Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002890.1 Hibiscus syriacus cultivar Beakdansim tig00005974_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 5046466
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 21
Found at i:1040442 original size:18 final size:17
Alignment explanation
Indices: 1040419--1040465 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
1040409 AGAATTATCT
*
1040419 AAAAATAAAATAAAAATA
1 AAAAATAAAAT-AAAAGA
*
1040437 AAAAATAAAAGTAAAGGA
1 AAAAATAAAA-TAAAAGA
1040455 AAAAATAAAAT
1 AAAAATAAAAT
1040466 TATTATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 1 0.04
18 24 0.92
19 1 0.04
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (17 bp):
AAAAATAAAATAAAAGA
Found at i:1048214 original size:134 final size:134
Alignment explanation
Indices: 1048010--1048331 Score: 441
Period size: 134 Copynumber: 2.4 Consensus size: 134
1048000 GCAAATCGAA
* * * *
1048010 CTCGATTCAATCTTCCCTAAAGAAAAAGTGGAATGAATAAACATTTCCAAATCTGATTTTCCCTT
1 CTCGATTCAATCTTCCCTGAAG-AAAAGTGGAATGAATCAACATTTCCAAATCTGAATTTCCCCT
* * *
1048075 CAGAAGCAACGAAACATATC-CGTCTTTTTCCATATTTGATCTTCCCGGAGGAATTGTGGAACAA
65 CAGAAGCAACGAAACATATCGC-ACTTTTTCCAGATTTGATCTTCCCGGAGGAATAGTGGAACAA
*
1048139 GTCTTC
129 GTCTGC
* * *
1048145 CTCGATTCAATCTTCACTGAAGAAAAGTGGAATGAATCAATATTTCCAGATCT-AATTTCCCCTC
1 CTCGATTCAATCTTCCCTGAAGAAAAGTGGAATGAATCAACATTTCCAAATCTGAATTTCCCCTC
* * * *
1048209 AAGAAGCAGCGGAACATATCGCACTTTTTTCAGATTTGATCTTCCCTGAGGAATAGTGGAACAAG
66 -AGAAGCAACGAAACATATCGCACTTTTTCCAGATTTGATCTTCCCGGAGGAATAGTGGAACAAG
1048274 TCTGC
130 TCTGC
** *
1048279 CTCGATTCAATCTTCCCTGAAGAAAAACGGAATGAATCAACATTTCCATATCT
1 CTCGATTCAATCTTCCCTGAAGAAAAGTGGAATGAATCAACATTTCCAAATCT
1048332 CTTTTCATAC
Statistics
Matches: 165, Mismatches: 20, Indels: 5
0.87 0.11 0.03
Matches are distributed among these distances:
133 9 0.05
134 135 0.82
135 21 0.13
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (134 bp):
CTCGATTCAATCTTCCCTGAAGAAAAGTGGAATGAATCAACATTTCCAAATCTGAATTTCCCCTC
AGAAGCAACGAAACATATCGCACTTTTTCCAGATTTGATCTTCCCGGAGGAATAGTGGAACAAGT
CTGC
Found at i:1048532 original size:3 final size:3
Alignment explanation
Indices: 1048524--1048558 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
1048514 CCCGATGTTT
1048524 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1048559 GTTGTTGTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1048563 original size:3 final size:3
Alignment explanation
Indices: 1048557--1048591 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
1048547 ATTATTATTA
*
1048557 TTG TTG TTG TTA TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1048592 ATTATCATAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.03, C:0.00, G:0.29, T:0.69
Consensus pattern (3 bp):
TTG
Found at i:1048569 original size:12 final size:12
Alignment explanation
Indices: 1048554--1048594 Score: 73
Period size: 12 Copynumber: 3.4 Consensus size: 12
1048544 ATTATTATTA
1048554 TTATTGTTGTTG
1 TTATTGTTGTTG
1048566 TTATTGTTGTTG
1 TTATTGTTGTTG
*
1048578 TTGTTGTTGTTG
1 TTATTGTTGTTG
1048590 TTATT
1 TTATT
1048595 ATCATACATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.07, C:0.00, G:0.24, T:0.68
Consensus pattern (12 bp):
TTATTGTTGTTG
Found at i:1050964 original size:131 final size:130
Alignment explanation
Indices: 1050600--1050965 Score: 495
Period size: 130 Copynumber: 2.8 Consensus size: 130
1050590 ATCGATATTG
* * * *
1050600 AAAATAGTTATATCTCTTCATTTCAATCGGAGTAATAAATGACTTCTTTAAGGCATGAGAGGTCA
1 AAAATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGACTACTTTAAGGCATGAGAGGTCA
* * * * *
1050665 TTTATTCTCGATTGAAAATAATTAGATATTATTGTTTTCTCTAGAATCAATATTTATTTTAAGAC
66 TTTATTCTCAATTGGAAATAATTAGATATTATAGTTTTCACTAGAATCAATATTAATTTTAAGAC
* * *
1050730 AAAATAGTAATACCT-TATCATTTCGGTTGGAGTAATAAATGACTACTTTAAGGCATGAGAGGTA
1 AAAATAGTAATATCTCT-TCATTTCGATTGGAGTAATAAATGACTACTTTAAGGCATGAGAGGTC
* * *
1050794 ATTTATTCTCAATTGGAAATTATTACATACTATCA-TTTTCACT-GTAATCAATATTGAATTTTA
65 ATTTATTCTCAATTGGAAATAATTAGATATTAT-AGTTTTCACTAG-AATCAATATT-AATTTTA
1050857 AGAC
127 AGAC
* * * *
1050861 GAAATAGTGATATCTCTTCATTTCGATTAGAGTAATAAATGACTGCTTTAAGGCATGAGAGGTCA
1 AAAATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGACTACTTTAAGGCATGAGAGGTCA
*
1050926 TTTATTCTCAATTGGAAATAATTAGATGTTATAGTTTTCA
66 TTTATTCTCAATTGGAAATAATTAGATATTATAGTTTTCA
1050966 TTCTAAAATT
Statistics
Matches: 204, Mismatches: 26, Indels: 11
0.85 0.11 0.05
Matches are distributed among these distances:
129 2 0.01
130 101 0.50
131 100 0.49
132 1 0.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (130 bp):
AAAATAGTAATATCTCTTCATTTCGATTGGAGTAATAAATGACTACTTTAAGGCATGAGAGGTCA
TTTATTCTCAATTGGAAATAATTAGATATTATAGTTTTCACTAGAATCAATATTAATTTTAAGAC
Found at i:1053297 original size:56 final size:56
Alignment explanation
Indices: 1053185--1054007 Score: 1346
Period size: 56 Copynumber: 14.7 Consensus size: 56
1053175 CTTGATACCA
* * *
1053185 ATACGGAAATTTATACACTTAGTATGAATTTCCT-AGTTTTGA-ACATATAGTGCCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTT-ACACATATAGTGCCC
** *
1053240 ATACATAAATTCATCCACTTGGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
*
1053296 ATACGGAAATTCATCTACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
1053352 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
*
1053408 ATACGAAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
* *
1053464 ATACGAAAATTCATCCACTTAGTATGACTTTCTTAAGTTTTACACATATAGTGCCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
** * *
1053520 ATACAAAAATTCATCCATTTAGTATGAATTTCTTAAGTTTTACACATATAGTTCCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
* *
1053576 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACGCATATAGTACCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
* * *
1053632 GTACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACGCATATAGTACCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
* * * *
1053688 GTACGGAAATTTATCCACTTAGTATGAATTTCCT-AGTTTTGCACATATAGTGCCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
** * *
1053743 ATACATAAATTCATCCACTTGGTATGAATTTCTTAAGTTTTACATATATAGTGCCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
1053799 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
1053855 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
* *
1053911 ATACGGAAATTCATCCACTTAGTATAAATTTCTTAAGTTTTACACATATAATGCCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
*
1053967 ATACAGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTT
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTT
1054008 TGCACACTTA
Statistics
Matches: 721, Mismatches: 44, Indels: 5
0.94 0.06 0.01
Matches are distributed among these distances:
55 75 0.10
56 646 0.90
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (56 bp):
ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
Found at i:1054321 original size:19 final size:19
Alignment explanation
Indices: 1054251--1054322 Score: 65
Period size: 19 Copynumber: 3.6 Consensus size: 19
1054241 TGGCTCCTCA
*
1054251 GTATCGATACCCCTACCATG
1 GTATCGATA-CCCTACTATG
*
1054271 GTATCGATACTACCATAATATG
1 GTATCGATAC--CC-TACTATG
*
1054293 GTA-CTTATACCCTACTATG
1 GTATC-GATACCCTACTATG
1054312 GTATCGATACC
1 GTATCGATACC
1054323 ATTTTTACAT
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
19 15 0.36
20 12 0.29
21 3 0.07
22 12 0.29
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (19 bp):
GTATCGATACCCTACTATG
Found at i:1054802 original size:22 final size:21
Alignment explanation
Indices: 1054776--1054816 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
1054766 GGCCAAGAAA
1054776 TTGATGGTCTTGATGGATGATG
1 TTGATGGTCTTGAT-GATGATG
*
1054798 TTGATGGTGTTGATGATGA
1 TTGATGGTCTTGATGATGA
1054817 AATGGAGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.20, C:0.02, G:0.37, T:0.41
Consensus pattern (21 bp):
TTGATGGTCTTGATGATGATG
Found at i:1056089 original size:2 final size:2
Alignment explanation
Indices: 1056072--1056105 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
1056062 TCATAATAAC
*
1056072 TA TA GA TA TA -A TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1056106 GATAATGACT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1058985 original size:30 final size:29
Alignment explanation
Indices: 1058950--1059017 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 29
1058940 TGGCTTTGCT
*
1058950 TTCTTTTTTGAATTTCTTCTT-TTTCTTTTC
1 TTCTTTTTTGAATTT-TTCTTCTTT-TTGTC
*
1058980 TTCTTTTCTGAATTTTTCTTCTTTTTGTC
1 TTCTTTTTTGAATTTTTCTTCTTTTTGTC
1059009 TT-TTTTTTG
1 TTCTTTTTTG
1059018 TACTCCAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.18
29 11 0.32
30 17 0.50
ACGTcount: A:0.06, C:0.15, G:0.06, T:0.74
Consensus pattern (29 bp):
TTCTTTTTTGAATTTTTCTTCTTTTTGTC
Found at i:1059343 original size:22 final size:21
Alignment explanation
