAAGGCCAGCAATATTGGACTTAAA--GATGAAGGT
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGTGACGAAGGC
* * * * *
1118226 GCCAATGTACTGATTCAAGGCCAACGACATTGGACCTAAAGATGACAAAGGC
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAG-TGACGAAGGC
* *
1118278 GCCAATATGCCGATTCAAGGCCAGCGATATTGGACTT---GT---------
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGTGACGAAGGC
* ** * * *
1118317 GCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAA--GAC-AAGGA
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGTGACGAAGGC
** *
1118365 GCCAATATGTTGATTCAAGGCCAGCGATATTGGGCTT---GT---------
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGTGACGAAGGC
* * * * *
1118404 GCCAATGTACTGATTCAAGGCCAGCGACATTGGTCTTAAA--GA-TAAGGT
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGTGACGAAGGC
* * *
1118452 GCCAATATGCTGATTCAAGGCTAGCGATATTGGGCTT---GT---------
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGTGACGAAGGC
* * * ** *
1118491 GCCAATGTGCTGATTCAAGGCCAGCGACATTGCTCTTAAA--GAC-AAGGT
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGTGACGAAGGC
* *
1118539 GCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT---GT---------
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGTGACGAAGGC
* * * * * * * *
1118578 GCTAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTGAA--GAC-AAGGT
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGTGACGAAGGC
* *
1118626 GCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT---GT---------
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGTGACGAAGGC
* * * * ** * *
1118665 GCCAATGTGCTGATTCAAGGCTAGCGACATTGTTCTTAAA--AAC-AAGGT
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGTGACGAAGGC
* * * * * *
1118713 GCTAATATGCTGATTCAAGGCCAGCGACATTAGTCTTAAA--GAC-AAGGT
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGTGACGAAGGC
* * ** * *
1118761 GCCAATATGCTGATTCAAGGCCAGCAACGTTGGTCTTAAA--GAC-AAGGT
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGTGACGAAGGC
* * *
1118809 GCCAATATGCTGATTCAAGGCTAGCAATATT-GAGCTT---GT---------
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGA-CTTAAAGTGACGAAGGC
* * * * * *
1118848 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTTAA--GAC-AAGGT
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGTGACGAAGGC
* * *
1118896 GCCAATATGCTGATTCAAGGCTAGCGATATTGGGCTT---GT---------
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGTGACGAAGGC
* * * * * *
1118935 GCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAA--GAC-AAGGT
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGTGACGAAGGC
* *
1118983 GCCAATATGCTGATTCAAGGCCAGCGATAGTTGGGCTT---GT---------
1 GCCAATATACTGATTCAAGGCCAGCGATA-TTGGACTTAAAGTGACGAAGGC
* * * * * *
1119023 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTTAA--GAC-AAGGT
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGTGACGAAGGC
* * * *
1119071 GCTAATATGCCGATTCAAGGCCAGCGATATTGGACTTAAAGATGA--AA-GT
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAG-TGACGAAGGC
* * * *
1119120 GCCAATGTACTGATTCAAGGCCAGCGACATTGGAATTAAAGATGACAAAGGC
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAG-TGACGAAGGC
* * **
1119172 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA--GATGAAGAT
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGTGACGAAGGC
* * * * *
1119221 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGC
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAG-TGACGAAGGC
* * *
1119273 GCCAATATGCTGAGTCAAGGCCAGCGACATTGGACTT---GT---------
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGTGACGAAGGC
* * * * *
1119312 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA--GAC-AAGGT
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGTGACGAAGGC
* * * * * * * * *
1119360 GCTAATATGCTAATTCAAGGCTAGCAATATTGCACTCAAGAGGGTA--AAGGT
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAA-AGTG-ACGAAGGC
* * *
1119411 GCCAATATGCTGATTCAAGGCCAACGATATTGGAC-T----T-A--AAGGT
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGTGACGAAGGC
* * * * * * *** *
1119454 GCCAATGTGCTGATTCAAAGCCAACGACATTGGTCTTAAAGATGGTTAAGGT
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAG-TGACGAAGGC
* * * * * *
1119506 GCCAATGTGCTGAGTCAAGGCCAGCGACATTGGTCTTAAA--GAC-AAGGT
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGTGACGAAGGC
** *
1119554 GCCAATATGTTGATTCAAGGCCAGCGATATTGGGCTT---GT---------
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGTGACGAAGGC
* * * * *
1119593 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA-T-AC-AAGGA
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGTGACGAAGGC
* *
1119641 GCCAATATGCTGATTCAATGCCAGCGATATTGGACTTAAAG
1 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAG
1119682 GTGCCACAGA
Statistics
Matches: 1180, Mismatches: 171, Indels: 311
0.71 0.10 0.19
Matches are distributed among these distances:
39 296 0.25
40 28 0.02
41 1 0.00
43 37 0.03
44 1 0.00
47 1 0.00
48 446 0.38
49 137 0.12
50 2 0.00
51 39 0.03
52 192 0.16
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (51 bp):
GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGTGACGAAGGC
Found at i:1118388 original size:48 final size:48
Alignment explanation
Indices: 1118315--1119681 Score: 1128
Period size: 48 Copynumber: 29.9 Consensus size: 48
1118305 TATTGGACTT
* *
1118315 GTGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* * * *
1118363 GAGCCAATATGTTGATTCAAGGCCAGCGATATTGGGCTT---------
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* * *
1118402 GTGCCAATGTACTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* * *
1118450 GTGCCAATATGCTGATTCAAGGCTAGCGATATTGGGCTT---------
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* *
1118489 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGCTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* *
1118537 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT---------
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* * * *
1118576 GTGCTAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTGAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* *
1118624 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT---------
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* * * *
1118663 GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGTTCTTAAAAACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* *
1118711 GTGCTAATATGCTGATTCAAGGCCAGCGACATTAGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* *
1118759 GTGCCAATATGCTGATTCAAGGCCAGCAACGTTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* * *
1118807 GTGCCAATATGCTGATTCAAGGCTAGCAATATTGAG-CTT---------
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTG-GTCTTAAAGACAAG
* *
1118846 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTTAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* * *
1118894 GTGCCAATATGCTGATTCAAGGCTAGCGATATTGGGCTT---------
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* *
1118933 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* *
1118981 GTGCCAATATGCTGATTCAAGGCCAGCGATAGTTGGGCTT---------
1 GTGCCAATATGCTGATTCAAGGCCAGCGACA-TTGGTCTTAAAGACAAG
* *
1119021 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTTAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* * * * * *
1119069 GTGCTAATATGCCGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAA
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAG
* * **
1119118 GTGCCAATGTACTGATTCAAGGCCAGCGACATTGGAATTAAAGATGACAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GAC-AAG
* * * *
1119170 GCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAG
* *
1119219 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GAC-AAG
* * *
1119271 GCGCCAATATGCTGAGTCAAGGCCAGCGACATTGGACTT---------
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
*
1119310 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* * * * * ** *
1119358 GTGCTAATATGCTAATTCAAGGCTAGCAATATTGCACTCAAGAGGGTA-AAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAA-A--G-ACAAG
* * *
1119409 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT----A-AAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* * * *
1119452 GTGCCAATGTGCTGATTCAAAGCCAACGACATTGGTCTTAAAGATGGTTAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA----CAAG
* *
1119504 GTGCCAATGTGCTGAGTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* * *
1119552 GTGCCAATATGTTGATTCAAGGCCAGCGATATTGGGCTT---------
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* *
1119591 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAATACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
* * * *
1119639 GAGCCAATATGCTGATTCAATGCCAGCGATATTGGACTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG
1119682 GTGCCACAGA
Statistics
Matches: 1064, Mismatches: 148, Indels: 214
0.75 0.10 0.15
Matches are distributed among these distances:
38 1 0.00
39 279 0.26
40 29 0.03
43 39 0.04
47 1 0.00
48 465 0.44
49 83 0.08
50 5 0.00
51 40 0.04
52 122 0.11
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (48 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAG
Found at i:1118405 original size:87 final size:87
Alignment explanation
Indices: 1118224--1119673 Score: 1659
Period size: 87 Copynumber: 16.0 Consensus size: 87
1118214 AAAGATGAAG
* * * * * *
1118224 GTGCCAATGTACTGATTCAAGGCCAACGACATTGGACCTAAAGATGACAAAGGCGCCAATATGCC
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG-TCTTAA-A-GAC-AAGGTGCCAATATGCT
*
1118289 GATTCAAGGCCAGCGATATTGGACTT
62 GATTCAAGGCCAGCGATATTGGGCTT
* * *
1118315 GTGCCAATGTGTTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGAGCCAATATGTTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1118380 CAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* *
1118402 GTGCCAATGTACTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
*
1118467 CAAGGCTAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
*
1118489 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGCTCTTAAAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1118554 CAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* * *
1118576 GTGCTAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTGAAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1118641 CAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* * * *
1118663 GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGTTCTTAAAAACAAGGTGCTAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
* * *
1118728 CAAGGCCAGCGACATTAGTCTT
66 CAAGGCCAGCGATATTGGGCTT
* * *
1118750 AAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCAACGTTGGTCTTAAAGACAAGGTGCCAAT
1 ---------GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAAT
* * *
1118815 ATGCTGATTCAAGGCTAGCAATATTGAGCTT
57 ATGCTGATTCAAGGCCAGCGATATTGGGCTT
*
1118846 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTTAAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
*
1118911 CAAGGCTAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
*
1118933 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1118998 CAAGGCCAGCGATAGTTGGGCTT
66 CAAGGCCAGCGATA-TTGGGCTT
* * *
1119021 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTTAAGACAAGGTGCTAATATGCCGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
*
1119086 CAAGGCCAGCGATATTGGACTTAAAGAT
66 CAAGGCCAGCGATATTGGGC-T-----T
* ** *
1119114 GAAAGTGCCAATGTACTGATTCAAGGCCAGCGACATTGGAATTAAAGATGACAAAGGCGCCAATA
1 ----GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GAC-AAGGTGCCAATA
*
1119179 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT
58 TGCTGATTCAAGGCCAGCGATATTGGGC-T-----T
*
1119215 GAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATA
1 ---G-TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GAC-AAGGTGCCAATA
* * *
1119280 TGCTGAGTCAAGGCCAGCGACATTGGACTT
58 TGCTGATTCAAGGCCAGCGATATTGGGCTT
* *
1119310 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCTAATATGCTAATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
* * * *
1119375 CAAGGCTAGCAATATTGCACTCAAGAGGGTAAAG
66 CAAGGCCAGCGATA-T----T---G-GGCT---T
* * * * *
1119409 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT----A-AAGGTGCCAATGTGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
* * * *
1119469 CAAAGCCAACGACATTGGTCTTAAAGAT
66 CAAGGCCAGCGATATTGGGC-T-----T
* *
1119497 GGTTAAGGTGCCAATGTGCTGAGTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATAT
1 -G-T---G-CC-AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATAT
*
1119562 GTTGATTCAAGGCCAGCGATATTGGGCTT
59 GCTGATTCAAGGCCAGCGATATTGGGCTT
* *
1119591 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAATACAAGGAGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
*
1119656 CAATGCCAGCGATATTGG
66 CAAGGCCAGCGATATTGG
1119674 ACTTAAAGGT
Statistics
Matches: 1190, Mismatches: 117, Indels: 108
0.84 0.08 0.08
Matches are distributed among these distances:
85 1 0.00
86 2 0.00
87 624 0.52
88 94 0.08
89 5 0.00
90 7 0.01
91 70 0.06
92 3 0.00
93 4 0.00
94 28 0.02
95 32 0.03
96 76 0.06
97 36 0.03
98 1 0.00
99 38 0.03
100 41 0.03
101 128 0.11
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (87 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGGCTT
Found at i:1118861 original size:39 final size:38
Alignment explanation
Indices: 1118807--1119055 Score: 174
Period size: 39 Copynumber: 5.9 Consensus size: 38
1118797 TAAAGACAAG
*
1118807 GTGCCAATATGCTGATTCAAGGCTAGCAATATTGAGCTT
1 GTGCCAATATGCTGATTCAAGGCTAGCGATATTG-GCTT
* * *
1118846 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTT
1 GTGCCAATATGCTGATTCAAGGCTAGCGATATTGG-C-TT
1118886 AAGACAAGGTGCCAATATGCTGATTCAAGGCTAGCGATATTGGGCTT
1 --------GTGCCAATATGCTGATTCAAGGCTAGCGATATT-GGCTT
* * * *
1118933 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCTAGCGATATTGG-CTT
*
1118972 AAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATAGTTGGGCTT
1 ---------GTGCCAATATGCTGATTCAAGGCTAGCGATA-TT-GGCTT
* * *
1119021 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
1 GTGCCAATATGCTGATTCAAGGCTAGCGATATTGG
1119056 TCTTTAAGAC
Statistics
Matches: 171, Mismatches: 16, Indels: 47
0.73 0.07 0.20
Matches are distributed among these distances:
38 5 0.03
39 65 0.38
40 31 0.18
47 2 0.01
48 59 0.35
49 7 0.04
50 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (38 bp):
GTGCCAATATGCTGATTCAAGGCTAGCGATATTGGCTT
Found at i:1119073 original size:40 final size:40
Alignment explanation
Indices: 1118990--1119073 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
1118980 GGTGCCAATA
* * *
1118990 TGCTGATTCAAGGCCAGCGATAGTTGGGCTTGTGCCAATG
1 TGCTGATTCAAGGCCAGCGACAGTTGGGCTTGTGACAAGG
*
1119030 TGCTGATTCAAGGCCAGCGACA-TTGGTCTT-TAAGACAAGG
1 TGCTGATTCAAGGCCAGCGACAGTTGGGCTTGT--GACAAGG
1119070 TGCT
1 TGCT
1119074 AATATGCCGA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
38 1 0.03
39 7 0.18
40 30 0.79
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (40 bp):
TGCTGATTCAAGGCCAGCGACAGTTGGGCTTGTGACAAGG
Found at i:1119538 original size:95 final size:94
Alignment explanation
Indices: 1119310--1119546 Score: 258
Period size: 95 Copynumber: 2.5 Consensus size: 94
1119300 CATTGGACTT
*
1119310 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCTAATATGCTAATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT----A-AAGGTGCCAATATGCTAATT
* * * * *
1119375 CAAGGCTAGCAATATTGCACTCAAGAGGGTAAAG
61 CAAAGCCAACAACATTGCACTAAAGAGGGTAAAG
* * * * * *
1119409 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGTGCCAATATGCTAATTCAAAG
* ** * *
1119474 CCAACGACATTGGTCTTAAAGATGGTTAAG
66 CCAACAACATTGCAC-TAAAGAGGGTAAAG
*
1119504 GTGCCAATGTGCTGAGTCAAGGCCAGCGACATTGGTCTTAAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG
1119547 ACAAGGTGCC
Statistics
Matches: 115, Mismatches: 22, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
94 30 0.26
95 50 0.43
99 35 0.30
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (94 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGGTGCCAATATGCTAATTCAAAG
CCAACAACATTGCACTAAAGAGGGTAAAG
Found at i:1119650 original size:281 final size:279
Alignment explanation
Indices: 1118402--1119681 Score: 1243
Period size: 270 Copynumber: 4.6 Consensus size: 279
1118392 TATTGGGCTT
* *
1118402 GTGCCAATGTACTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
* *
1118467 CAAGGCTAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGCTCTTAAAG
66 CAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG
* ** * * *
1118532 ACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCT------T----GTGCTAATGTG
131 ACAAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTGCACTCAAAGATGAAAGTGCCAATATA
** * * * *
1118587 CTGATTCAAGGCCAGTGACATTGG-TCT-TGAAGACAAGGTGCCAATATGCTGATTCAAGGCCAG
196 CTGATTCAAGGCCAACGACATTGGAACTAT--A-A-AAGGCGCCAATATGCTGATTCAAAGCCAA
* *
1118650 CGATATTGGGC-T-----T----
257 CGACATTGGACTTAAAGATGAAG
* * * *
1118663 GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGTTCTTAAAAACAAGGTGCTAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
* * * * * *
1118728 CAAGGCCAGCGACATTAGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCAACGTTG
66 CAAGGCCAGCGATATTGGGCTT---------GTGCCAATGTGCTGATTCAAGGCCAGCGACATTG
* * *
1118793 GTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCTAGCAATATTG-AGCT------T----G
122 GTCTTAAAGACAAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTGCA-CTCAAAGATGAAAG
* * * * * *
1118847 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGG-TCTTTAAGACAAGGTGCCAATATGCTGATT