Indices: 1059317--1059357 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
1059307 GGCTGCGGAA
1059317 TTGATGGTCTTGATGGATGATG
1 TTGATGGTCTTGAT-GATGATG
*
1059339 TTGATGGTGTTGATGATGA
1 TTGATGGTCTTGATGATGA
1059358 AATGGAGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.20, C:0.02, G:0.37, T:0.41
Consensus pattern (21 bp):
TTGATGGTCTTGATGATGATG
Found at i:1060618 original size:23 final size:23
Alignment explanation
Indices: 1060591--1060635 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
1060581 TAATTATAGA
*
1060591 TATAATAT-ATATATGATAATAAC
1 TATAATATAACATATGA-AATAAC
1060614 TATAATATAACATATGAAATAA
1 TATAATATAACATATGAAATAA
1060636 GCAAAGTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (23 bp):
TATAATATAACATATGAAATAAC
Found at i:1066533 original size:56 final size:56
Alignment explanation
Indices: 1066412--1066740 Score: 475
Period size: 56 Copynumber: 5.9 Consensus size: 56
1066402 CTTGCTACCA
* * * * * *
1066412 ATACAAAAATTTATACACTTAGTATGAATTTCCT-AGTTTTGCACATATAGTGTCC
1 ATACAGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
* * * * * * *
1066467 ATACATAAATTTATCCACTTGGTATGAATTTTTTAAGTTTTAGAGATATAGTACCC
1 ATACAGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
*
1066523 ATACAGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATACTGCCC
1 ATACAGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
*
1066579 ATAC-GAAAATTCATCCACTTATTATGAATTTCTTAAGTTTTACACATATAGTGCCC
1 ATACAG-AAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
*
1066635 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGT-CCTC
1 ATACAGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCC-C
1066691 ATACAGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATA
1 ATACAGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATA
1066741 ATGAATTTCC
Statistics
Matches: 248, Mismatches: 22, Indels: 7
0.90 0.08 0.03
Matches are distributed among these distances:
55 32 0.13
56 215 0.87
57 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (56 bp):
ATACAGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATAGTGCCC
Found at i:1066762 original size:26 final size:27
Alignment explanation
Indices: 1066714--1066766 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
1066704 TCCACTTAGT
*
1066714 ATGAATTTCTTAAGTTTTACACATATA
1 ATGAATTTCCTAAGTTTTACACATATA
*
1066741 ATGAATTTCCT-AGTTTTGCACATATA
1 ATGAATTTCCTAAGTTTTACACATATA
1066767 GTGTCCATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.43
Consensus pattern (27 bp):
ATGAATTTCCTAAGTTTTACACATATA
Found at i:1066807 original size:82 final size:83
Alignment explanation
Indices: 1066658--1066822 Score: 235
Period size: 82 Copynumber: 2.0 Consensus size: 83
1066648 TCCACTTAGT
* *
1066658 ATGAATTTCTTAAGTTTTACACATATAGTCCTCATACAGAAATTCATCCACTTAGTATGAATTTC
1 ATGAATTTCCTAAGTTTTACACATATAGTCCTCATACAGAAATCCATCCACTTAGTATGAATTTC
1066723 TTAAGTTTTACACATATA
66 TTAAGTTTTACACATATA
* * * ** *
1066741 ATGAATTTCCT-AGTTTTGCACATATAGT-GTCCATACATAAATCCATCCGGTTGGTATGAATTT
1 ATGAATTTCCTAAGTTTTACACATATAGTCCT-CATACAGAAATCCATCCACTTAGTATGAATTT
1066804 CTTAAGTTTTACACATATA
65 CTTAAGTTTTACACATATA
1066823 GTACCCATAC
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
81 1 0.01
82 62 0.85
83 10 0.14
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (83 bp):
ATGAATTTCCTAAGTTTTACACATATAGTCCTCATACAGAAATCCATCCACTTAGTATGAATTTC
TTAAGTTTTACACATATA
Found at i:1066831 original size:56 final size:56
Alignment explanation
Indices: 1066741--1067255 Score: 747
Period size: 56 Copynumber: 9.3 Consensus size: 56
1066731 TACACATATA
* * * ** * ** *
1066741 ATGAATTTCCT-AGTTTTGCACATATAGTGTCCATACATAAATCCATCCGGTTGGT
1 ATGAATTTCTTAAGTTTTACACATATAGTGCCCATACGGAAATTCATCCACTTAGT
*
1066796 ATGAATTTCTTAAGTTTTACACATATAGTACCCATACGGAAATTCATCCACTTAGT
1 ATGAATTTCTTAAGTTTTACACATATAGTGCCCATACGGAAATTCATCCACTTAGT
* *
1066852 ATGAATATCTTAAGTTTTACACATATAGTGCCCATACGAAAATTCATCCACTTAGT
1 ATGAATTTCTTAAGTTTTACACATATAGTGCCCATACGGAAATTCATCCACTTAGT
* * *
1066908 ATGAATTTCTTAAGTTTTACACATAGAGTGCCCATATGGAAATTCATCTACTTAGT
1 ATGAATTTCTTAAGTTTTACACATATAGTGCCCATACGGAAATTCATCCACTTAGT
* * * *
1066964 ATGAATTTC------TTTACACGTATAGTGCTCATACGAAAATTCATCCACTTAAT
1 ATGAATTTCTTAAGTTTTACACATATAGTGCCCATACGGAAATTCATCCACTTAGT
1067014 ATGAATTTCTTAAGTTTTACACATATAGTGCCCATACGGAAATTCATCCACTTAGT
1 ATGAATTTCTTAAGTTTTACACATATAGTGCCCATACGGAAATTCATCCACTTAGT
* *
1067070 ATGAATTTCTTAAATTTTACACATATAGTGCTCATACGGAAATTCATCCACTTAGT
1 ATGAATTTCTTAAGTTTTACACATATAGTGCCCATACGGAAATTCATCCACTTAGT
*
1067126 ATGAATTTCTTAAGTTTTACACATATAATGCCCATACGGAAATTCATCCACTTAGT
1 ATGAATTTCTTAAGTTTTACACATATAGTGCCCATACGGAAATTCATCCACTTAGT
* * * *
1067182 GTGAATTTATTAAGTTTTACACATATAGTGCCTATACTGAAATTCATCCACTTAGT
1 ATGAATTTCTTAAGTTTTACACATATAGTGCCCATACGGAAATTCATCCACTTAGT
1067238 ATGAATTTCTTAAGTTTT
1 ATGAATTTCTTAAGTTTT
1067256 TGCACACTTA
Statistics
Matches: 412, Mismatches: 41, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
50 43 0.10
55 10 0.02
56 359 0.87
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (56 bp):
ATGAATTTCTTAAGTTTTACACATATAGTGCCCATACGGAAATTCATCCACTTAGT
Found at i:1066863 original size:138 final size:139
Alignment explanation
Indices: 1066602--1066878 Score: 432
Period size: 138 Copynumber: 2.0 Consensus size: 139
1066592 TCCACTTATT
* * *
1066602 ATGAATTTCTTAAGTTTTACACATATAGTGCCCATACGGAAATTCATCCACTTAGTATGAATTTC
1 ATGAATTTCCTAAGTTTTACACATATAGTGCCCATACAGAAATCCATCCACTTAGTATGAATTTC
*
1066667 TTAAGTTTTACACATATAGTCCTCATACAGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTT
66 TTAAGTTTTACACATATAGTCCTCATACAGAAATTCATCCACTTAGTATGAATATCTTAAGTTTT
1066732 ACACATATA
131 ACACATATA
* * * ** *
1066741 ATGAATTTCCT-AGTTTTGCACATATAGTGTCCATACATAAATCCATCCGGTTGGTATGAATTTC
1 ATGAATTTCCTAAGTTTTACACATATAGTGCCCATACAGAAATCCATCCACTTAGTATGAATTTC
*
1066805 TTAAGTTTTACACATATAGTACC-CATACGGAAATTCATCCACTTAGTATGAATATCTTAAGTTT
66 TTAAGTTTTACACATATAGT-CCTCATACAGAAATTCATCCACTTAGTATGAATATCTTAAGTTT
1066869 TACACATATA
130 TACACATATA
1066879 GTGCCCATAC
Statistics
Matches: 126, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
138 114 0.90
139 12 0.10
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (139 bp):
ATGAATTTCCTAAGTTTTACACATATAGTGCCCATACAGAAATCCATCCACTTAGTATGAATTTC
TTAAGTTTTACACATATAGTCCTCATACAGAAATTCATCCACTTAGTATGAATATCTTAAGTTTT
ACACATATA
Found at i:1066897 original size:194 final size:195
Alignment explanation
Indices: 1066546--1066932 Score: 620
Period size: 194 Copynumber: 2.0 Consensus size: 195
1066536 TCCACTTAGT
* * *
1066546 ATGAATTTCTTAAGTTTTACACATATACTGCCCATACGAAAATTCATCCACTTATTATGAATTTC
1 ATGAATTTCCTAAGTTTTACACATATACTGCCCATACGAAAATCCATCCACTTAGTATGAATTTC
* *
1066611 TTAAGTTTTACACATATAGTGCCCATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTT
66 TTAAGTTTTACACATATAGTACCCATACGGAAATTCATCCACTTAGTATGAATATCTTAAGTTTT
1066676 ACACATATAGTCCTCATACAGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATA
131 ACACATATAGTCCTCATACAGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATA
* * * ** *
1066741 ATGAATTTCCT-AGTTTTGCACATATAGTGTCCATAC-ATAAATCCATCCGGTTGGTATGAATTT
1 ATGAATTTCCTAAGTTTTACACATATACTGCCCATACGA-AAATCCATCCACTTAGTATGAATTT
1066804 CTTAAGTTTTACACATATAGTACCCATACGGAAATTCATCCACTTAGTATGAATATCTTAAGTTT
65 CTTAAGTTTTACACATATAGTACCCATACGGAAATTCATCCACTTAGTATGAATATCTTAAGTTT
1066869 TACACATATAGTGCC-CATAC-GAAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACAT
130 TACACATATAGT-CCTCATACAG-AAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACAT
1066932 A
193 A
1066933 GAGTGCCCAT
Statistics
Matches: 178, Mismatches: 11, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
193 2 0.01
194 164 0.92
195 12 0.07
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (195 bp):
ATGAATTTCCTAAGTTTTACACATATACTGCCCATACGAAAATCCATCCACTTAGTATGAATTTC
TTAAGTTTTACACATATAGTACCCATACGGAAATTCATCCACTTAGTATGAATATCTTAAGTTTT
ACACATATAGTCCTCATACAGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATATA
Found at i:1067141 original size:218 final size:221
Alignment explanation
Indices: 1066795--1067255 Score: 725
Period size: 218 Copynumber: 2.1 Consensus size: 221
1066785 ATCCGGTTGG
1066795 TATGAATTTCTTAAGTTTTACACATATAGTACCCATACGGAAATTCATCCACTTAGTATGAATAT
1 TATGAATTTCTTAAGTTTTACACATATAGTACCCATACGGAAATTCATCCACTTAGTATGAATAT
*
1066860 CTTAAGTTTTACACATATAGTGCCCATACGAAAATTCATCCACTTAGTATGAATTTCTTAAGTTT
66 CTTAAATTTTACACATATAGTGCCCATACGAAAATTCATCCACTTAGTATGAATTTCTTAAGTTT
* * * *
1066925 TACACATAGAGTGCCCATATGGAAATTCATCTACTTAGTATGAA-T-TT-CTTTACACGTATAGT
131 TACACATAGAATGCCCATACGGAAATTCATCCACTTAGTATGAATTATTACTTTACACATATAGT
1066987 G-CTCATAC-GAAAATTCATCCACTTAA
196 GCCT-ATACTG-AAATTCATCCACTTAA
* *
1067013 TATGAATTTCTTAAGTTTTACACATATAGTGCCCATACGGAAATTCATCCACTTAGTATGAATTT
1 TATGAATTTCTTAAGTTTTACACATATAGTACCCATACGGAAATTCATCCACTTAGTATGAATAT
* *
1067078 CTTAAATTTTACACATATAGTGCTCATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTT
66 CTTAAATTTTACACATATAGTGCCCATACGAAAATTCATCCACTTAGTATGAATTTCTTAAGTTT
* * *
1067143 TACACATATAATGCCCATACGGAAATTCATCCACTTAGTGTGAATTTATTAAGTTTTACACATAT
131 TACACATAGAATGCCCATACGGAAATTCATCCACTTAGTATGAA-TTATT-A-CTTTACACATAT
*
1067208 AGTGCCTATACTGAAATTCATCCACTTAG
193 AGTGCCTATACTGAAATTCATCCACTTAA
1067237 TATGAATTTCTTAAGTTTT
1 TATGAATTTCTTAAGTTTT
1067256 TGCACACTTA
Statistics
Matches: 222, Mismatches: 13, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
218 164 0.74
220 1 0.00
221 2 0.01
224 52 0.23
225 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.37
Consensus pattern (221 bp):
TATGAATTTCTTAAGTTTTACACATATAGTACCCATACGGAAATTCATCCACTTAGTATGAATAT
CTTAAATTTTACACATATAGTGCCCATACGAAAATTCATCCACTTAGTATGAATTTCTTAAGTTT
TACACATAGAATGCCCATACGGAAATTCATCCACTTAGTATGAATTATTACTTTACACATATAGT
GCCTATACTGAAATTCATCCACTTAA
Found at i:1067248 original size:274 final size:273
Alignment explanation
Indices: 1066741--1067248 Score: 811
Period size: 274 Copynumber: 1.9 Consensus size: 273
1066731 TACACATATA
* * * ** *
1066741 ATGAATTTCCTAGTTTTGCACATATAGTGTCCATACATAAATCCATCCGGTTGGTATGAATTTCT
1 ATGAATTTCCTAGTTTTACACATATAGTGCCCATACAGAAATCCATCCACTTAGTATGAATTTCT
*
1066806 TAAGTTTTACACATATAGTACCCATACGGAAATTCATCCACTTAGTATGAATATCTTAAGTTTTA
66 TAAATTTTACACATATAGTACCCATACGGAAATTCATCCACTTAGTATGAATATCTTAAGTTTTA
* *
1066871 CACATATAGTGCCCATACGAAAATTCATCCACTTAGTATGAATTTCTTAAGTTTTACACATAGAG
131 CACATATAATGCCCATACGAAAATTCATCCACTTAGTATGAATTTATTAAGTTTTACACATAGAG
*
1066936 TGCCCATATGGAAATTCATCTACTTAGTATGAATTTCTTTACACGTATAGTGCTCATACGAAAAT
196 TGCCCATATGGAAATTCATCCACTTAGTATGAATTTCTTTACACGTATAGTGCTCATACGAAAAT
1067001 TCATCCACTTAAT
261 TCATCCACTTAAT
* * *
1067014 ATGAATTTCTTAAGTTTTACACATATAGTGCCCATACGGAAATTCATCCACTTAGTATGAATTTC
1 ATGAATTTCCT-AGTTTTACACATATAGTGCCCATACAGAAATCCATCCACTTAGTATGAATTTC
* * *
1067079 TTAAATTTTACACATATAGTGCTCATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTT
65 TTAAATTTTACACATATAGTACCCATACGGAAATTCATCCACTTAGTATGAATATCTTAAGTTTT
* * *
1067144 ACACATATAATGCCCATACGGAAATTCATCCACTTAGTGTGAATTTATTAAGTTTTACACATATA
130 ACACATATAATGCCCATACGAAAATTCATCCACTTAGTATGAATTTATTAAGTTTTACACATAGA
*
1067209 GTGCCTATACT-GAAATTCATCCACTTAGTATGAATTTCTT
195 GTGCCCATA-TGGAAATTCATCCACTTAGTATGAATTTCTT
1067249 AAGTTTTTGC
Statistics
Matches: 213, Mismatches: 20, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
273 10 0.05
274 202 0.95
275 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (273 bp):
ATGAATTTCCTAGTTTTACACATATAGTGCCCATACAGAAATCCATCCACTTAGTATGAATTTCT
TAAATTTTACACATATAGTACCCATACGGAAATTCATCCACTTAGTATGAATATCTTAAGTTTTA
CACATATAATGCCCATACGAAAATTCATCCACTTAGTATGAATTTATTAAGTTTTACACATAGAG
TGCCCATATGGAAATTCATCCACTTAGTATGAATTTCTTTACACGTATAGTGCTCATACGAAAAT
TCATCCACTTAAT
Found at i:1067662 original size:19 final size:19
Alignment explanation
Indices: 1067593--1067664 Score: 83
Period size: 19 Copynumber: 3.6 Consensus size: 19
1067583 TGGCTCCTCA
*
1067593 GTATCGATACCCCTACCATG
1 GTATCGATA-CCCTACTATG
1067613 GTATCGATACTACCATACTATG
1 GTATCGATAC--CC-TACTATG
1067635 GTA-CTGATACCCTACTATG
1 GTATC-GATACCCTACTATG
1067654 GTATCGATACC
1 GTATCGATACC
1067665 ATTTTTGTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
19 17 0.37
20 12 0.26
21 3 0.07
22 14 0.30
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (19 bp):
GTATCGATACCCTACTATG
Found at i:1070644 original size:17 final size:17
Alignment explanation
Indices: 1070622--1070657 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
1070612 ATAATTAAAA
*
1070622 TTTTATTTAAATATTAT
1 TTTTATTTAAATAATAT
1070639 TTTTATTTAAATAATAT
1 TTTTATTTAAATAATAT
1070656 TT
1 TT
1070658 AAAATTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTTTATTTAAATAATAT
Found at i:1071482 original size:2 final size:2
Alignment explanation
Indices: 1071475--1071515 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1071465 AGTGAATTTC
1071475 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1071516 TTAAAATTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1072252 original size:23 final size:22
Alignment explanation
Indices: 1072226--1072285 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
1072216 ATTTTTTTGA
*
1072226 ATTTTTTTATTTTAAAATAATTT
1 ATTTTTTTATTTTAAAA-AATCT
**
1072249 ATTTTCATATATTTAAAAAATCT
1 ATTTTTTTAT-TTTAAAAAATCT
*
1072272 ACTTTTTTAATTTT
1 A-TTTTTTTATTTT
1072286 TTTTAGAATT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
23 16 0.55
24 13 0.45
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTTTTTTATTTTAAAAAATCT
Found at i:1084286 original size:45 final size:45
Alignment explanation
Indices: 1084236--1084326 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 45
1084226 CTACTAAAGA
* *
1084236 TGAAGGTGTTGGTTCTGGTCAACATA-TCACAGCTGAGAATGATGT
1 TGAAGGTATTGGTTCTGGTCAACA-AGTCACAGCTGAAAATGATGT
*
1084281 TGAAGGTATTGGTTCTGGTTAACAAGTCACAGCTGAAAATGATGT
1 TGAAGGTATTGGTTCTGGTCAACAAGTCACAGCTGAAAATGATGT
1084326 T
1 T
1084327 ATGGTTGAGC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
44 1 0.02
45 41 0.98
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (45 bp):
TGAAGGTATTGGTTCTGGTCAACAAGTCACAGCTGAAAATGATGT
Found at i:1086378 original size:18 final size:18
Alignment explanation
Indices: 1086357--1086393 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
1086347 ATTCTGGAAA
1086357 ACATGTTTATTCACTTTT
1 ACATGTTTATTCACTTTT
*
1086375 ACATGTTTATTTACTTTT
1 ACATGTTTATTCACTTTT
1086393 A
1 A
1086394 TTGAAATCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.14, G:0.05, T:0.57
Consensus pattern (18 bp):
ACATGTTTATTCACTTTT
Found at i:1086512 original size:19 final size:19
Alignment explanation
Indices: 1086475--1086522 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
1086465 TATAAATAAA
1086475 TATAATCTAATTTAATGAT
1 TATAATCTAATTTAATGAT
* *
1086494 TGTAATCTAA-TTATTTGAT
1 TATAATCTAATTTA-ATGAT
1086513 TATAAT-TAAT
1 TATAATCTAAT
1086523 AATATATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 6 0.25
19 18 0.75
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (19 bp):
TATAATCTAATTTAATGAT
Found at i:1089495 original size:204 final size:205
Alignment explanation
Indices: 1089137--1089549 Score: 632
Period size: 204 Copynumber: 2.0 Consensus size: 205
1089127 AAATGCATAT
* *
1089137 TTTACCCTATTTTATTTTTCCAATTTTTAATTTTTTATCATAAAAATAAAAAAAAATATTATACT
1 TTTACCCTATTTTATTTTACAAATTTTTAATTTTTTATCATAAAAAT-AAAAAAAATATTATACT
* * *
1089202 ATAGAAAAATTTAATTTGTAGGCGCTAGGTACCTGCCCCTCCTACCCTGGCCCAGGGTCGGCCCT
65 ATAGAAAAATTTAATTTGTAGGCCCTAGATACCTGCCCCTCCTACCCTAGCCCAGGGTCGGCCCT
* * *
1089267 AGTTGGCATCATAGTAGATCCTTCCATGGATGAACAAGTGGATCTACTGAGTGTATAAAACATGT
130 AGTTGGCATCATAGTAGATCCTTCCATAGATGAACAAGTGGATCTACTGAGTATACAAAACATGT
1089332 AACACCCTAAA
195 AACACCCTAAA
* *
1089343 TTTACCCTATTTTATTTTACAAATTTTTAATTTTTTATGATAAAAAT-AAAAAAATATTATATTA
1 TTTACCCTATTTTATTTTACAAATTTTTAATTTTTTATCATAAAAATAAAAAAAATATTATACTA
*** * *
1089407 TAGAAAAATTTAATTTGTAGGCCCTAGATGGGTGCCCCTCCTACCCTAGTCCAGGGTCGGCCTTA
66 TAGAAAAATTTAATTTGTAGGCCCTAGATACCTGCCCCTCCTACCCTAGCCCAGGGTCGGCCCTA
* * *
1089472 -TATGTCATCATAGTAGGTCCTTCCATAGATGAACAAGTGGATCTACTGAGTATACCAAACATGT
131 GT-TGGCATCATAGTAGATCCTTCCATAGATGAACAAGTGGATCTACTGAGTATACAAAACATGT
1089536 AACACCCTAAA
195 AACACCCTAAA
1089547 TTT
1 TTT
1089550 CAATATTCAA
Statistics
Matches: 188, Mismatches: 18, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
203 1 0.01
204 143 0.76
206 44 0.23
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (205 bp):
TTTACCCTATTTTATTTTACAAATTTTTAATTTTTTATCATAAAAATAAAAAAAATATTATACTA
TAGAAAAATTTAATTTGTAGGCCCTAGATACCTGCCCCTCCTACCCTAGCCCAGGGTCGGCCCTA
GTTGGCATCATAGTAGATCCTTCCATAGATGAACAAGTGGATCTACTGAGTATACAAAACATGTA
ACACCCTAAA
Found at i:1092079 original size:23 final size:23
Alignment explanation
Indices: 1092029--1092084 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
1092019 TTGAAAATAT
* * **
1092029 ATAAATGAACATGTTCGTGAATG
1 ATAAATGAACATATTCATGAACA
*
1092052 TTAAATGAACATATTCATGAACA
1 ATAAATGAACATATTCATGAACA
*
1092075 ATAAACGAAC
1 ATAAATGAAC
1092085 TTGTTCAAAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.46, C:0.12, G:0.14, T:0.27
Consensus pattern (23 bp):
ATAAATGAACATATTCATGAACA
Found at i:1092203 original size:24 final size:24
Alignment explanation
Indices: 1092149--1092205 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
1092139 AAGCTAAATG
* * * *
1092149 AACATGTTTGCGAATATTTAAGCG
1 AACATGTTCGCAAATATTTAAACC
*
1092173 AATATGTTCGCAAATATTTAAACC
1 AACATGTTCGCAAATATTTAAACC
1092197 AACATGTTC
1 AACATGTTC
1092206 ACTGATATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (24 bp):
AACATGTTCGCAAATATTTAAACC
Found at i:1093667 original size:17 final size:17
Alignment explanation