186 TGCCAATATACTGATTCAAGGCCAACGACATTGGAACTAT-A-A-AAGGCGCCAATATGCTGATT
* * * * *
1118911 CAAGGCTAGCGATATTGGGC-T-----T----
248 CAAAGCCAACGACATTGGACTTAAAGATGAAG
*
1118933 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
*
1118998 CAAGGCCAGCGATAGTTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTTAA
66 CAAGGCCAGCGATA-TTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
* * * *
1119063 GACAAGGTGCTAATATGCCGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAAGTGCCAATGT
130 GACAAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTGCACTCAAAGATGAAAGTGCCAATAT
* * *
1119128 ACTGATTCAAGGCCAGCGACATTGGAATTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGC
195 ACTGATTCAAGGCCAACGACATTGGAACT----AT-A-AAAGGCGCCAATATGCTGATTCAAAGC
* *
1119193 CAGCGATATTGGACTTAAAGATGAAG
254 CAACGACATTGGACTTAAAGATGAAG
* *
1119219 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACAAAGGCGCCAATATGCT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GAC-AAGGTGCCAATATGCT
* * *
1119284 GAGTCAAGGCCAGCGACATTGGACTTGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT
62 GATTCAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT
* * * *
1119349 AAAGACAAGGTGCTAATATGCTAATTCAAGGCTAGCAATATTGCACTC-AAGAGGGTAAAGGTGC
127 AAAGACAAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTGCACTCAAAGA-TG-AAA-GTGC
* * * *
1119413 CAATATGCTGATTCAAGGCCAACGATATTGG-ACT-T-AAAGGTGCCAATGTGCTGATTCAAAGC
189 CAATATACTGATTCAAGGCCAACGACATTGGAACTATAAAAGGCGCCAATATGCTGATTCAAAGC
*
1119475 CAACGACATTGGTCTTAAAGATGGTTAAG
254 CAACGACATTGGACTTAAAGAT-G--AAG
* *
1119504 GTGCCAATGTGCTGAGTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGTTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
*
1119569 CAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAT
66 CAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG
* * * * *
1119634 ACAAGGAGCCAATATGCTGATTCAATGCCAGCGATATTGGACTTAAAG
131 ACAAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTGCACTCAAAG
1119682 GTGCCACAGA
Statistics
Matches: 884, Mismatches: 86, Indels: 77
0.84 0.08 0.07
Matches are distributed among these distances:
261 77 0.09
262 76 0.09
263 1 0.00
268 1 0.00
270 234 0.26
271 7 0.01
272 34 0.04
273 1 0.00
276 37 0.04
277 4 0.00
281 115 0.13
282 50 0.06
283 2 0.00
284 2 0.00
285 41 0.05
286 37 0.04
287 2 0.00
288 5 0.01
289 91 0.10
290 36 0.04
291 31 0.04
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (279 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAG
ACAAGGTGCTAATATGCTGATTCAAGGCCAGCGATATTGCACTCAAAGATGAAAGTGCCAATATA
CTGATTCAAGGCCAACGACATTGGAACTATAAAAGGCGCCAATATGCTGATTCAAAGCCAACGAC
ATTGGACTTAAAGATGAAG
Found at i:1119702 original size:25 final size:26
Alignment explanation
Indices: 1119673--1119732 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
1119663 AGCGATATTG
* *
1119673 GACTTAAA-GGTGCCACAGAGTTGTA
1 GACTTAAAGGGTGCCACAAAGTTATA
*
1119698 GACTTAAAGGGGTGCCACAAAGTTATG
1 GACTTAAA-GGGTGCCACAAAGTTATA
1119725 GACTTAAA
1 GACTTAAA
1119733 AGGAAAAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 8 0.27
27 22 0.73
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (26 bp):
GACTTAAAGGGTGCCACAAAGTTATA
Found at i:1119788 original size:61 final size:60
Alignment explanation
Indices: 1119678--1119829 Score: 205
Period size: 61 Copynumber: 2.5 Consensus size: 60
1119668 TATTGGACTT
* * *
1119678 AAAGGTGCCACAGAGTTGTAGACTTAAAGGGGTGCCACAAAGTTATGGACTTAAAAGGAA
1 AAAGATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAAAGTTATGGACTTAAAAGGAA
* * * * * *
1119738 AAAGAGTGTCACGGAGTTGTGGGCTTAAAAGGGTGCCATAGAGTTGTGGACTTAAAAGGAA
1 AAAGA-TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAAAGTTATGGACTTAAAAGGAA
*
1119799 AAGGATGCCACAGAGTTGTGGACTTAAAAGG
1 AAAGATGCCACAGAGTTGTGGACTTAAAAGG
1119830 AAAAGGTGCC
Statistics
Matches: 78, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
60 27 0.35
61 51 0.65
ACGTcount: A:0.36, C:0.12, G:0.32, T:0.21
Consensus pattern (60 bp):
AAAGATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACAAAGTTATGGACTTAAAAGGAA
Found at i:1119845 original size:32 final size:31
Alignment explanation
Indices: 1119764--1120139 Score: 345
Period size: 32 Copynumber: 12.0 Consensus size: 31
1119754 TTGTGGGCTT
* * *
1119764 AAAAGGGTGCCATAGAGTTGTGGACTTAAAAGG
1 AAAA-GGTGCCACAGAGTCGTGGACTTAGAA-G
* *
1119797 AAAAGGATGCCACAGAGTTGTGGACTTAAAAGG
1 AAAAGG-TGCCACAGAGTCGTGGACTTAGAA-G
1119830 AAAAGGTGCCACAGAGTCGTGGACTTAGAA-
1 AAAAGGTGCCACAGAGTCGTGGACTTAGAAG
* *
1119860 AAAAGATGCCACTA-AGTCGTGGACTTGGAAG
1 AAAAGGTGCCAC-AGAGTCGTGGACTTAGAAG
*
1119891 AAAAGGATGCCACTA-AGTCATGGACTTAGAAG
1 AAAAGG-TGCCAC-AGAGTCGTGGACTTAGAAG
* * *
1119923 AAAAGATGCCACTGAGTCGTGGACTTTG--G
1 AAAAGGTGCCACAGAGTCGTGGACTTAGAAG
* * *
1119952 AAAGAGATGCCACTGAGTCGTGGACTTGGAAG
1 AAA-AGGTGCCACAGAGTCGTGGACTTAGAAG
* *
1119984 AAAAGGATGCCACTGAGTCGTGGACTTGGAAG
1 AAAAGG-TGCCACAGAGTCGTGGACTTAGAAG
1120016 AAAAGGATGCCACTA-AGTCGTGGACTTAGAA-
1 AAAAGG-TGCCAC-AGAGTCGTGGACTTAGAAG
* * * *
1120047 AAGAGATGCCACTGAGTCATGGACTTAGAA-
1 AAAAGGTGCCACAGAGTCGTGGACTTAGAAG
* * * * *
1120077 AAGAGATTGCCACTGAGTTGTGGACTTGGAAG
1 AAAAG-GTGCCACAGAGTCGTGGACTTAGAAG
*
1120109 AAAAGGATGCCACTGAGTCGTGGACTTAGAA
1 AAAAGG-TGCCACAGAGTCGTGGACTTAGAA
1120140 AAGAGATTTG
Statistics
Matches: 301, Mismatches: 28, Indels: 29
0.84 0.08 0.08
Matches are distributed among these distances:
29 4 0.01
30 76 0.25
31 51 0.17
32 135 0.45
33 35 0.12
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.20
Consensus pattern (31 bp):
AAAAGGTGCCACAGAGTCGTGGACTTAGAAG
Found at i:1119945 original size:93 final size:94
Alignment explanation
Indices: 1119778--1120146 Score: 489
Period size: 93 Copynumber: 3.9 Consensus size: 94
1119768 GGGTGCCATA
* ** * *
1119778 GAGTTGTGGACTTAAAAGGAAAAGGATGCCAC-AGAGTTGTGGACTTAAAAGGAAAAGG-TGCCA
1 GAGTCGTGGACTTGGAA-GAAAAGGATGCCACTA-AGTCGTGGACTTAGAA-GAAAAGGATGCCA
* *
1119841 CAGAGTCGTGGACTTAGAAAAAAGATGCCACT
63 CTGAGTCGTGGACTTAGAAAAGAGATGCCACT
* *
1119873 AAGTCGTGGACTTGGAAGAAAAGGATGCCACTAAGTCATGGACTTAGAAGAAAA-GATGCCACTG
1 GAGTCGTGGACTTGGAAGAAAAGGATGCCACTAAGTCGTGGACTTAGAAGAAAAGGATGCCACTG
* *
1119937 AGTCGTGGACTTTGGAAAGAGATGCCACT
66 AGTCGTGGACTTAGAAAAGAGATGCCACT
* * *
1119966 GAGTCGTGGACTTGGAAGAAAAGGATGCCACTGAGTCGTGGACTTGGAAGAAAAGGATGCCACTA
1 GAGTCGTGGACTTGGAAGAAAAGGATGCCACTAAGTCGTGGACTTAGAAGAAAAGGATGCCACTG
1120031 AGTCGTGGACTTAGAAAAGAGATGCCACT
66 AGTCGTGGACTTAGAAAAGAGATGCCACT
* * * *
1120060 GAGTCATGGACTT---AGAAAAGAGATTGCCACTGAGTTGTGGACTTGGAAGAAAAGGATGCCAC
1 GAGTCGTGGACTTGGAAGAAAAG-GA-TGCCACTAAGTCGTGGACTTAGAAGAAAAGGATGCCAC
1120122 TGAGTCGTGGACTTAGAAAAGAGAT
64 TGAGTCGTGGACTTAGAAAAGAGAT
1120147 TTGAAAAATT
Statistics
Matches: 248, Mismatches: 21, Indels: 12
0.88 0.07 0.04
Matches are distributed among these distances:
91 7 0.03
92 3 0.01
93 149 0.60
94 75 0.30
95 14 0.06
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.20
Consensus pattern (94 bp):
GAGTCGTGGACTTGGAAGAAAAGGATGCCACTAAGTCGTGGACTTAGAAGAAAAGGATGCCACTG
AGTCGTGGACTTAGAAAAGAGATGCCACT
Found at i:1119993 original size:125 final size:125
Alignment explanation
Indices: 1119784--1120135 Score: 505
Period size: 125 Copynumber: 2.8 Consensus size: 125
1119774 CATAGAGTTG
* * * * *
1119784 TGGACTTAAAAGGAAAAGGATGCCACAGAGTTGTGGACTTAAAAGGAAA-AGGTGCCACAGAGTC
1 TGGACTTAGAA-GAAAA-GATGCCACTGAGTCGTGGACTT---AGGAAAGAGATGCCACTGAGTC
* *
1119848 GTGGACTTAGAA-AAAA-GATGCCACTAAGTCGTGGACTTGGAAGAAAAGGATGCCACTAAGTCA
61 GTGGACTTGGAAGAAAAGGATGCCACTGAGTCGTGGACTTGGAAGAAAAGGATGCCACTAAGTCA
*
1119911 TGGACTTAGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGAAAGAGATGCCACTGAGTCGTGGA
1 TGGACTTAGAAGAAAAGATGCCACTGAGTCGTGGACTTAGGAAAGAGATGCCACTGAGTCGTGGA
*
1119976 CTTGGAAGAAAAGGATGCCACTGAGTCGTGGACTTGGAAGAAAAGGATGCCACTAAGTCG
66 CTTGGAAGAAAAGGATGCCACTGAGTCGTGGACTTGGAAGAAAAGGATGCCACTAAGTCA
* * * *
1120036 TGGACTTAGAA-AAGAGATGCCACTGAGTCATGGACTTAGAAAAGAGATTGCCACTGAGTTGTGG
1 TGGACTTAGAAGAAAAGATGCCACTGAGTCGTGGACTTAGGAAAGAGA-TGCCACTGAGTCGTGG
1120100 ACTTGGAAGAAAAGGATGCCACTGAGTCGTGGACTT
65 ACTTGGAAGAAAAGGATGCCACTGAGTCGTGGACTT
1120136 AGAAAAGAGA
Statistics
Matches: 207, Mismatches: 14, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
122 5 0.02
123 24 0.12
124 36 0.17
125 127 0.61
126 5 0.02
127 10 0.05
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.20
Consensus pattern (125 bp):
TGGACTTAGAAGAAAAGATGCCACTGAGTCGTGGACTTAGGAAAGAGATGCCACTGAGTCGTGGA
CTTGGAAGAAAAGGATGCCACTGAGTCGTGGACTTGGAAGAAAAGGATGCCACTAAGTCA
Found at i:1121371 original size:24 final size:23
Alignment explanation
Indices: 1121344--1121390 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
1121334 GCCTTTGCAC
1121344 TTTTTTTTCTGTTGTTTTTGTTTT
1 TTTTTTTTCTGTTG-TTTTGTTTT