Indices: 1093645--1093683 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
1093635 TCGACTTGAC
1093645 CTCGATTGAAACTCGAA
1 CTCGATTGAAACTCGAA
1093662 CTCGATTGAAACTCGAA
1 CTCGATTGAAACTCGAA
1093679 CTCGA
1 CTCGA
1093684 GTTCAAACAT
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:0.26, G:0.18, T:0.23
Consensus pattern (17 bp):
CTCGATTGAAACTCGAA
Found at i:1111250 original size:11 final size:11
Alignment explanation
Indices: 1111234--1111263 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
1111224 TCAACTTTAA
1111234 CTTCATGCTAT
1 CTTCATGCTAT
1111245 CTTCATGCTAT
1 CTTCATGCTAT
1111256 CTTCATGC
1 CTTCATGC
1111264 GTATGAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.10, T:0.43
Consensus pattern (11 bp):
CTTCATGCTAT
Found at i:1112152 original size:114 final size:114
Alignment explanation
Indices: 1111917--1112145 Score: 440
Period size: 114 Copynumber: 2.0 Consensus size: 114
1111907 ATATTCACAA
1111917 TTCAATTTCTAAAATTATAAAAGTATTTTTTAAAAATTATAAATTTATGGATTTTTAATTCATAA
1 TTCAATTTCTAAAATTATAAAAGTATTTTTTAAAAATTATAAATTTATGGATTTTTAATTCATAA
*
1111982 ATTTATTTTATAATTATTTTTAATTTATTATAATTATATTCGTAAAATT
66 ATTTATTTTATAATTAGTTTTAATTTATTATAATTATATTCGTAAAATT
1112031 TTCAATTTCTAAAATTATAAAAGTATTTTTTAAAAATTATAAATTTATGGATTTTTAATTCATAA
1 TTCAATTTCTAAAATTATAAAAGTATTTTTTAAAAATTATAAATTTATGGATTTTTAATTCATAA
*
1112096 ATTTATTTTATCATTAGTTTTAATTTATTATAATTATATTCGTAAAATT
66 ATTTATTTTATAATTAGTTTTAATTTATTATAATTATATTCGTAAAATT
1112145 T
1 T
1112146 ATAATTTTTA
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 113 1.00
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (114 bp):
TTCAATTTCTAAAATTATAAAAGTATTTTTTAAAAATTATAAATTTATGGATTTTTAATTCATAA
ATTTATTTTATAATTAGTTTTAATTTATTATAATTATATTCGTAAAATT
Found at i:1112467 original size:27 final size:27
Alignment explanation
Indices: 1112414--1112468 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
1112404 CACATTAACC
* * *
1112414 TTTTAACGATATTTAATTGTAAGTGTT
1 TTTTAACGAAATTTAAGTGTAAATGTT
1112441 TTTTAACGAAATTTAAAGT-TAAATGTT
1 TTTTAACGAAATTT-AAGTGTAAATGTT
1112468 T
1 T
1112469 ATTTTATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 21 0.88
28 3 0.12
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.49
Consensus pattern (27 bp):
TTTTAACGAAATTTAAGTGTAAATGTT
Found at i:1113640 original size:21 final size:21
Alignment explanation
Indices: 1113614--1113660 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
1113604 GCAGGAAACA
1113614 ATTGATGACCAAGATGCATAG
1 ATTGATGACCAAGATGCATAG
1113635 ATTGATGACCAAGATGCATAG
1 ATTGATGACCAAGATGCATAG
1113656 ATTGA
1 ATTGA
1113661 AACTACAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (21 bp):
ATTGATGACCAAGATGCATAG
Found at i:1114056 original size:28 final size:27
Alignment explanation
Indices: 1114023--1114090 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
1114013 TAAGTTAGTG
* *
1114023 GTTAGTAGTTAGCGGTTAGCGGTTAAAT
1 GTTAGTAATTAACGGTTAG-GGTTAAAT
* * *
1114051 GTTAGTAATTAATGGTTAGTGTTAGAT
1 GTTAGTAATTAACGGTTAGGGTTAAAT
1114078 GTTAGTAATTAAC
1 GTTAGTAATTAAC
1114091 ATTTTGTGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 18 0.53
28 16 0.47
ACGTcount: A:0.29, C:0.04, G:0.26, T:0.40
Consensus pattern (27 bp):
GTTAGTAATTAACGGTTAGGGTTAAAT
Found at i:1114099 original size:27 final size:27
Alignment explanation
Indices: 1114044--1114114 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
1114034 GCGGTTAGCG
* **
1114044 GTTAAATGTTAGTAATTAATGGTTAGT
1 GTTAGATGTTAGTAATTAACAGTTAGT
* *
1114071 GTTAGATGTTAGTAATTAACATTTTGT
1 GTTAGATGTTAGTAATTAACAGTTAGT
1114098 GTTAGAAATGTTAGTAA
1 GTTAG--ATGTTAGTAA
1114115 AGACCGGACC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 27 0.73
29 10 0.27
ACGTcount: A:0.34, C:0.01, G:0.21, T:0.44
Consensus pattern (27 bp):
GTTAGATGTTAGTAATTAACAGTTAGT
Found at i:1118496 original size:42 final size:42
Alignment explanation
Indices: 1118443--1118560 Score: 166
Period size: 42 Copynumber: 2.8 Consensus size: 42
1118433 CTTATCTTCT
*
1118443 TGCTCGAAAGACTTA-TAGATGGCCCGAAAGGCTTACACATCA
1 TGCTCGAAAGACTTACT-GATGGCCCGAAAGACTTACACATCA
* *
1118485 TGCTCAAAAGACTTACTGGTGGCCCGAAAGACTTACACATCA
1 TGCTCGAAAGACTTACTGATGGCCCGAAAGACTTACACATCA
* * *
1118527 TGCTTGAAAGACTTACTGATAGCCCGAATGACTT
1 TGCTCGAAAGACTTACTGATGGCCCGAAAGACTT
1118561 CAGCTGATTC
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 66 0.99
43 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (42 bp):
TGCTCGAAAGACTTACTGATGGCCCGAAAGACTTACACATCA
Found at i:1118877 original size:41 final size:41
Alignment explanation
Indices: 1118817--1118944 Score: 139
Period size: 42 Copynumber: 3.1 Consensus size: 41
1118807 TGTTGAAATT
* * * * *
1118817 ATCTTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTATC
1 ATCTTGCTCGAAAGACTTATAGATGACCCGAAGGACTTATC
* *
1118858 ATCTTGCTCGAAAGACTTATAGATGACCCGAAGGATTTAAGC
1 ATCTTGCTCGAAAGACTTATAGATGACCCGAAGGACTT-ATC
** * *
1118900 ATCACGCTCGAAAGACTTATTGATGACCCGAATGACTTACTC
1 ATCTTGCTCGAAAGACTTATAGATGACCCGAAGGACTTA-TC
1118942 ATC
1 ATC
1118945 AAGAAACCCT
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
41 33 0.46
42 39 0.54
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (41 bp):
ATCTTGCTCGAAAGACTTATAGATGACCCGAAGGACTTATC
Found at i:1119201 original size:52 final size:52
Alignment explanation
Indices: 1119078--1119205 Score: 179
Period size: 52 Copynumber: 2.5 Consensus size: 52
1119068 TTCTACAAAC
* * *
1119078 TCATTTGAAAATATCAAG-ATCCCTAAAAATTAGGCTTAATTTCTTTGAAAT
1 TCATTTGAAAACATCAAGAAACCCTAAAAATTAGGCTTAACTTCTTTGAAAT
* *
1119129 TCATTTGAAAACATTAAGAAAACCCT-AAAATTAGGCTTAGCTTCTTTGAAAT
1 TCATTTGAAAACATCAAG-AAACCCTAAAAATTAGGCTTAACTTCTTTGAAAT
*
1119181 TCATTTGAAAACATCGAGAAACCCT
1 TCATTTGAAAACATCAAGAAACCCT
1119206 TGGAAATCAG
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
51 23 0.34
52 40 0.59
53 5 0.07
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (52 bp):
TCATTTGAAAACATCAAGAAACCCTAAAAATTAGGCTTAACTTCTTTGAAAT
Found at i:1119543 original size:75 final size:75
Alignment explanation
Indices: 1119286--1119545 Score: 276
Period size: 74 Copynumber: 3.5 Consensus size: 75
1119276 GTTTGGAGGG
* * * * *
1119286 AAACTATCCCAAGCGAGATAAATTTTGGTTTTAAGAAAAACAATCTTGAGTGAAATG-AATATTC
1 AAACTGTCTCAAGCGAGACAAATCTT-GTTTTAAGAAAAA-AATCTTGAGTGAAATGAAATA-TA
* *
1119350 TTGTTTTGAGTAA
63 TTCTTTCGAGTAA
* ** * *
1119363 AAAATGTCTCAAGCGAGACAAAGT-TTGTTTTAAGAAAAAAATCACGAGTGAAATGAAGTGTATT
1 AAACTGTCTCAAGCGAGACAAA-TCTTGTTTTAAGAAAAAAATCTTGAGTGAAATGAAATATATT
*
1119427 TTTTCGA--ACA
65 CTTTCGAGTA-A
*
1119437 AAACTGTCTCAATCGAGACAAATCTTGTTTTAAGAAAAAAATCTTGAGTGAAATGAAATATATTC
1 AAACTGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAAAATCTTGAGTGAAATGAAATATATTC
*
1119502 ATTCGAGTAA
66 TTTCGAGTAA
* * * *
1119512 AAACTTTCTTAAGCGAAACAAATCATGTTTTAAG
1 AAACTGTCTCAAGCGAGACAAATCTTGTTTTAAG
1119546 GGAAGCAGAT
Statistics
Matches: 153, Mismatches: 24, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
73 2 0.01
74 62 0.41
75 52 0.34
76 16 0.10
77 20 0.13
78 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (75 bp):
AAACTGTCTCAAGCGAGACAAATCTTGTTTTAAGAAAAAAATCTTGAGTGAAATGAAATATATTC
TTTCGAGTAA
Found at i:1119840 original size:36 final size:37
Alignment explanation
Indices: 1119766--1119842 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
1119756 GCTCCGAAGG
1119766 AAAATATCTCAAATGAGATGAAATTCGTTTTGAGAGA
1 AAAATATCTCAAATGAGATGAAATTCGTTTTGAGAGA
* * * *
1119803 AAAATGTCTCAAGTGAGA-GAAAATTTGTTTTTA-AGA
1 AAAATATCTCAAATGAGATG-AAATTCGTTTTGAGAGA
1119839 AAAA
1 AAAA
1119843 AACTTTGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
36 8 0.23
37 27 0.77
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.30
Consensus pattern (37 bp):
AAAATATCTCAAATGAGATGAAATTCGTTTTGAGAGA
Found at i:1119985 original size:103 final size:103
Alignment explanation
Indices: 1119662--1120044 Score: 490
Period size: 102 Copynumber: 3.8 Consensus size: 103
1119652 TTCAAAATTT
* * ** * * * *
1119662 AGGAGAATGTCTCAAGCGAGATGATGTTTGTCTTGAGAG-AAATTGTCTCAAGTGAGATAAAA-T
1 AGGAAAATGTCTCAAGTGAGATGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATT
** * * *
1119725 TTGGTTCAAGTAAAACAACTTTGAAATTTGTGCTCCGA
66 TTTTTTTAAGAAAAACAACTTTGAAATTTGTGTTCCGA
* * * * *
1119763 AGGAAAATATCTCAAATGAGATGAAATTCGTTTTGAGAGAAAAATGTCTCAAGTGAGAGAAAATT
1 AGGAAAATGTCTCAAGTGAGATGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATT
*
1119828 TGTTTTTAAGAAAAA-AACTTTGAAATTTGTGTTCCGA
66 TTTTTTTAAGAAAAACAACTTTGAAATTTGTGTTCCGA
* * *
1119865 AGGAAAATGTCTGAAGTGAGACGAAATTTATTTTAAGAG-AAAATGTCTCAAGTGAGACAAAATT
1 AGGAAAATGTCTCAAGTGAGATGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATT
*
1119929 TATTTTTTAAGAAAAACAACTTTGAAATTTGTGTTCCAA
66 T-TTTTTTAAGAAAAACAACTTTGAAATTTGTGTTCCGA
*
1119968 AGGAAAATGTCTCAAGTGAGATGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTAAGAC--AATT