*
1121368 TTTTTTTTGTGTTGTTTTGTTTT
1 TTTTTTTTCTGTTGTTTTGTTTT
1121391 GTGTTTGTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.83
Consensus pattern (23 bp):
TTTTTTTTCTGTTGTTTTGTTTT
Found at i:1121380 original size:15 final size:15
Alignment explanation
Indices: 1121355--1121396 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
1121345 TTTTTTTCTG
1121355 TTGTTTT-TGTTTTT
1 TTGTTTTGTGTTTTT
* *
1121369 TTTTTTTGTGTTGTT
1 TTGTTTTGTGTTTTT
1121384 TTGTTTTGTGTTT
1 TTGTTTTGTGTTT
1121397 GTACTTTTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (15 bp):
TTGTTTTGTGTTTTT
Found at i:1128385 original size:13 final size:13
Alignment explanation
Indices: 1128367--1128394 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1128357 ATGCAAAGAT
1128367 CAATGTATCGATA
1 CAATGTATCGATA
1128380 CAATGTATCGATA
1 CAATGTATCGATA
1128393 CA
1 CA
1128395 TTTTCTTAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1128450 original size:19 final size:19
Alignment explanation
Indices: 1128426--1128486 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 19
1128416 AGCGATACAT
1128426 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
*
1128445 TGTATCGAT---ATA--T-
1 TGTATCGATACAACACTTA
*
1128458 TGTATCAATACAACACTTA
1 TGTATCGATACAACACTTA
1128477 TGTATCGATA
1 TGTATCGATA
1128487 TAGTTACTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 12
0.67 0.08 0.25
Matches are distributed among these distances:
13 8 0.25
14 1 0.03
16 4 0.12
18 1 0.03
19 18 0.56
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:1128460 original size:32 final size:32
Alignment explanation
Indices: 1128413--1128488 Score: 125
Period size: 32 Copynumber: 2.4 Consensus size: 32
1128403 GCAGTAGCTT
* * *
1128413 TGTAGCGATACATTGTATCGATACAACACTTA
1 TGTATCGATATATTGTATCAATACAACACTTA
1128445 TGTATCGATATATTGTATCAATACAACACTTA
1 TGTATCGATATATTGTATCAATACAACACTTA
1128477 TGTATCGATATA
1 TGTATCGATATA
1128489 GTTACTATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (32 bp):
TGTATCGATATATTGTATCAATACAACACTTA
Found at i:1131226 original size:17 final size:17
Alignment explanation
Indices: 1131204--1131238 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
1131194 CTTAAGAAAC
*
1131204 ATATAAGTAAATTAACA
1 ATATAAATAAATTAACA
*
1131221 ATATAAATAAATTTACA
1 ATATAAATAAATTAACA
1131238 A
1 A
1131239 AAAAGAAAAG
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:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (17 bp):
ATATAAATAAATTAACA
Found at i:1132824 original size:3 final size:3
Alignment explanation
Indices: 1132818--1132850 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
1132808 ACATTCGGCC
1132818 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1132851 TTTAATGATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:1133165 original size:3 final size:3
Alignment explanation
Indices: 1133139--1133196 Score: 80
Period size: 3 Copynumber: 19.3 Consensus size: 3
1133129 TCAACCATCA
* * * *
1133139 ATG ATA ATG AAG ATG ATG AAG ATG ATG ATG ATG ATG ATA ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1133187 ATG ATG ATG A
1 ATG ATG ATG A
1133197 AGTTGACTCG
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:0.41, C:0.00, G:0.29, T:0.29
Consensus pattern (3 bp):
ATG
Found at i:1136144 original size:131 final size:130
Alignment explanation
Indices: 1135865--1136160 Score: 511
Period size: 131 Copynumber: 2.3 Consensus size: 130
1135855 AATGAAAGAT
** *
1135865 ATACGATGAAACTTGAGAAAAAGAACTACGGTAACATCATGCATGAAACACATCAAAGTCATAGC
1 ATACGATGAAACTTGAGAAAGGGAACTACGGTAACATCATGCATGAAACACATAAAAGTCATAGC
1135930 AATAACATCATATTGAAACATTTTAACTACCTAAAAGATTCCAGCATCAAAATGTTTACAAACAC
66 AATAACATCATATTGAAACATTTTAACTACCTAAAAGATTCCAGCATCAAAATGTTTACAAACAC
* *
1135995 ATACGATGAAACTTGAGAAAGGGAACTACGATAACATCATGTATGAAACACATAAAAGTCATAGC
1 ATACGATGAAACTTGAGAAAGGGAACTACGGTAACATCATGCATGAAACACATAAAAGTCATAGC
* *
1136060 AATAACATCATGTATGAAACATTTTAACTACCTAAAAGATTCCAGCATTAAAATGTTTACAAACA
66 AATAACATCATAT-TGAAACATTTTAACTACCTAAAAGATTCCAGCATCAAAATGTTTACAAACA
1136125 C
130 C
*
1136126 ATACGATGAAACTTGAGAAAGGAAACTACGGTAAC
1 ATACGATGAAACTTGAGAAAGGGAACTACGGTAAC
1136161 TAAACAAAAC
Statistics
Matches: 156, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
130 72 0.46
131 84 0.54
ACGTcount: A:0.46, C:0.18, G:0.14, T:0.23
Consensus pattern (130 bp):
ATACGATGAAACTTGAGAAAGGGAACTACGGTAACATCATGCATGAAACACATAAAAGTCATAGC
AATAACATCATATTGAAACATTTTAACTACCTAAAAGATTCCAGCATCAAAATGTTTACAAACAC
Found at i:1137104 original size:21 final size:21
Alignment explanation
Indices: 1137078--1137120 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1137068 GATTGGTTTC
1137078 TTCATTGCATCCATGTTGCTT
1 TTCATTGCATCCATGTTGCTT
1137099 TTCATTGCATCCATGTTGCTT
1 TTCATTGCATCCATGTTGCTT
1137120 T
1 T
1137121 AATTTGTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.23, G:0.14, T:0.49
Consensus pattern (21 bp):
TTCATTGCATCCATGTTGCTT
Found at i:1137409 original size:18 final size:18
Alignment explanation
Indices: 1137386--1137474 Score: 62
Period size: 18 Copynumber: 4.8 Consensus size: 18
1137376 TTGATTTATA
1137386 TATATATATATTTTTATTTC
1 TATAT-TAT-TTTTTATTTC
1137406 TATATTATTTTTTATTTC
1 TATATTATTTTTTATTTC
*
1137424 TTGAATATTTGATGTTTTATTT-
1 -T--ATA-TT-ATTTTTTATTTC
1137446 T-TA-T-TTTTTTATTT-
1 TATATTATTTTTTATTTC
*
1137460 TATTTTATTTTTTAT
1 TATATTATTTTTTAT
1137475 CAAAGATAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 19
0.73 0.04 0.24
Matches are distributed among these distances:
14 10 0.17
15 1 0.02
16 2 0.03
17 8 0.14
18 12 0.21
19 4 0.07
20 5 0.09
21 4 0.07
22 2 0.03
23 10 0.17
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.72
Consensus pattern (18 bp):
TATATTATTTTTTATTTC
Found at i:1141701 original size:17 final size:17
Alignment explanation
Indices: 1141679--1141711 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
1141669 AAAATTCCCA
1141679 GAATGTATCGATACATT
1 GAATGTATCGATACATT
1141696 GAATGTATCGATACAT
1 GAATGTATCGATACAT
1141712 CTGGAAAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.33
Consensus pattern (17 bp):
GAATGTATCGATACATT
Found at i:1143673 original size:21 final size:21
Alignment explanation
Indices: 1143647--1143688 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1143637 ATTTACTAAG
1143647 GGGGAGAAAAGTTGTTTTTAT
1 GGGGAGAAAAGTTGTTTTTAT
1143668 GGGGAGAAAAGTTGTTTTTAT
1 GGGGAGAAAAGTTGTTTTTAT
1143689 AAAAGAAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.33, T:0.38
Consensus pattern (21 bp):
GGGGAGAAAAGTTGTTTTTAT
Found at i:1144445 original size:13 final size:13
Alignment explanation
Indices: 1144427--1144451 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1144417 ATATTGCTTA
1144427 GTATCGATACATT
1 GTATCGATACATT
1144440 GTATCGATACAT
1 GTATCGATACAT
1144452 GTTCTTGGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1144468 original size:32 final size:33
Alignment explanation
Indices: 1144406--1144470 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
1144396 TGTACCTAGA
1144406 TGTATCAATACATATTGCTTAGTATCGATACAT
1 TGTATCAATACATATTGCTTAGTATCGATACAT
* * *
1144439 TGTATCGATACATGTT-CTTGGTATCGATACAT
1 TGTATCAATACATATTGCTTAGTATCGATACAT
1144471 ATTGAATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCAATACATATTGCTTAGTATCGATACAT
Found at i:1146737 original size:7 final size:7
Alignment explanation
Indices: 1146727--1146758 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
1146717 ATATTATATA
1146727 GCACTTG
1 GCACTTG
1146734 GCACTTG
1 GCACTTG
1146741 GCACTTG
1 GCACTTG
1146748 GCACTTG
1 GCACTTG
1146755 GCAC
1 GCAC
1146759 GTACAAATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.16, C:0.31, G:0.28, T:0.25
Consensus pattern (7 bp):
GCACTTG
Found at i:1150734 original size:22 final size:19
Alignment explanation
Indices: 1150682--1150739 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 19
1150672 TCAAAAACCT
1150682 AGAATGTATCGATACAATG
1 AGAATGTATCGATACAATG
1150701 AGAAGTGTATCGATACAATTG
1 AGAA-TGTATCGATACAA-TG
*
1150722 CAAGCATGTATCGATACA
1 --AGAATGTATCGATACA
1150740 TTTACTAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
19 4 0.12
20 13 0.38
21 2 0.06
22 12 0.35
23 3 0.09
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.26
Consensus pattern (19 bp):
AGAATGTATCGATACAATG
Found at i:1150813 original size:21 final size:21
Alignment explanation
Indices: 1150787--1150842 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
1150777 AGGATGGCTT
* *
1150787 TGTATCAATACATTTTAGGCA
1 TGTATCAATACATTTCACGCA
* *
1150808 TGTATCGATACA-TTCACTCA
1 TGTATCAATACATTTCACGCA
1150828 TGTATCAATACATTT
1 TGTATCAATACATTT
1150843 AGTGTTTGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (21 bp):
TGTATCAATACATTTCACGCA
Found at i:1150854 original size:21 final size:21
Alignment explanation
Indices: 1150787--1150860 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
1150777 AGGATGGCTT
1150787 TGTATCAATACATTTTAG-GCA
1 TGTATCAATACA-TTTAGTGCA
* * *
1150808 TGTATCGATACATTCACT-CA
1 TGTATCAATACATTTAGTGCA
**
1150828 TGTATCAATACATTTAGTGTT
1 TGTATCAATACATTTAGTGCA
*
1150849 TGTATCGATACA
1 TGTATCAATACA
1150861 AATTGTAGAA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
20 20 0.48
21 22 0.52
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (21 bp):
TGTATCAATACATTTAGTGCA
Found at i:1152566 original size:3 final size:3
Alignment explanation
Indices: 1152558--1152601 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
1152548 AACTCAACAT
1152558 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1152602 TATTAGTTCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1155595 original size:83 final size:83
Alignment explanation
Indices: 1155456--1155621 Score: 332
Period size: 83 Copynumber: 2.0 Consensus size: 83
1155446 TAGAGTGTTT
1155456 TAGTTACAAGAACACTCTTGATGGGATCCACCTATGTAAGTGTGAAGTAAAGCTGCTTCTAGAAG
1 TAGTTACAAGAACACTCTTGATGGGATCCACCTATGTAAGTGTGAAGTAAAGCTGCTTCTAGAAG
1155521 CTTAAAAGCTTGGTTTTA
66 CTTAAAAGCTTGGTTTTA
1155539 TAGTTACAAGAACACTCTTGATGGGATCCACCTATGTAAGTGTGAAGTAAAGCTGCTTCTAGAAG
1 TAGTTACAAGAACACTCTTGATGGGATCCACCTATGTAAGTGTGAAGTAAAGCTGCTTCTAGAAG
1155604 CTTAAAAGCTTGGTTTTA
66 CTTAAAAGCTTGGTTTTA
1155622 ATAGCATTTA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 83 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (83 bp):
TAGTTACAAGAACACTCTTGATGGGATCCACCTATGTAAGTGTGAAGTAAAGCTGCTTCTAGAAG
CTTAAAAGCTTGGTTTTA
Found at i:1159509 original size:5 final size:5
Alignment explanation
Indices: 1159499--1159523 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
1159489 AAAATTTATA
1159499 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
1159524 TAAGAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:1163500 original size:17 final size:17
Alignment explanation
Indices: 1163451--1163501 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
1163441 ATATTCTTAG
*
1163451 TTCATGAATATTCA-AA
1 TTCATGAATATACATAA
* *
1163467 TTCATGAATTTATATAA
1 TTCATGAATATACATAA
*
1163484 TTCATGAATGTACATAA
1 TTCATGAATATACATAA
1163501 T
1 T
1163502 AACATTCATG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 11 0.38
17 18 0.62
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (17 bp):
TTCATGAATATACATAA
Found at i:1168406 original size:14 final size:13
Alignment explanation
Indices: 1168355--1168408 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 13
1168345 ATTTTTTTAG
1168355 TTTATTTTAATAA
1 TTTATTTTAATAA
*
1168368 TTTATTTTATATAG
1 TTTATTTTA-ATAA
*
1168382 TATGATTTTAATAA
1 T-TTATTTTAATAA
1168396 TTTATTTTTAATA
1 TTTA-TTTTAATA
1168409 TAAATAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
13 11 0.32
14 16 0.47
15 7 0.21
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (13 bp):
TTTATTTTAATAA
Found at i:1168428 original size:28 final size:28
Alignment explanation
Indices: 1168397--1168544 Score: 88
Period size: 28 Copynumber: 5.1 Consensus size: 28
1168387 TTTTAATAAT
1168397 TTATTTTTAATATAAATAAAATTTTTAA
1 TTATTTTTAATATAAATAAAATTTTTAA
* *
1168425 TTATTATTTAATATAATTATAA-TTTTAA
1 TTATT-TTTAATATAAATAAAATTTTTAA
* * **
1168453 TATTTTTTGGTAGATA-ATATAATTTTAGTAATTAA
1 T-TATTTT--TA-ATATAAATAAAATT--T--TTAA
* *
1168488 TTATTTTTAATA-GAATATAATTTTTAA
1 TTATTTTTAATATAAATAAAATTTTTAA
* *
1168515 TTATTATTTAGTATAAAT-ATATTTTTAA
1 TTATT-TTTAATATAAATAAAATTTTTAA
1168543 TT
1 TT
1168545 TAGATTTTAT
Statistics
Matches: 90, Mismatches: 18, Indels: 24
0.68 0.14 0.18
Matches are distributed among these distances:
27 9 0.10
28 30 0.33
29 21 0.23
30 5 0.06
31 12 0.13
32 2 0.02
33 1 0.01
34 5 0.06
35 5 0.06
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (28 bp):
TTATTTTTAATATAAATAAAATTTTTAA
Found at i:1168443 original size:16 final size:17
Alignment explanation
Indices: 1168422--1168455 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1168412 ATAAAATTTT
*
1168422 TAATTATTA-TTTAATA
1 TAATTATAATTTTAATA
1168438 TAATTATAATTTTAATA
1 TAATTATAATTTTAATA
1168455 T
1 T
1168456 TTTTTGGTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TAATTATAATTTTAATA
Found at i:1169204 original size:9 final size:9
Alignment explanation
Indices: 1169191--1169229 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
1169181 GTTTTTAAAT
*
1169191 AATTAATTT
1 AATTAATTA
1169200 AATTAATTA
1 AATTAATTA
1169209 AATTAATTA
1 AATTAATTA
*
1169218 AATTAAATA
1 AATTAATTA
1169227 AAT
1 AAT
1169230 CGAATTGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
AATTAATTA
Found at i:1169206 original size:13 final size:13
Alignment explanation
Indices: 1169184--1169223 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
1169174 CAGCTAAGTT
*
1169184 TTTAAATAATTAA
1 TTTAATTAATTAA
1169197 TTTAATTAATTAA
1 TTTAATTAATTAA
*
1169210 ATTAATTAAATTAA
1 TTTAATT-AATTAA
1169224 ATAAATCGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 18 0.75
14 6 0.25
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TTTAATTAATTAA
Found at i:1169214 original size:18 final size:18
Alignment explanation
Indices: 1169185--1169229 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
1169175 AGCTAAGTTT
*
1169185 TTAAAT-AATTAATTTAA
1 TTAAATAAATTAATTAAA
*
1169202 TTAATTAAATTAATTAAA
1 TTAAATAAATTAATTAAA
1169220 TTAAATAAAT
1 TTAAATAAAT
1169230 CGAATTGCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAAATAAATTAATTAAA
Found at i:1169674 original size:14 final size:14
Alignment explanation
Indices: 1169655--1169698 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
1169645 TTTATCTATT
1169655 ATATAATATAAATA
1 ATATAATATAAATA
1169669 ATATAATATATAAT-
1 ATATAATATA-AATA
*
1169683 ATAAAATATAAA-A
1 ATATAATATAAATA
1169696 ATA
1 ATA
1169699 ATATATTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.19
14 19 0.70
15 3 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
ATATAATATAAATA
Found at i:1169679 original size:21 final size:20
Alignment explanation
Indices: 1169654--1169703 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
1169644 ATTTATCTAT
1169654 TATATAATATAAATAATATAA
1 TATATAATATAAA-AATATAA
1169675 TATATAATAT-AAAATATAA
1 TATATAATATAAAAATATAA
*
1169694 -AAATAATATA
1 TATATAATATA
1169704 TTATATAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 8 0.30
19 7 0.26
20 2 0.07
21 10 0.37
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATAATATAAAAATATAA
Found at i:1169848 original size:21 final size:22
Alignment explanation
Indices: 1169801--1169849 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
1169791 AGTTTTTGAC
*
1169801 TAAATTTATTTAACAAATTTAA
1 TAAATTTATTTAACAAATTAAA
* *
1169823 T-AATTTTTTTAA-ATATTAAA
1 TAAATTTATTTAACAAATTAAA
1169843 TAAATTT
1 TAAATTT
1169850 GACACAATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 7 0.30
21 15 0.65
22 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TAAATTTATTTAACAAATTAAA
Found at i:1171043 original size:2 final size:2
Alignment explanation
Indices: 1171036--1171060 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1171026 AGAAGAATTA
1171036 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
1171061 GTTGATAAAA
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:1171861 original size:9 final size:9
Alignment explanation
Indices: 1171847--1171879 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
1171837 AATTTTTTAA
1171847 AAAAATATT
1 AAAAATATT
1171856 AAAAATTATT
1 AAAAA-TATT
1171866 -AAAATATT
1 AAAAATATT
1171874 AAAAAT
1 AAAAAT
1171880 TATTTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 4 0.18
9 14 0.64
10 4 0.18
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AAAAATATT
Found at i:1171871 original size:18 final size:18
Alignment explanation
Indices: 1171848--1171883 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1171838 ATTTTTTAAA
1171848 AAAATATTAAAAATTATT
1 AAAATATTAAAAATTATT
1171866 AAAATATTAAAAATTATT
1 AAAATATTAAAAATTATT
1171884 TTTATTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAATATTAAAAATTATT
Found at i:1173189 original size:16 final size:17
Alignment explanation
Indices: 1173168--1173208 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
1173158 AATATTTTTA
1173168 TTATTTATGTAATT-AT
1 TTATTTATGTAATTAAT
*
1173184 TTATTT-TTTAATTAAT
1 TTATTTATGTAATTAAT
1173200 TTATATTAT
1 TTAT-TTAT
1173209 TGTATAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 6 0.29
16 12 0.57
17 2 0.10
18 1 0.05
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (17 bp):
TTATTTATGTAATTAAT