1 AGGAAAATGTCTCAAGTGAGATGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATT
*
1120031 TTTTTTAAAGAAAA
66 TTTTTTTAAGAAAA
1120045 CAATGTCTCT
Statistics
Matches: 246, Mismatches: 31, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
101 68 0.28
102 92 0.37
103 68 0.28
104 18 0.07
ACGTcount: A:0.40, C:0.09, G:0.20, T:0.31
Consensus pattern (103 bp):
AGGAAAATGTCTCAAGTGAGATGAAATTTGTTTTAAGAGAAAAATGTCTCAAGTGAGACAAAATT
TTTTTTTAAGAAAAACAACTTTGAAATTTGTGTTCCGA
Found at i:1120017 original size:37 final size:35
Alignment explanation
Indices: 1119971--1120053 Score: 98
Period size: 37 Copynumber: 2.3 Consensus size: 35
1119961 GTTCCAAAGG
1119971 AAAATGTCTCAAGTGAGATGA-AATTTGTTTT-AAGAGA
1 AAAATGTCTCAAGT-A-A-GACAATTTGTTTTAAAGA-A
*
1120008 AAAATGTCTCAAGTAAGACAATTTTTTTTAAAGAA
1 AAAATGTCTCAAGTAAGACAATTTGTTTTAAAGAA
1120043 AACAATGTCTC
1 AA-AATGTCTC
1120054 TAGCGAGACG
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
34 2 0.05
35 13 0.31
36 13 0.31
37 14 0.33
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.33
Consensus pattern (35 bp):
AAAATGTCTCAAGTAAGACAATTTGTTTTAAAGAA
Found at i:1127688 original size:101 final size:101
Alignment explanation
Indices: 1127457--1127751 Score: 314
Period size: 101 Copynumber: 2.9 Consensus size: 101
1127447 AAGATAAATT
* *
1127457 TTTTGTTTCAAGTGAAACAATTTCAACATTTACGT-TTC-AAGGG-AAACTTATCTCAAGCGAGA
1 TTTTGTTTCAAGTGAAACAATTTCAA-ATTT--GTGTTCTAAGGGAAAAC-TGTCTCAAGTGAGA
** * * *
1127519 TGAAATTTG-TTTTAGAAAAACAATATCAAGTGAGTTCAA
62 CAAAATTTGTTTTTAGAAAAACAATCTCAAATGAGATCAA
*
1127558 TTTT-TTTCGAGTGAAACAATTTCACAATTTGTGTTCTAAGGGAAAACTGTCTCAAGTGAGACAA
1 TTTTGTTTCAAGTGAAACAATTTCA-AATTTGTGTTCTAAGGGAAAACTGTCTCAAGTGAGACAA
*
1127622 AATTTGTTTTTAGAAAAATAATCTCAAATGAGATCAA
65 AATTTGTTTTTAGAAAAACAATCTCAAATGAGATCAA
* * * * ** * *
1127659 TTTTGTTTCAAGT-AAAAAAATTCATAATTTGTGTTTTCGATAGAAAAATGTCTCAAGTGATACA
1 TTTTGTTTCAAGTGAAACAATTTCA-AATTTGTGTTCT-AAGGGAAAACTGTCTCAAGTGAGACA
* *
1127723 AAATTTGTTTTGAGATAAACAATCTCAAA
64 AAATTTGTTTTTAGAAAAACAATCTCAAA
1127752 GGCTTATATT
Statistics
Matches: 165, Mismatches: 22, Indels: 13
0.82 0.11 0.06
Matches are distributed among these distances:
98 2 0.01
99 3 0.02
100 47 0.28
101 59 0.36
102 54 0.33
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (101 bp):
TTTTGTTTCAAGTGAAACAATTTCAAATTTGTGTTCTAAGGGAAAACTGTCTCAAGTGAGACAAA
ATTTGTTTTTAGAAAAACAATCTCAAATGAGATCAA
Found at i:1127731 original size:102 final size:101
Alignment explanation
Indices: 1127507--1127751 Score: 287
Period size: 102 Copynumber: 2.4 Consensus size: 101
1127497 GGGAAACTTA
* ** * * * *
1127507 TCTCAAGCGAGATGAAATTTG-TTTTAGAAAAACAATATCAAGTGAGTTCAATTTTTTTCGAGTG
1 TCTCAAGTGAGACAAAATTTGTTTTTAGAAAAACAATCTCAAATGAGATCAATTTTTTTCAAGTG
* * * *
1127571 AAACAATTTCACAATTTGTGTTCTAAGGGAAAACTG
66 AAAAAAATTCACAATTTGTGTTCTAAGAGAAAAATG
*
1127607 TCTCAAGTGAGACAAAATTTGTTTTTAGAAAAATAATCTCAAATGAGATCAATTTTGTTTCAAGT
1 TCTCAAGTGAGACAAAATTTGTTTTTAGAAAAACAATCTCAAATGAGATCAATTTT-TTTCAAGT
* * * *
1127672 -AAAAAAATTCATAATTTGTGTTTTCGATAGAAAAATG
65 GAAAAAAATTCACAATTTGTGTTCT-AAGAGAAAAATG
* * *
1127709 TCTCAAGTGATACAAAATTTGTTTTGAGATAAACAATCTCAAA
1 TCTCAAGTGAGACAAAATTTGTTTTTAGAAAAACAATCTCAAA
1127752 GGCTTATATT
Statistics
Matches: 122, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
100 18 0.15
101 50 0.41
102 54 0.44
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (101 bp):
TCTCAAGTGAGACAAAATTTGTTTTTAGAAAAACAATCTCAAATGAGATCAATTTTTTTCAAGTG
AAAAAAATTCACAATTTGTGTTCTAAGAGAAAAATG
Found at i:1127822 original size:36 final size:37
Alignment explanation
Indices: 1127775--1127890 Score: 101
Period size: 36 Copynumber: 3.2 Consensus size: 37
1127765 AAAGAAATTG
* * *
1127775 TCTCAAGTGAGATGAAACTTTGTTTAGAG-AGAACAA
1 TCTCAAATGAGATGAAACTTTGTTTAAAGAAAAACAA
* * **
1127811 TCTCAAATGAGAT-CAATTTTGTTTAAAGAAAAACTG
1 TCTCAAATGAGATGAAACTTTGTTTAAAGAAAAACAA
** * * * *
1127847 TCTCAAACAAGATGAAACTTTATTTCAAGATAAAGAA
1 TCTCAAATGAGATGAAACTTTGTTTAAAGAAAAACAA
1127884 TCTCAAA
1 TCTCAAA
1127891 GGTGACAGAC
Statistics
Matches: 61, Mismatches: 17, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
35 12 0.20
36 27 0.44
37 22 0.36
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.29
Consensus pattern (37 bp):
TCTCAAATGAGATGAAACTTTGTTTAAAGAAAAACAA
Found at i:1130899 original size:9 final size:9
Alignment explanation
Indices: 1130882--1130932 Score: 54
Period size: 9 Copynumber: 5.8 Consensus size: 9
1130872 ACTTAATATG
*
1130882 TTCTCTTTC
1 TTCTTTTTC
1130891 TTCTTTTTC
1 TTCTTTTTC
1130900 TTTCCTTTTTC
1 -TT-CTTTTTC
1130911 -TC-TTTTC
1 TTCTTTTTC
1130918 TTCTTTTTC
1 TTCTTTTTC
1130927 TT-TTTT
1 TTCTTTT
1130933 GTGAAGGGAT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
7 5 0.14
8 7 0.19
9 16 0.43
10 2 0.05
11 7 0.19
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (9 bp):
TTCTTTTTC
Found at i:1130903 original size:13 final size:13
Alignment explanation
Indices: 1130885--1130929 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
1130875 TAATATGTTC
1130885 TCTTTCTTCTTTT
1 TCTTTCTTCTTTT
*
1130898 TCTTTCCTT-TTTC
1 TCTTT-CTTCTTTT
1130911 TCTTTTCTTCTTTT
1 TC-TTTCTTCTTTT
1130925 TCTTT
1 TCTTT
1130930 TTTGTGAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TCTTTCTTCTTTT
Found at i:1130925 original size:17 final size:17
Alignment explanation
Indices: 1130885--1130931 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
1130875 TAATATGTTC
*
1130885 TCTTTCTTCTTTTTCTT
1 TCTTTTTTCTTTTTCTT
*
1130902 TCCTTTTTCTCTTTTC-T
1 TCTTTTTTCT-TTTTCTT
1130919 TC-TTTTTCTTTTT
1 TCTTTTTTCTTTTT
1130932 TGTGAAGGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 4 0.15
16 7 0.26
17 11 0.41
18 5 0.19
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (17 bp):
TCTTTTTTCTTTTTCTT
Found at i:1132547 original size:74 final size:74
Alignment explanation
Indices: 1132421--1132558 Score: 215
Period size: 74 Copynumber: 1.9 Consensus size: 74
1132411 TAAATAGAAG
* * * *
1132421 GGCTTTGAGAAAAACAGATTGCCCATTGGGTACCGATACCCCTCATAGGGTACCGATACCCCTAT
1 GGCTCTGAGAAAAACAGAATGCCCAATGGGTACCGATACCCCTAATAGGGTACCGATACCCCTAT
1132486 TCAAGTTTT
66 TCAAGTTTT
*
1132495 GGCTCTGAGAAAAACAGAATGCCCAATGGGTACCGATACCCCCTAAT-GGGTACTGATACCCCTA
1 GGCTCTGAGAAAAACAGAATGCCCAATGGGTACCGATA-CCCCTAATAGGGTACCGATACCCCTA
1132559 GTCATTTAAC
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
74 51 0.88
75 7 0.12
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (74 bp):
GGCTCTGAGAAAAACAGAATGCCCAATGGGTACCGATACCCCTAATAGGGTACCGATACCCCTAT
TCAAGTTTT
Found at i:1132558 original size:19 final size:20
Alignment explanation
Indices: 1132519--1132556 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1132509 CAGAATGCCC
1132519 AATGGGTACCGATACCCCCT
1 AATGGGTACCGATACCCCCT
*
1132539 AATGGGTACTGATACCCC
1 AATGGGTACCGATACCCC
1132557 TAGTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.32, G:0.21, T:0.21
Consensus pattern (20 bp):
AATGGGTACCGATACCCCCT
Found at i:1138375 original size:20 final size:20
Alignment explanation
Indices: 1138350--1138387 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1138340 CTCTTTGAAT
* *
1138350 GGGTACCGATACCCCCATAA
1 GGGTACCAATAACCCCATAA
1138370 GGGTACCAATAACCCCAT
1 GGGTACCAATAACCCCAT
1138388 CAAGTTCTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.34, G:0.18, T:0.16
Consensus pattern (20 bp):
GGGTACCAATAACCCCATAA
Found at i:1138863 original size:13 final size:12
Alignment explanation
Indices: 1138845--1138879 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
1138835 CTACATATTA
1138845 ATTTTCAAACATT
1 ATTTTCAAACA-T
1138858 ATTTTCAAACAT
1 ATTTTCAAACAT
1138870 AGTTTTCAAA
1 A-TTTTCAAA
1138880 AATGCCCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 2 0.10
13 19 0.90
ACGTcount: A:0.40, C:0.14, G:0.03, T:0.43
Consensus pattern (12 bp):
ATTTTCAAACAT
Found at i:1141041 original size:20 final size:20
Alignment explanation
Indices: 1141016--1141053 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1141006 TAGAATGTCC
1141016 TATGGGCACCGATACCCCCT
1 TATGGGCACCGATACCCCCT
*
1141036 TATGGGTACCGATACCCC
1 TATGGGCACCGATACCCC
1141054 TAGTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.37, G:0.21, T:0.21
Consensus pattern (20 bp):
TATGGGCACCGATACCCCCT
Found at i:1141208 original size:30 final size:30
Alignment explanation
Indices: 1141167--1141235 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
1141157 TTTTCACACT
*
1141167 ACAACGGCTCTAACATCACCTAAATGATTC
1 ACAACGGCTCTAACATCACCCAAATGATTC
*
1141197 ACAATGGCTCTAACATCACCCAAATGATTC
1 ACAACGGCTCTAACATCACCCAAATGATTC
1141227 ACAACGGCT
1 ACAACGGCT
1141236 AGAATCAATC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.36, C:0.30, G:0.12, T:0.22
Consensus pattern (30 bp):
ACAACGGCTCTAACATCACCCAAATGATTC
Found at i:1142317 original size:138 final size:138
Alignment explanation
Indices: 1142068--1142321 Score: 366
Period size: 138 Copynumber: 1.8 Consensus size: 138
1142058 CTAAGCGCCA
* *
1142068 AAATGGAAATTCACAAACTCATTATGAATTCCATGGATGTACATCAAGTGCCGAAAGTACACATA
1 AAATGGAAATTCACAAACTCATTATGAATACCATGGATGCACATCAAGTGCCGAAAGTACACATA
* * *
1142133 GTAGTGATACAAAAAAGAACCATTATGCATTTAACAAAATCGATCGATAACTTTTATACATAATG
66 GTACTAATACAAAAAAGAACCATTATGCATTTAACAAAATCAATCGATAACTTTTATACATAATG
1142198 GGATGACG
131 GGATGACG
* * * *
1142206 AAATGGTAATTCACAAACTCATTTTGAATACCATGGTTGCACATCTAGTGCCGAAAGTACACATA
1 AAATGGAAATTCACAAACTCATTATGAATACCATGGATGCACATCAAGTGCCGAAAGTACACATA
* *** *
1142271 GTACTAATACGAAAATTCACCGTTATGCA-TTACACAAAATCAATCGATAAC
66 GTACTAATACAAAAAAGAACCATTATGCATTTA-ACAAAATCAATCGATAAC
1142322 CATTATATAC
Statistics
Matches: 101, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
137 3 0.03
138 98 0.97
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (138 bp):
AAATGGAAATTCACAAACTCATTATGAATACCATGGATGCACATCAAGTGCCGAAAGTACACATA
GTACTAATACAAAAAAGAACCATTATGCATTTAACAAAATCAATCGATAACTTTTATACATAATG
GGATGACG
Found at i:1148960 original size:46 final size:46
Alignment explanation
Indices: 1148907--1149237 Score: 441
Period size: 46 Copynumber: 7.2 Consensus size: 46
1148897 ATTATTCCTT
* * *
1148907 ATTTTCATTTATGGCATCCATTCATGCCTAAAATGCACCGTTATAC
1 ATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATGC
* * * * **
1148953 ATTTTCATTTATGACATCCTTTCATACCGATAATGCTCTATTATGC
1 ATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATGC
* * *
1148999 ATTTTAATTTATGGCATCCTTTCATACCTATAATGCATCGTTATGC
1 ATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATGC
* * *
1149045 ATTTTCATTTCTGGCATCCTTTCATGCCTATAATGCACTGTTATGT
1 ATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATGC
*
1149091 ATTTTCATTTATGGCATCCTTTTATGCCTATAATGCACCGTTATGC
1 ATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATGC
* * * *
1149137 ATTTTCATTTATGACATCC-TTCAATGCCGATAATGTACTGTTATGC
1 ATTTTCATTTATGGCATCCTTTC-ATGCCTATAATGCACCGTTATGC
*
1149183 ATTTTCATTTATGGTATCCTTTCATG-CTGATAATGCACCGTTATGC
1 ATTTTCATTTATGGCATCCTTTCATGCCT-ATAATGCACCGTTATGC
1149229 ATTTTCATT
1 ATTTTCATT
1149238 CATTTATTCA
Statistics
Matches: 246, Mismatches: 36, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
45 3 0.01
46 240 0.98
47 3 0.01
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (46 bp):
ATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATGC
Found at i:1155999 original size:46 final size:46
Alignment explanation
Indices: 1155931--1156264 Score: 449
Period size: 46 Copynumber: 7.3 Consensus size: 46
1155921 ATTATTCTTT
** *
1155931 ATTTTCATTTATTACATCCTTTCATGCCTAAAATGCACCGTTATG-
1 ATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATGC
* * *
1155976 AGTTTTCATTTATGGCATCCTTTCATGTCGATAATGCACCATTATGC
1 A-TTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATGC
*
1156023 ATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACTGTTATGC
1 ATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATGC
1156069 ATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATGC
1 ATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATGC
* * *
1156115 ATTTTCATTTATGGCATTCTTTCATACCTATAATGCA-CGATTATAC
1 ATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCG-TTATGC
* * * * *
1156161 ATTTTCATTTATGGAATCATTTCATGTCGATAATGCACCATTATGC
1 ATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATGC
* * * *
1156207 ATTTTCATTTAGGGCATCGTTTCAT-ACTGATAATGCACAGTTATGC
1 ATTTTCATTTATGGCATCCTTTCATGCCT-ATAATGCACCGTTATGC
1156253 ATTTTCATTTAT
1 ATTTTCATTTAT
1156265 TCATTCATTT
Statistics
Matches: 254, Mismatches: 30, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
45 4 0.02
46 248 0.98
47 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.43
Consensus pattern (46 bp):
ATTTTCATTTATGGCATCCTTTCATGCCTATAATGCACCGTTATGC
Found at i:1158741 original size:127 final size:127
Alignment explanation
Indices: 1158510--1158746 Score: 343
Period size: 127 Copynumber: 1.9 Consensus size: 127
1158500 ACCTAGGTAC
* * *
1158510 CGAAATGGAATTTCACAAACTCACTATGAATTCCATGGATGCACATCTAGTGCTGAAAGTACACA
1 CGAAATGGAATTTCAAAAACTCACTATGAATACCATGGATGCACATCTAGTGCCGAAAGTACACA
* *
1158575 TAATATTGATACGAAAATGTACCATTATGCATTTAACAAAATCGATCTACATAATTGTATGT
66 TAATACTGATACGAAAATGCACCATTATGCATTTAACAAAATCGATCTACATAATTGTATGT
* * * *
1158637 CGAAATGGTAA-TTCAAAAACTCATTTTGAATACCATGGTTTCACATCTAGTGCCGAAAGTACAC
1 CGAAATGG-AATTTCAAAAACTCACTATGAATACCATGGATGCACATCTAGTGCCGAAAGTACAC
* *
1158701 ATAGTACTGATACGAAAATGCACCGTTATGCA-TTACACAAAATCGA
65 ATAATACTGATACGAAAATGCACCATTATGCATTTA-ACAAAATCGA
1158747 CCGATAACCA
Statistics
Matches: 97, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
126 3 0.03
127 92 0.95
128 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (127 bp):
CGAAATGGAATTTCAAAAACTCACTATGAATACCATGGATGCACATCTAGTGCCGAAAGTACACA
TAATACTGATACGAAAATGCACCATTATGCATTTAACAAAATCGATCTACATAATTGTATGT
Found at i:1159462 original size:21 final size:20
Alignment explanation
Indices: 1159416--1159467 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
1159406 CCTTCCTCTT
1159416 AGTATCGATATCTTCACATC
1 AGTATCGATATCTTCACATC
* *
1159436 AATATCGATACTACTT-GCATC
1 AGTATCGATA-T-CTTCACATC
1159457 AGTATCGATAT
1 AGTATCGATAT
1159468 TGTTCATCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 10 0.37
21 14 0.52
22 3 0.11
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.35
Consensus pattern (20 bp):
AGTATCGATATCTTCACATC
Found at i:1162850 original size:15 final size:15
Alignment explanation
Indices: 1162830--1162859 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1162820 AAAACGTTAG
1162830 TATGATAAAAATAAA
1 TATGATAAAAATAAA
1162845 TATGATAAAAATAAA
1 TATGATAAAAATAAA
1162860 GAATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.27
Consensus pattern (15 bp):
TATGATAAAAATAAA
Found at i:1163037 original size:18 final size:19
Alignment explanation
Indices: 1163006--1163041 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1162996 ATAATAATTA
1163006 TTTTGAAAAACAATTATGC
1 TTTTGAAAAACAATTATGC
*
1163025 TTTT-AAAACCAATTATG
1 TTTTGAAAAACAATTATG
1163042 ACTTATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.39
Consensus pattern (19 bp):
TTTTGAAAAACAATTATGC
Found at i:1164299 original size:7 final size:7
Alignment explanation
Indices: 1164287--1164320 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
1164277 TAAATAAAAA
1164287 GTTAGTG
1 GTTAGTG
*
1164294 GTTAGTA
1 GTTAGTG
1164301 GTTAGTG
1 GTTAGTG
1164308 GTTAGTG
1 GTTAGTG
1164315 GTTAGT
1 GTTAGT
1164321 AATTAACGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.18, C:0.00, G:0.38, T:0.44
Consensus pattern (7 bp):
GTTAGTG
Found at i:1164331 original size:21 final size:21
Alignment explanation
Indices: 1164287--1164332 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1164277 TAAATAAAAA
* **
1164287 GTTAGTGGTTAGTAGTTAGTG
1 GTTAGTGGTTAGTAATTAACG
1164308 GTTAGTGGTTAGTAATTAACG
1 GTTAGTGGTTAGTAATTAACG
1164329 GTTA
1 GTTA
1164333 TCTTTAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.24, C:0.02, G:0.33, T:0.41
Consensus pattern (21 bp):
GTTAGTGGTTAGTAATTAACG
Found at i:1164466 original size:5 final size:5
Alignment explanation
Indices: 1164456--1164480 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
1164446 ATCAATGACC
1164456 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
1164481 CAACAAACTA
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:1170481 original size:13 final size:14
Alignment explanation
Indices: 1170453--1170485 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
1170443 GCTTGGTCAA
1170453 CAGCTCGGCTCGGCT
1 CAGCTCGGC-CGGCT
1170468 CAGCTCGG-CGGCT
1 CAGCTCGGCCGGCT
1170481 CAGCT
1 CAGCT
1170486 TGGCTCAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
15 8 0.44
ACGTcount: A:0.09, C:0.39, G:0.33, T:0.18
Consensus pattern (14 bp):
CAGCTCGGCCGGCT
Found at i:1175113 original size:20 final size:20
Alignment explanation
Indices: 1175088--1175137 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
1175078 TGAAAAGATT
* *
1175088 TAATAAAATAAAATAGATAA
1 TAATAAAATAAAAGAGAAAA
*
1175108 TAAT-AAATAAAAGGGAAAA
1 TAATAAAATAAAAGAGAAAA
1175127 TAATAAAATAA
1 TAATAAAATAA
1175138 TAAATAACAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.70, C:0.00, G:0.08, T:0.22
Consensus pattern (20 bp):
TAATAAAATAAAAGAGAAAA
Found at i:1177810 original size:5 final size:5
Alignment explanation
Indices: 1177802--1177826 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
1177792 TAAGCATATG
1177802 ATAAA ATAAA ATAAA ATAAA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA
1177827 TGGAATGAAA
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):
ATAAA
Found at i:1183491 original size:20 final size:20
Alignment explanation
Indices: 1183466--1183515 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