Found at i:1173317 original size:32 final size:32
Alignment explanation
Indices: 1173276--1173354 Score: 106
Period size: 32 Copynumber: 2.5 Consensus size: 32
1173266 TATTTATTTG
* ** *
1173276 TTTATTATATAA-AAATAAAATTTTGTTATATA
1 TTTATTATATAATAAACAAAA-TTTACTAAATA
1173308 TTTATTATATAATAAACAAAATTTACTAAATA
1 TTTATTATATAATAAACAAAATTTACTAAATA
1173340 TTTATTATATAATAA
1 TTTATTATATAATAA
1173355 CAATTATATC
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
32 35 0.83
33 7 0.17
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (32 bp):
TTTATTATATAATAAACAAAATTTACTAAATA
Found at i:1176621 original size:59 final size:59
Alignment explanation
Indices: 1176529--1176655 Score: 150
Period size: 59 Copynumber: 2.2 Consensus size: 59
1176519 GTAAATTTTA
* * * * * *
1176529 TGCATTTTAGTGTTATTTAAGTTATTTTCTATAATTTAGGGA-TCATTTAGCAA-GTTACT
1 TGCATTTTAGAGTGATTTAAGCTATTTTATATAATCTAGGGACT-ATATAGCAACGTTA-T
* *
1176588 TGCATTTTAGAGTGATTTAGGCTATTTTATATAATCTAGGGACTATATAGCAACTTTAT
1 TGCATTTTAGAGTGATTTAAGCTATTTTATATAATCTAGGGACTATATAGCAACGTTAT
1176647 TGCATTTTA
1 TGCATTTTA
1176656 TGACCATTTA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
59 54 0.93
60 4 0.07
ACGTcount: A:0.28, C:0.09, G:0.16, T:0.46
Consensus pattern (59 bp):
TGCATTTTAGAGTGATTTAAGCTATTTTATATAATCTAGGGACTATATAGCAACGTTAT
Found at i:1180802 original size:51 final size:51
Alignment explanation
Indices: 1180743--1180854 Score: 179
Period size: 51 Copynumber: 2.2 Consensus size: 51
1180733 AGCGAGGTTA
* * *
1180743 GAGTATCCCCAATTGTGAGAAATTGGTGTTTTGGAAATAAAATCGGAGTTG
1 GAGTATCCCCAATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGAGTTG
* *
1180794 GAGTATCCCCGATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGGGTTG
1 GAGTATCCCCAATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGAGTTG
1180845 GAGTATCCCC
1 GAGTATCCCC
1180855 TCGAAAATAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
GAGTATCCCCAATTGTGAAAAATTGGTATTTTAGAAATAAAATCGGAGTTG
Found at i:1180890 original size:28 final size:29
Alignment explanation
Indices: 1180839--1180913 Score: 95
Period size: 28 Copynumber: 2.7 Consensus size: 29
1180829 AATAAAATCG
1180839 GGGTTGGAGTATCCCC--TCGAAAATAAC
1 GGGTTGGAGTATCCCCGATCGAAAATAAC
1180866 GGGATTGGAGTATCCCCGAT-G-AAATAAC
1 GGG-TTGGAGTATCCCCGATCGAAAATAAC
*
1180894 AGGGTTGGAGTACCCCCGAT
1 -GGGTTGGAGTATCCCCGAT
1180914 TATGAAAAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
27 3 0.07
28 35 0.81
29 4 0.09
30 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.21
Consensus pattern (29 bp):
GGGTTGGAGTATCCCCGATCGAAAATAAC
Found at i:1181050 original size:77 final size:77
Alignment explanation
Indices: 1180870--1181117 Score: 295
Period size: 77 Copynumber: 3.2 Consensus size: 77
1180860 AATAACGGGA
* * * * *
1180870 TTGGAGTAT-CCC-CGATGAAATAACAGGGTTGGAGTACCCCCGATTATGAAAAAAAATAATATT
1 TTGGAGTATCCCCTCGA--AAATAACGGGGTTGGAGTATCCCCG---ATG--AAAAATTGATTTT
* * *
1180933 TTTAGATATAAAGCCGGGG
59 TTTAGAAATAAAACCGAGG
*
1180952 TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAAAATTGATTTTTTTAGAA
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAAAATTGATTTTTTTAGAA
*
1181017 ATAAAATCGAGG
66 ATAAAACCGAGG
* *
1181029 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGCATCCCCGATGAAAAATTGA-TGTTTTAGAA
1 TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAAAATTGATTTTTTTAGAA
*
1181093 ATAAAACCAAGG
66 ATAAAACCGAGG
1181105 TTGGAGTATCCCC
1 TTGGAGTATCCCC
1181118 GAGATGAAAA
Statistics
Matches: 149, Mismatches: 15, Indels: 10
0.86 0.09 0.06
Matches are distributed among these distances:
76 32 0.21
77 77 0.52
79 3 0.02
82 32 0.21
83 3 0.02
84 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (77 bp):
TTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGAAAAATTGATTTTTTTAGAA
ATAAAACCGAGG
Found at i:1182520 original size:13 final size:13
Alignment explanation
Indices: 1182502--1182527 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1182492 CTATTTATGA
1182502 TGTATCGATACAC
1 TGTATCGATACAC
1182515 TGTATCGATACAC
1 TGTATCGATACAC
1182528 ACAAATATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1182619 original size:21 final size:22
Alignment explanation
Indices: 1182556--1182654 Score: 134
Period size: 21 Copynumber: 4.6 Consensus size: 22
1182546 ATGAATAGTG
* *
1182556 ATGAACAGTGATTTTTAACGATAC
1 ATGAACAGTGA--TGTATCGATAC
1182580 ATGAACAGTGAT-T-TCGATAC
1 ATGAACAGTGATGTATCGATAC
1182600 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
1182621 ATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
1182642 ATGAACAGTGATG
1 ATGAACAGTGATG
1182655 AATAGTGATG
Statistics
Matches: 71, Mismatches: 1, Indels: 8
0.89 0.01 0.10
Matches are distributed among these distances:
19 6 0.08
20 12 0.17
21 34 0.48
22 8 0.11
24 11 0.15
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.29
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:1182645 original size:42 final size:42
Alignment explanation
Indices: 1182556--1182654 Score: 130
Period size: 41 Copynumber: 2.3 Consensus size: 42
1182546 ATGAATAGTG
* *
1182556 ATGAACAGTGATTTTTAACGATACATGAACAGTGATTTCGATAC
1 ATGAACAGTGA--TGTATCGATACATGAACAGTGATTTCGATAC
1182600 ATGAA-AGTGATGTATCGATACATGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATACATGAACAGTGAT-T-TCGATAC
1182642 ATGAACAGTGATG
1 ATGAACAGTGATG
1182655 AATAGTGATG
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
40 6 0.12
41 15 0.30
42 12 0.24
43 12 0.24
44 5 0.10
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.29
Consensus pattern (42 bp):
ATGAACAGTGATGTATCGATACATGAACAGTGATTTCGATAC
Found at i:1182661 original size:10 final size:10
Alignment explanation
Indices: 1182642--1182672 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1182632 GTATCGATAC
*
1182642 ATGAACAGTG
1 ATGAATAGTG
1182652 ATGAATAGTG
1 ATGAATAGTG
1182662 ATGAATAGTG
1 ATGAATAGTG
1182672 A
1 A
1182673 AAATGAGATT
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:0.42, C:0.03, G:0.29, T:0.26
Consensus pattern (10 bp):
ATGAATAGTG
Found at i:1182760 original size:53 final size:53
Alignment explanation
Indices: 1182696--1182832 Score: 229
Period size: 53 Copynumber: 2.6 Consensus size: 53
1182686 CTACTTCCAA
1182696 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACC
* * * *
1182749 TGTATCGATACATATTGTGTGTATCGATAGAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACC
1182802 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
1182833 TATGCAATTT
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
53 65 0.84
54 12 0.16
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTACCAATGACC
Found at i:1182865 original size:20 final size:20
Alignment explanation
Indices: 1182802--1182872 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
1182792 GCCAATGTCC
**
1182802 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
1182822 TGTATCGATAC-TATGCAATT
1 TGTATCGATACATAT-TAATG
1182842 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
1182862 TGTATCGATAC
1 TGTATCGATAC
1182873 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:1182938 original size:21 final size:21
Alignment explanation
Indices: 1182912--1182952 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1182902 GTCAACCTTG
1182912 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
1182933 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
1182953 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:1183504 original size:13 final size:13
Alignment explanation
Indices: 1183486--1183510 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1183476 CATAAAGTGT
1183486 TGTATCGATACAA
1 TGTATCGATACAA
1183499 TGTATCGATACA
1 TGTATCGATACA
1183511 TAAGTGATAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1183645 original size:52 final size:52
Alignment explanation
Indices: 1183603--1183783 Score: 326
Period size: 52 Copynumber: 3.5 Consensus size: 52
1183593 CACTGATCTT
*
1183603 TGTATCGATACATGCAGGCAAGTTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
1183655 TGTATCGATACATGCAGACAAATTTGCCTAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1183707 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1183759 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1183784 TCATATTTCG
Statistics
Matches: 123, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 123 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1188648 original size:13 final size:13
Alignment explanation
Indices: 1188630--1188657 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1188620 TACAAAAGAT
1188630 CAATGTATCGATA
1 CAATGTATCGATA
1188643 CAATGTATCGATA
1 CAATGTATCGATA
1188656 CA
1 CA
1188658 TTTCCTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1188677 original size:21 final size:21