1183456 TGAAAAGATT
*
1183466 TAATAAAATAAAATAGG-TAA
1 TAATAAAATAAAA-AGGAAAA
*
1183486 TAAT-AAATAAAAGGGAAAA
1 TAATAAAATAAAAAGGAAAA
1183505 TAATAAAATAA
1 TAATAAAATAA
1183516 TAAATAATAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 2 0.08
19 14 0.54
20 10 0.38
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.22
Consensus pattern (20 bp):
TAATAAAATAAAAAGGAAAA
Found at i:1188975 original size:13 final size:12
Alignment explanation
Indices: 1188927--1188972 Score: 67
Period size: 12 Copynumber: 3.8 Consensus size: 12
1188917 AAATTCTTTT
1188927 TTTTATTTTCAAG
1 TTTTATTTT-AAG
1188940 TTTTATTTTATA-
1 TTTTATTTTA-AG
1188952 TTTTATTTTAAG
1 TTTTATTTTAAG
1188964 TTTTATTTT
1 TTTTATTTT
1188973 TAAACGTGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
11 1 0.03
12 20 0.65
13 10 0.32
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (12 bp):
TTTTATTTTAAG
Found at i:1191390 original size:36 final size:36
Alignment explanation
Indices: 1191339--1191474 Score: 170
Period size: 36 Copynumber: 3.8 Consensus size: 36
1191329 AACAATTGAG
* *
1191339 TCGAAAGTACTGATGCTTCCTTCCGTTCACTTTTAA
1 TCGAAAGTGCCGATGCTTCCTTCCGTTCACTTTTAA
* *
1191375 TTGAAAGTGCCGATGCTTCCTTTCGTT--CTTCTTGAA
1 TCGAAAGTGCCGATGCTTCCTTCCGTTCACTT-TT-AA
* *
1191411 TCGAAAGTGCCGATGCTTCCTTCAGTTCACTTTAAA
1 TCGAAAGTGCCGATGCTTCCTTCCGTTCACTTTTAA
1191447 TCGAAAGTGCCGATGCTTCCGTT-CGTTC
1 TCGAAAGTGCCGATGCTTCC-TTCCGTTC
1191475 TTCTTATTCA
Statistics
Matches: 86, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
34 3 0.03
35 2 0.02
36 75 0.87
37 3 0.03
38 3 0.03
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (36 bp):
TCGAAAGTGCCGATGCTTCCTTCCGTTCACTTTTAA
Found at i:1191430 original size:72 final size:72
Alignment explanation
Indices: 1191334--1191479 Score: 229
Period size: 72 Copynumber: 2.0 Consensus size: 72
1191324 AGATGAACAA
* * * * * *
1191334 TTGAGTCGAAAGTACTGATGCTTCCTTCCGTTCACTTTTAATTGAAAGTGCCGATGCTTCCTTTC
1 TTGAATCGAAAGTACCGATGCTTCCTTCAGTTCACTTTAAATCGAAAGTGCCGATGCTTCCGTTC
1191399 GTTCTTC
66 GTTCTTC
*
1191406 TTGAATCGAAAGTGCCGATGCTTCCTTCAGTTCACTTTAAATCGAAAGTGCCGATGCTTCCGTTC
1 TTGAATCGAAAGTACCGATGCTTCCTTCAGTTCACTTTAAATCGAAAGTGCCGATGCTTCCGTTC
1191471 GTTCTTC
66 GTTCTTC
1191478 TT
1 TT
1191480 ATTCACCTTC
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.38
Consensus pattern (72 bp):
TTGAATCGAAAGTACCGATGCTTCCTTCAGTTCACTTTAAATCGAAAGTGCCGATGCTTCCGTTC
GTTCTTC
Found at i:1194555 original size:34 final size:33
Alignment explanation
Indices: 1194517--1194581 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
1194507 TCAACATTTA
* *
1194517 ACTCTTTACAACACGCGATGTCAAAAATAAAAGT
1 ACTCTTTACAACACACGAT-TCAAAAAAAAAAGT
* *
1194551 ACTCTTTCCAACACACTATTCAAAAAAAAAA
1 ACTCTTTACAACACACGATTCAAAAAAAAAA
1194582 AAAAAACTCT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 11 0.41
34 16 0.59
ACGTcount: A:0.48, C:0.23, G:0.06, T:0.23
Consensus pattern (33 bp):
ACTCTTTACAACACACGATTCAAAAAAAAAAGT
Found at i:1198861 original size:181 final size:181
Alignment explanation
Indices: 1198556--1198928 Score: 512
Period size: 181 Copynumber: 2.1 Consensus size: 181
1198546 TTCAGGATAT
* * * *
1198556 ATTGAATCAAACTTGATTTGCTTCACTGCTCTTCAGGAAGATCAAATCTGGAAAATGACAATCTG
1 ATTGAATCGAACTTGATTTGCTTCACTGCTCTTCAGGAAGATCAAATCTAGAAAATAACAATATG
* ***
1198621 CTCTGCTACTCTATAGGAGAGATCAGATCTAAGGGAAGATGGGTCTACTCCACTACTCTTTAGGG
66 CTCTGCTACTCTATAGGAGAGATAAGATCTAAGGGAAGACAAGTCTACTCCACTACTCTTTAGGG
* * * * * * *
1198686 GAGATTAGACTCAAGAAAAAATTTGATCTACTTCGCTGCTCTTCATGGAAG
131 GAGATCAAACTCAAGAAAAAATTTAATATACTTCGATACTCTTCAGGGAAG
* * * *
1198737 CTTGAATCGAACTTGATTTTCTTTACTGCTCTTCAGGAAGATCAAATCTAGAAAATAACGATATG
1 ATTGAATCGAACTTGATTTGCTTCACTGCTCTTCAGGAAGATCAAATCTAGAAAATAACAATATG
* * * *
1198802 CTCTGCTACTCTTTAGGAGAGATAAGATCTTAGGGAAGACAAGTCTGCTCCACTACTCTTTAGGT
66 CTCTGCTACTCTATAGGAGAGATAAGATCTAAGGGAAGACAAGTCTACTCCACTACTCTTTAGGG
* * *
1198867 GAGATCAAACTCGAGAAAAATTTTAATATACTTCGATACTCTTCAGGGATG
131 GAGATCAAACTCAAGAAAAAATTTAATATACTTCGATACTCTTCAGGGAAG
1198918 ATTGAATCGAA
1 ATTGAATCGAA
1198929 GGTCAATTGC
Statistics
Matches: 165, Mismatches: 27, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
181 165 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.30
Consensus pattern (181 bp):
ATTGAATCGAACTTGATTTGCTTCACTGCTCTTCAGGAAGATCAAATCTAGAAAATAACAATATG
CTCTGCTACTCTATAGGAGAGATAAGATCTAAGGGAAGACAAGTCTACTCCACTACTCTTTAGGG
GAGATCAAACTCAAGAAAAAATTTAATATACTTCGATACTCTTCAGGGAAG
Found at i:1199055 original size:44 final size:45
Alignment explanation
Indices: 1198968--1199072 Score: 137
Period size: 44 Copynumber: 2.4 Consensus size: 45
1198958 ACCGAATTTG
* *
1198968 AAAGATTAACTCCTCTTCGATAGAAAATCAAGAAGGACAACACTA
1 AAAGATTGACTCCTCTGCGATAGAAAATCAAGAAGGACAACACTA
*
1199013 AAAGATTGACTCCTCTGC-AT-GAGAAATCAAGGAA-GACAACACTG
1 AAAGATTGACTCCTCTGCGATAGA-AAATCAA-GAAGGACAACACTA
1199057 AAA-ATTGACTCCTCTG
1 AAAGATTGACTCCTCTG
1199073 TACGAGAAGG
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
43 15 0.27
44 21 0.38
45 19 0.35
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (45 bp):
AAAGATTGACTCCTCTGCGATAGAAAATCAAGAAGGACAACACTA
Found at i:1199087 original size:44 final size:45
Alignment explanation
Indices: 1198992--1199080 Score: 130
Period size: 43 Copynumber: 2.0 Consensus size: 45
1198982 CTTCGATAGA
*
1198992 AAATCAA-GAAGGACAACACTAAAAGATTGACTCCTCTGCATGAG
1 AAATCAAGGAAGGACAACACTAAAAGATTGACTCCTCTGCACGAG
* *
1199036 AAATCAAGGAA-GACAACACTGAAA-ATTGACTCCTCTGTACGAG
1 AAATCAAGGAAGGACAACACTAAAAGATTGACTCCTCTGCACGAG
1199079 AA
1 AA
1199081 GGTCAAGAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
43 19 0.46
44 19 0.46
45 3 0.07
ACGTcount: A:0.44, C:0.20, G:0.18, T:0.18
Consensus pattern (45 bp):
AAATCAAGGAAGGACAACACTAAAAGATTGACTCCTCTGCACGAG
Found at i:1199123 original size:45 final size:44
Alignment explanation
Indices: 1198989--1199137 Score: 124
Period size: 45 Copynumber: 3.4 Consensus size: 44
1198979 CCTCTTCGAT
** * * * * *
1198989 AGAAAATCAAGAAGGACAACACTAAAAGATTGACTCCTCTGCATG
1 AGAAAATCAAGAATAATAATACTGAAA-ATTGACTCCTCTGTACG
* * *
1199034 AG-AAATCAAGGAA-GACAACACTGAAAATTGACTCCTCTGTACG
1 AGAAAATCAA-GAATAATAATACTGAAAATTGACTCCTCTGTACG
** *
1199077 AGAAGGTCAAGAATAATAATACTGAGAAATTGACTTCTCT-TCACG
1 AGAAAATCAAGAATAATAATACTGA-AAATTGACTCCTCTGT-ACG
1199122 AGAAAATCAAGAATAA
1 AGAAAATCAAGAATAA
1199138 CAAAGATTGA
Statistics
Matches: 88, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
43 20 0.23
44 33 0.38
45 35 0.40
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.20
Consensus pattern (44 bp):
AGAAAATCAAGAATAATAATACTGAAAATTGACTCCTCTGTACG
Found at i:1199147 original size:38 final size:38
Alignment explanation
Indices: 1199105--1199351 Score: 181
Period size: 38 Copynumber: 6.7 Consensus size: 38
1199095 ATACTGAGAA
*
1199105 ATTGACTTCTCTTCACGAGAAAATCAAGAATAACAAAG
1 ATTGACTTCTCTTCACGAGAAAGTCAAGAATAACAAAG
* * * * * *
1199143 ATTGACTTTTTTTTACAAGGAAGTCAAGGATAACAAAG
1 ATTGACTTCTCTTCACGAGAAAGTCAAGAATAACAAAG
* * *
1199181 ATTTATTTCTCTTCACGAGAAAGTAAATG-ATAACAAAG
1 ATTGACTTCTCTTCACGAGAAAGTCAA-GAATAACAAAG
* * *
1199219 ATTAACTTCTATTCACGAGAAAG-C--------CAAGG
1 ATTGACTTCTCTTCACGAGAAAGTCAAGAATAACAAAG
* * * *
1199248 ATTGACTCCTCTTCGCGAGAGAGTCAGGAATAACAAAG
1 ATTGACTTCTCTTCACGAGAAAGTCAAGAATAACAAAG
* * * * *
1199286 ATTGACTTCTCATCACGAGGAATTTAAGAATAACTAAG
1 ATTGACTTCTCTTCACGAGAAAGTCAAGAATAACAAAG
* * * *
1199324 ATTAACTTCCCTTTACGAGGAAGTCAAG
1 ATTGACTTCTCTTCACGAGAAAGTCAAG
1199352 GATTGACTCT
Statistics
Matches: 158, Mismatches: 41, Indels: 20
0.72 0.19 0.09
Matches are distributed among these distances:
29 22 0.14
30 1 0.01
38 134 0.85
39 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (38 bp):
ATTGACTTCTCTTCACGAGAAAGTCAAGAATAACAAAG
Found at i:1199325 original size:105 final size:105
Alignment explanation
Indices: 1199164--1199414 Score: 299
Period size: 105 Copynumber: 2.4 Consensus size: 105
1199154 TTTACAAGGA
* * *
1199164 AGTCAAGG-ATAACAAAGATTTATTTCTCTTCACGAGAAAGTAAATGATAACAAAGATTAACTTC
1 AGTC-AGGAATAACAAAGATTAACTTCTCATCACGAGAAAGTAAATGATAACAAAGATTAACTTC
* * *
1199228 TATTCACGAGAAAGCCAAGGATTGACTCCTCTTCGCGAGAG
65 CATTCACGAGAAAGCCAAGGATTGACTCCTCTTCCCAAGAG
* * * * *
1199269 AGTCAGGAATAACAAAGATTGACTTCTCATCACGAGGAATTTAA-GAATAACTAAGATTAACTTC
1 AGTCAGGAATAACAAAGATTAACTTCTCATCACGAGAAAGTAAATG-ATAACAAAGATTAACTTC
* * * * * *
1199333 CCTTTACGAGGAAGTCAAGGATTGACTCTTCTTCCCAAGGG
65 CATTCACGAGAAAGCCAAGGATTGACTCCTCTTCCCAAGAG
* *
1199374 AGTCAGGAATAACAAAGATTAACTTCTCTTTACGAGAAAGT
1 AGTCAGGAATAACAAAGATTAACTTCTCATCACGAGAAAGT
1199415 CAACGATTGA
Statistics
Matches: 123, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
104 4 0.03
105 119 0.97
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.26
Consensus pattern (105 bp):
AGTCAGGAATAACAAAGATTAACTTCTCATCACGAGAAAGTAAATGATAACAAAGATTAACTTCC