Alignment explanation
Indices: 1188644--1188685 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1188634 GTATCGATAC
*
1188644 AATGTATCGATACATTTCCTT
1 AATGTATCAATACATTTCCTT
*
1188665 AATGTGTCAATACATTTCCTT
1 AATGTATCAATACATTTCCTT
1188686 GGCAGTAGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (21 bp):
AATGTATCAATACATTTCCTT
Found at i:1188744 original size:32 final size:32
Alignment explanation
Indices: 1188702--1188774 Score: 119
Period size: 32 Copynumber: 2.3 Consensus size: 32
1188692 AGCTTCGTAG
1188702 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
* * *
1188734 CGATATATTGTATTGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
1188766 CGATACATT
1 CGATACATT
1188775 TACTGTTTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.37
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:1189640 original size:119 final size:117
Alignment explanation
Indices: 1189442--1189658 Score: 253
Period size: 119 Copynumber: 1.8 Consensus size: 117
1189432 GGTGTCCCAC
* * *
1189442 TTTTTGAGGATAAAGGAAAAGAGAATGAAATAGGTCTTACTCCTTGAGGACAAAAGGAGAGAAGA
1 TTTTTGAGGACAAAGGAAAAGAGAATGAAATAGGTCCTACTCCTTGAGGACAAAAGGAAAGAAGA
1189507 AAAGGAAAGTATCCTACT-TCTTGAGGA-TAAAATGAAAAAGGGTACGTCTCG
66 AAAGGAAAGTATCCTACTCT-TTGAGGACTAAAATGAAAAAGGGTACGTCTCG
* * * * *
1189558 TTTTTCGAGGACAAAGGAAAAAGGGAAATGAAATATGTCCTGCTCTTTGAGGACGAAA-GAAAGA
1 TTTTT-GAGGACAAAGG-AAAAGAG-AATGAAATAGGTCCTACTCCTTGAGGACAAAAGGAAAGA
* * *
1189622 GGAAAA-TAAAGTGCATCCTGCTCTTTGAGGACTAAAA
63 AGAAAAGGAAAGT--ATCCTACTCTTTGAGGACTAAAA
1189659 AGTGCCACCA
Statistics
Matches: 83, Mismatches: 11, Indels: 10
0.80 0.11 0.10
Matches are distributed among these distances:
116 5 0.06
117 15 0.18
118 16 0.19
119 41 0.49
120 6 0.07
ACGTcount: A:0.41, C:0.12, G:0.25, T:0.23
Consensus pattern (117 bp):
TTTTTGAGGACAAAGGAAAAGAGAATGAAATAGGTCCTACTCCTTGAGGACAAAAGGAAAGAAGA
AAAGGAAAGTATCCTACTCTTTGAGGACTAAAATGAAAAAGGGTACGTCTCG
Found at i:1189724 original size:55 final size:54
Alignment explanation
Indices: 1189629--1190031 Score: 428
Period size: 55 Copynumber: 7.1 Consensus size: 54
1189619 AGAGGAAAAT
* *
1189629 AAAGTGCATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTG
1 AAAG-GCATCCTGCTCTTTGAGGACTGAAAA-TGCCACCAACTTGTGTGGGCTTTG
* * * * *
1189685 AAAGGCGTCTTGCTCTTTAAGGACTGAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAG
1 AAAGGCATCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTT-----G
*
1189745 AAAAGGCATCCTGCTCTTTGAGGACTGGAAAATGCTACCAACTTGTGTGGGCTTTG
1 -AAAGGCATCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTG
* * * *
1189801 AAAAGAAAAAGCATCCTCCTCTTTGAGTACTGGAAAATGCCACCAATTTGTGTGGGTTTTG
1 -AAAG-----GCATCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTG
* * *
1189862 AAAGGCATCTTGCTATTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTA
1 AAAGGCATCCTGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTTG
* * *
1189917 AAAGGCGTCCTGCTCTTTGAGGACTGGAAAATGTCACTAACTTGTGTGGGCTTTG
1 AAAGGCATCCTGCTCTTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTG
* * * *
1189972 AAAAGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACTAACTTGTGTGGGCTTTG
1 AAAGGCATCCTGCTCTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTG
1190027 AAAGG
1 AAAGG
1190032 AAAAGGCGTC
Statistics
Matches: 298, Mismatches: 33, Indels: 33
0.82 0.09 0.09
Matches are distributed among these distances:
54 5 0.02
55 184 0.62
56 11 0.04
60 5 0.02
61 89 0.30
62 4 0.01
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (54 bp):
AAAGGCATCCTGCTCTTTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTG
Found at i:1204255 original size:26 final size:27
Alignment explanation
Indices: 1204193--1204255 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
1204183 ATTTGAGCGA
1204193 AAGAAAAAAGACTTCTACCAAAAAGCT
1 AAGAAAAAAGACTTCTACCAAAAAGCT
1204220 AAGAAAAAAGACTTCTACCAAAAAGCT
1 AAGAAAAAAGACTTCTACCAAAAAGCT
1204247 AA-AAAAAAG
1 AAGAAAAAAG
1204256 TGAGATACAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 7 0.19
27 29 0.81
ACGTcount: A:0.60, C:0.16, G:0.11, T:0.13
Consensus pattern (27 bp):
AAGAAAAAAGACTTCTACCAAAAAGCT
Found at i:1204485 original size:50 final size:51
Alignment explanation
Indices: 1204427--1204524 Score: 135
Period size: 50 Copynumber: 1.9 Consensus size: 51
1204417 TGTCTTTAAC
* * *
1204427 ATTTCAAAAATGTCTTTTAAATCACTAAAACTCAAAAA-AATAATATAAAG
1 ATTTCAAAAATGCCTCTTAAATCACTAAAACTAAAAAACAATAATATAAAG
* * *
1204477 ATTTCAAAAATGCCTCTTAAGTCCCTAAAACTAAAAAACAATAGTATA
1 ATTTCAAAAATGCCTCTTAAATCACTAAAACTAAAAAACAATAATATA
1204525 GATAGATGGA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
50 33 0.80
51 8 0.20
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.29
Consensus pattern (51 bp):
ATTTCAAAAATGCCTCTTAAATCACTAAAACTAAAAAACAATAATATAAAG
Found at i:1212525 original size:8 final size:8
Alignment explanation
Indices: 1212490--1212521 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
1212480 ATTTTCTTTG
1212490 AAAAAAAT
1 AAAAAAAT
1212498 AAAAAAAT
1 AAAAAAAT
1212506 AAAAAAAT
1 AAAAAAAT
1212514 AAGAAAAA
1 AA-AAAAA
1212522 AAGAGAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.78
9 5 0.22
ACGTcount: A:0.88, C:0.00, G:0.03, T:0.09
Consensus pattern (8 bp):
AAAAAAAT
Found at i:1212545 original size:13 final size:13
Alignment explanation
Indices: 1212520--1212556 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
1212510 AAATAAGAAA
1212520 AAAAGAGAAAATTG
1 AAAAGA-AAAATTG
1212534 AAAAGAAAAATTG
1 AAAAGAAAAATTG
1212547 AAAAGAAAAA
1 AAAAGAAAAA
1212557 AAAATTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 17 0.74
14 6 0.26
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.11
Consensus pattern (13 bp):
AAAAGAAAAATTG
Found at i:1214859 original size:3 final size:3
Alignment explanation
Indices: 1214846--1214896 Score: 68
Period size: 3 Copynumber: 16.7 Consensus size: 3
1214836 TCATAGGCTT
*
1214846 TTA TTA TTTA TTA TT- TGTT TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA -TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1214892 TTA TT
1 TTA TT
1214897 TAGTTTTAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
2 1 0.02
3 39 0.89
4 4 0.09
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:1217808 original size:19 final size:19
Alignment explanation
Indices: 1217784--1217849 Score: 81
Period size: 19 Copynumber: 3.8 Consensus size: 19
1217774 AATTCAACAA
1217784 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1217803 TTTGTATCGAT--ATAA--
1 TTTGTATCGATACATAAGT
1217818 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1217835 ATTGTATCGATACAT
1 TTTGTATCGATACAT
1217850 TTTTCTGTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
13 9 0.22
15 4 0.10
17 4 0.10
19 24 0.59
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1217827 original size:32 final size:32
Alignment explanation
Indices: 1217786--1217846 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
1217776 TTCAACAATT
*
1217786 TGTATCGATACATAAGTTTTGTATCGATATAA
1 TGTATCGATACATAAGTATTGTATCGATATAA
1217818 TGTATCGATACATAAGTATTGTATCGATA
1 TGTATCGATACATAAGTATTGTATCGATA
1217847 CATTTTTCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.39
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATATAA
Found at i:1217874 original size:52 final size:53
Alignment explanation
Indices: 1217805--1217904 Score: 141
Period size: 52 Copynumber: 1.9 Consensus size: 53
1217795 ACATAAGTTT
*
1217805 TGTATCGATATAATGTATCGATACATA-AGT-ATTGTATCGATACATTTTTCTG
1 TGTATCGATACAATGTATCGATACATAGA-TCATTGTATCGATACATTTTTCTG
* * *
1217857 TGTATCGATACATTGTATCGATACATGGATCTTTGTATCGATACATTT
1 TGTATCGATACAATGTATCGATACATAGATCATTGTATCGATACATTT
1217905 GGAAATTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
52 25 0.60
53 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (53 bp):
TGTATCGATACAATGTATCGATACATAGATCATTGTATCGATACATTTTTCTG
Found at i:1217875 original size:13 final size:13
Alignment explanation
Indices: 1217857--1217882 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1217847 CATTTTTCTG
1217857 TGTATCGATACAT
1 TGTATCGATACAT
1217870 TGTATCGATACAT
1 TGTATCGATACAT
1217883 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1217877 original size:33 final size:33
Alignment explanation
Indices: 1217835--1217903 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
1217825 ATACATAAGT
***
1217835 ATTGTATCGATACATTTTTCTGTGTATCGATAC
1 ATTGTATCGATACATGGATCTGTGTATCGATAC
*
1217868 ATTGTATCGATACATGGATCTTTGTATCGATAC
1 ATTGTATCGATACATGGATCTGTGTATCGATAC
1217901 ATT
1 ATT
1217904 TGGAAATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.43
Consensus pattern (33 bp):
ATTGTATCGATACATGGATCTGTGTATCGATAC
Found at i:1220413 original size:28 final size:27
Alignment explanation
Indices: 1220339--1220415 Score: 102
Period size: 27 Copynumber: 2.8 Consensus size: 27
1220329 CATCAATTTT
*
1220339 TCATCGGGGATACTCCAACCCCGTTAA
1 TCATCAGGGATACTCCAACCCCGTTAA
1220366 TCATCAGGGATACTCCAACCCCGTT-A
1 TCATCAGGGATACTCCAACCCCGTTAA
**
1220392 TTTTCGAGAGGATACTCCAACCCC
1 TCATC-AG-GGATACTCCAACCCC
1220416 CGGCTTTATT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 4 0.09
27 26 0.58
28 15 0.33
ACGTcount: A:0.26, C:0.34, G:0.17, T:0.23
Consensus pattern (27 bp):
TCATCAGGGATACTCCAACCCCGTTAA
Found at i:1226781 original size:55 final size:55
Alignment explanation
Indices: 1226670--1227431 Score: 949
Period size: 55 Copynumber: 13.3 Consensus size: 55
1226660 AGCCCTTCTC
1226670 AGTCCTCAAAGAGCAGGATGCCTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT
1 AGTCCTCAAAGAGCAGGA---C-TC-C-TTTTAAAGCCCACACAAGTTGGTGGCACTTCCT
*
1226731 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT
1 AGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT
*
1226786 AGTCCTCAAAGAGTAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT
1 AGTCCTCAAAGAGCAGGA------CTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT
* *
1226847 AGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT
1226902 AGTCCTCAAAGAGCAGGACGCCTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT
1 AGTCCTCAAAGAGCAGGA---C-TC-C-TTTTAAAGCCCACACAAGTTGGTGGCACTTCCT
* * *
1226963 AGT-CTCAAAGAGCAGGACGCCTTTTAAAGCCCATACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT
1227017 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT
1 AGTCCTCAAAGAGCAGGA------CTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT
* * *
1227078 AGTCCTCAAAGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT
1227133 AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT
1 AGTCCTCAAAGAGCAGGA------CTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT
* *
1227194 AGTCCTCAAAGAGTAGGA-TGCCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC-
1 AGTCCTCAAAGAGCAGGACT-CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCT
* * * *
1227249 AGTCCTCAAAGAGTAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC-
1 AGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCT
* * * *
1227304 AGTCCCCAAAGAGCAAGACTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC-
1 AGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCT
* * * * **
1227359 AGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACGAGTTGATGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT
1227414 AGTCCTCAAAGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
1227432 TACACTTTAT
Statistics
Matches: 628, Mismatches: 44, Indels: 64
0.85 0.06 0.09
Matches are distributed among these distances:
54 37 0.06
55 356 0.57
56 6 0.01
57 2 0.00
58 2 0.00
59 1 0.00
60 15 0.02
61 209 0.33
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCT
Found at i:1226874 original size:116 final size:116
Alignment explanation
Indices: 1226664--1227431 Score: 1177
Period size: 116 Copynumber: 6.7 Consensus size: 116
1226654 TCTTTTAGCC
* * *
1226664 CTTCTCAGTCCTCAAAGAGCAGGATGCCTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTC
1 CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
*
1226729 CTAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA
66 CTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
1226780 CTTCCTAGTCCTCAAAGAGTAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
1 CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
1226845 CTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
66 CTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
1226896 CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCTTTTTAAAGCCCACACAAGTTGGTGGCACTTC
1 CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
*
1226961 CTAGT-CTCAAAGAGCAGGACGCCTTTTAAAGCCCATACAAGTTGGTGGCA
66 CTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1227011 CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
1 CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
*
1227076 CTAGTCCTCAAAGAGCAGGACGCCTCTTAAAGCCCACACAAGTTGGTGGCA
66 CTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1227127 CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
1 CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
* *
1227192 CTAGTCCTCAAAGAGTAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA
66 CTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
1227243 TTTTCCAGTCCTCAAAGAGTAGGAC-AC--CT-C--TTAAAGCCCACACAAGTTGGTGGCACCTT
1 CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTT
* * * * *
1227302 TC-AGTCCCCAAAGAGCAAGACTCCTTTCAAAGCCCACACAAGTTGGTGGCA
65 CCTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
1227353 TTTTCCAGTCCTCAAAGAGCAGGACACCTT-T-C----AAAGCCCACACGAGTTGATGGCACTTT
1 CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
*
1227412 TTAGTCCTCAAAGAGCAGGA
66 CTAGTCCTCAAAGAGCAGGA
1227432 TACACTTTAT
Statistics
Matches: 612, Mismatches: 34, Indels: 18
0.92 0.05 0.03
Matches are distributed among these distances:
109 4 0.01
110 129 0.21
111 5 0.01
112 3 0.00
113 2 0.00
115 114 0.19
116 355 0.58
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (116 bp):
CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
CTAGTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:1228212 original size:13 final size:13
Alignment explanation
Indices: 1228194--1228218 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1228184 TTCAACAATT
1228194 TGTATCGATACAA
1 TGTATCGATACAA
1228207 TGTATCGATACA
1 TGTATCGATACA
1228219 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1230968 original size:78 final size:77
Alignment explanation
Indices: 1230784--1231064 Score: 276
Period size: 78 Copynumber: 3.6 Consensus size: 77
1230774 TTAATCATCG
* ** * * * * *
1230784 GGGATACTCCAATCCTGTTATTTTCTAAGGGATACTCCAACCCCCGGCTTTATTTCTAAAAT-AT
1 GGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAA-CCCCGACTTTTTTTCT--AATCAT
** * *
1230848 TAATTTCTCATCATCG
63 CGATTTCTCA-CAACC
* **
1230864 GGGATACTCTAACCCCATTACCTCCGAGGGGATACTCCAACCCCGACGTTTTTTTCTAATCATCG
1 GGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCGAC-TTTTTTTCTAATCATCG
1230929 ATTTCTCACAACC
65 ATTTCTCACAACC
* *
1230942 GGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAATCCCGATTTTTTTTCTAATCATCGA
1 GGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCGACTTTTTTTCTAATCATCGA
*
1231007 TTTCTTACAACC
66 TTTCTCACAACC
* ** * * * *
1231019 GGGGATACTCCAGCCCTGTCATTTTCAAGGGGACACTCCAACCCCG
1 -GGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCG
1231065 TTATTATCTT
Statistics
Matches: 169, Mismatches: 29, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
77 29 0.17
78 85 0.50
79 16 0.09
80 39 0.23
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.31
Consensus pattern (77 bp):
GGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCGACTTTTTTTCTAATCATCGA
TTTCTCACAACC
Found at i:1236910 original size:28 final size:30
Alignment explanation
Indices: 1236854--1236930 Score: 90
Period size: 28 Copynumber: 2.7 Consensus size: 30
1236844 GGAATAAAGC
**
1236854 CGGGGTTGGAGTATCCCC--TCGTAGGTAA
1 CGGGGTTGGAGTATCCCCGATCGTAAATAA
1236882 CGGGGTTGGAGTATCCCCGAT-G-AAATAA
1 CGGGGTTGGAGTATCCCCGATCGTAAATAA
* *
1236910 CGAGGTTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
1236931 TGTGAAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
28 41 0.95
29 1 0.02
30 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.34, T:0.25
Consensus pattern (30 bp):
CGGGGTTGGAGTATCCCCGATCGTAAATAA
Found at i:1237046 original size:52 final size:53
Alignment explanation
Indices: 1236913--1237133 Score: 181
Period size: 52 Copynumber: 4.3 Consensus size: 53
1236903 GAAATAACGA
* * * * * *
1236913 GGTTGGAGTATCCTCGATTGTGAAAAAATTGGTGTTTTTGGAAATAAAA-TCGG
1 GGTTGGAGTATCCCCGATTATGGAAAAATTAGTGATTTTGAAAATAAAACT-GG
* * *
1236966 AGTTGGAGTATCCCCGATTAAAGG-AAAATTGGT-ATTTTGAAAATAAAACTGG
1 GGTTGGAGTATCCCCGATT-ATGGAAAAATTAGTGATTTTGAAAATAAAACTGG
* * * * *
1237018 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGAATTAG-CAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGGAAAAATTAGTGATTTTGAAAATAAAACTGG
* * * * *
1237070 GGTTGGAGTA-CCCC-ATTAT-GAGAAATCAAT-ATTTT-AAGAATAAAGCAGG
1 GGTTGGAGTATCCCCGATTATGGAAAAATTAGTGATTTTGAA-AATAAAACTGG
1237119 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1237134 TAGGAAATAA
Statistics
Matches: 137, Mismatches: 24, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
48 3 0.02
49 27 0.20
50 8 0.06
51 6 0.04
52 61 0.45
53 31 0.23
54 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.29
Consensus pattern (53 bp):
GGTTGGAGTATCCCCGATTATGGAAAAATTAGTGATTTTGAAAATAAAACTGG
Done.