ATTCACGAGAAAGCCAAGGATTGACTCCTCTTCCCAAGAG
Found at i:1199356 original size:67 final size:68
Alignment explanation
Indices: 1199285--1199426 Score: 171
Period size: 67 Copynumber: 2.1 Consensus size: 68
1199275 GAATAACAAA
* * * * *
1199285 GATTGACTTC-TCATCACGAGGAATTTAAGAATAACTAAGATTAACTTCCCTTTACGAGGAAGTC
1 GATTGACTTCTTCATCACAAGGAAGTCAAGAATAACAAAGATTAACTTCCCTTTACGAGAAAGTC
*
1199349 AAG
66 AAC
* * * * *
1199352 GATTGAC-TCTTCTTCCCAAGGGAGTCAGGAATAACAAAGATTAACTTCTCTTTACGAGAAAGTC
1 GATTGACTTCTTCATCACAAGGAAGTCAAGAATAACAAAGATTAACTTCCCTTTACGAGAAAGTC
1199416 AAC
66 AAC
1199419 GATTGACT
1 GATTGACT
1199427 CATCTTCGTG
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
66 2 0.03
67 60 0.97
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (68 bp):
GATTGACTTCTTCATCACAAGGAAGTCAAGAATAACAAAGATTAACTTCCCTTTACGAGAAAGTC
AAC
Found at i:1199427 original size:67 final size:67
Alignment explanation
Indices: 1199313--1199484 Score: 218
Period size: 67 Copynumber: 2.6 Consensus size: 67
1199303 AGGAATTTAA
* * * * *
1199313 GAATAACTAAGATTAACTTCCCTTTACGAGGAAGTCAAGGATTGACTCTTCTTCCCAAGGGAGTC
1 GAATAACAAAGATTAACTTCTCTTTACGAGGAAGTCAACGATTGACTCATCTTCCCAAGGAAGTC
1199378 AG
66 AG
* ***
1199380 GAATAACAAAGATTAACTTCTCTTTACGAGAAAGTCAACGATTGACTCATCTTCGTGAGGAAGTC
1 GAATAACAAAGATTAACTTCTCTTTACGAGGAAGTCAACGATTGACTCATCTTCCCAAGGAAGTC
1199445 AG
66 AG
* * * * *
1199447 TAATAATAAAGATTGACTTCTCTTCATGAGGAAGTCAA
1 GAATAACAAAGATTAACTTCTCTTTACGAGGAAGTCAA
1199485 GTTGAAGTTT
Statistics
Matches: 90, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
67 90 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (67 bp):
GAATAACAAAGATTAACTTCTCTTTACGAGGAAGTCAACGATTGACTCATCTTCCCAAGGAAGTC
AG
Found at i:1201423 original size:12 final size:12
Alignment explanation
Indices: 1201408--1201516 Score: 57
Period size: 12 Copynumber: 8.8 Consensus size: 12
1201398 TTATTTTCTT
1201408 TCTTCTTTTTTC
1 TCTTCTTTTTTC
*
1201420 TCTT-TGTTTTC
1 TCTTCTTTTTTC
1201431 ATCTCTCTTTTTTC
1 -TCT-TCTTTTTTC
*
1201445 T-TTATTTCTTT-
1 TCTTCTTT-TTTC
* *
1201456 GCTTCTTTTATC
1 TCTTCTTTTTTC
1201468 AT-TTCTTTTTTC
1 -TCTTCTTTTTTC
*
1201480 TCTTTCTATCTTTTT
1 TC-TTCT-T-TTTTC
*
1201495 TCTTC-TCTTTC
1 TCTTCTTTTTTC
1201506 TCTTTCTTTTT
1 TC-TTCTTTTT
1201517 CTTTTTCTAT
Statistics
Matches: 72, Mismatches: 12, Indels: 25
0.66 0.11 0.23
Matches are distributed among these distances:
11 18 0.25
12 29 0.40
13 9 0.12
14 10 0.14
15 6 0.08
ACGTcount: A:0.05, C:0.22, G:0.02, T:0.72
Consensus pattern (12 bp):
TCTTCTTTTTTC
Found at i:1201454 original size:8 final size:7
Alignment explanation
Indices: 1201436--1201545 Score: 50
Period size: 7 Copynumber: 15.1 Consensus size: 7
1201426 TTTTCATCTC
1201436 TCTTTTT
1 TCTTTTT
1201443 TCTTTATT
1 TCTTT-TT
*
1201451 TCTTTGCT
1 TCTTT-TT
*
1201459 TCTTTTA
1 TCTTTTT
*
1201466 TC--ATT
1 TCTTTTT
1201471 TCTTTTT
1 TCTTTTT
1201478 TCTCTTTCT
1 TCT-TTT-T
1201487 ATCTTTTT
1 -TCTTTTT
1201495 TCTTCTCTT
1 TCTT-T-TT
*
1201504 TC-TCTT
1 TCTTTTT
1201510 TC-TTTT
1 TCTTTTT
1201516 TC-TTTT
1 TCTTTTT
* *
1201522 TCTATTA
1 TCTTTTT
1201529 TCTTTTT
1 TCTTTTT
1201536 ATCTATTTT
1 -TCT-TTTT
1201545 T
1 T
1201546 TCTTCTATCT
Statistics
Matches: 79, Mismatches: 13, Indels: 21
0.70 0.12 0.19
Matches are distributed among these distances:
5 3 0.04
6 15 0.19
7 23 0.29
8 23 0.29
9 12 0.15
10 3 0.04
ACGTcount: A:0.07, C:0.19, G:0.01, T:0.73
Consensus pattern (7 bp):
TCTTTTT
Found at i:1201509 original size:18 final size:17
Alignment explanation
Indices: 1201473--1201524 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 17
1201463 TTATCATTTC
1201473 TTTTTTCTCTTTCTATCTT
1 TTTTTTCTCTTTC--TCTT
1201492 TTTTCTTCTCTTTCTCTT
1 TTTT-TTCTCTTTCTCTT
*
1201510 TCTTTTTCTTTTTCT
1 T-TTTTTCTCTTTCT
1201525 ATTATCTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 14 0.47
19 7 0.23
20 9 0.30
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTTCTCTTTCTCTT
Found at i:1206597 original size:20 final size:20
Alignment explanation
Indices: 1206572--1206616 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
1206562 TTTTGGTCGT
*
1206572 GCGGTCTGAAAATGACAGCG
1 GCGGTCTAAAAATGACAGCG
1206592 GCGGTCTAAAAATGACAGCG
1 GCGGTCTAAAAATGACAGCG
1206612 GCGGT
1 GCGGT
1206617 GGCTGGAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.36, T:0.16
Consensus pattern (20 bp):
GCGGTCTAAAAATGACAGCG
Found at i:1208192 original size:22 final size:22
Alignment explanation
Indices: 1208166--1208218 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
1208156 TTAATGACAC
**
1208166 TTGTTCTTTGAGGTTGTTGAGT
1 TTGTTCTTCAAGGTTGTTGAGT
1208188 TTGTTCTTCAAGGTTGTTGAGT
1 TTGTTCTTCAAGGTTGTTGAGT
1208210 TTGTTCTTC
1 TTGTTCTTC
1208219 TATGACAACT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.09, C:0.09, G:0.26, T:0.55
Consensus pattern (22 bp):
TTGTTCTTCAAGGTTGTTGAGT
Found at i:1209674 original size:2 final size:2
Alignment explanation
Indices: 1209667--1209720 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
1209657 ATTTGTTTCA
1209667 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1209709 AT AT AT AT AT AT
1 AT AT AT AT AT AT
1209721 TCTATTAACT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1210566 original size:76 final size:76
Alignment explanation
Indices: 1210474--1210621 Score: 269
Period size: 76 Copynumber: 1.9 Consensus size: 76
1210464 TCATCAAGAA
*
1210474 TAAAAAAAATAATAGATTGATTTTAGTTGTGATCTTCCTAGAAGATAGATTTTCATTAAGTATAA
1 TAAAAAAAATAATAGATTGATTTTAGTTGTGATCTTCCTAGAAGATAGATTTCCATTAAGTATAA
1210539 ACTCTCTAACG
66 ACTCTCTAACG
* *
1210550 TAAAATAAATACTAGATTGATTTTAGTTGTGATCTTCCTAGAAGATAGATTTCCATTAAGTATAA
1 TAAAAAAAATAATAGATTGATTTTAGTTGTGATCTTCCTAGAAGATAGATTTCCATTAAGTATAA
1210615 ACTCTCT
66 ACTCTCT
1210622 TACGGAGATA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 69 1.00
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (76 bp):
TAAAAAAAATAATAGATTGATTTTAGTTGTGATCTTCCTAGAAGATAGATTTCCATTAAGTATAA
ACTCTCTAACG
Found at i:1212393 original size:59 final size:57
Alignment explanation
Indices: 1212212--1212550 Score: 507
Period size: 57 Copynumber: 5.9 Consensus size: 57
1212202 TCCCATATGG
** * *
1212212 AAATTCATACACTTAGTATGAACGTCTTAACTATTTGCACACAAAGTGCCCAATATGA
1 AAATTCATACACTTAGTATGAATTTCTTAACT-TTTGCACACGAAGTGCCCAATACGA
* * *
1212270 AAATTCATACACTTAGTATGAATTTCTTAACTTTTGCACACGAAGTGCCCACTATGG
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTTGCACACGAAGTGCCCAATACGA
*
1212327 AAATTCATACACATAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATACGA
1 AAATTCATACACTTAGTATGAATTTCTTAAC--TTTTGCACACGAAGTGCCCAATACGA
* *
1212386 AAATTCATACACTTAGTTTGAATTTCTTAACTTTTGCACACGAAGAGCCCAATACGA
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTTGCACACGAAGTGCCCAATACGA
* *
1212443 AAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATACGG
1 AAATTCATACACTTAGTATGAATTTCTTAAC--TTTTGCACACGAAGTGCCCAATACGA
* *
1212502 AATTTCATACACTTAGTATGAATTTCTTAACTTTTGCACACGAATTGCC
1 AAATTCATACACTTAGTATGAATTTCTTAACTTTTGCACACGAAGTGCC
1212551 ATTTGCTAAT
Statistics
Matches: 258, Mismatches: 19, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
57 123 0.48
58 30 0.12
59 105 0.41
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (57 bp):
AAATTCATACACTTAGTATGAATTTCTTAACTTTTGCACACGAAGTGCCCAATACGA
Found at i:1212410 original size:116 final size:115
Alignment explanation
Indices: 1212203--1212550 Score: 554
Period size: 116 Copynumber: 3.0 Consensus size: 115
1212193 ACACACATTT
** *
1212203 CCCATATGGAAATTCATACACTTAGTATGAACGTCTTAAC-TATTTGCACACAAAGTGCCCAATA
1 CCCATATGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATA
*
1212267 TGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTGCACACGAAGTG
66 CGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTGCACACGAAGTG
* *
1212317 CCCACTATGGAAATTCATACACATAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAAT
1 CCCA-TATGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAAT
* *
1212382 ACGAAAATTCATACACTTAGTTTGAATTTCTTAACTTTTGCACACGAAGAG
65 ACGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTGCACACGAAGTG
* *
1212433 CCCAATACGAAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAAT
1 CCC-ATATGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAAT
* * *
1212498 ACGGAATTTCATACACTTAGTATGAATTTCTTAACTTTTGCACACGAATTG
65 ACGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTGCACACGAAGTG
1212549 CC
1 CC
1212551 ATTTGCTAAT
Statistics
Matches: 214, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
114 4 0.02
115 33 0.15
116 176 0.82
117 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.32
Consensus pattern (115 bp):
CCCATATGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACACAAAGTGCCCAATA
CGAAAATTCATACACTTAGTATGAATTTCTTAACTTTTGCACACGAAGTG
Found at i:1218635 original size:59 final size:58
Alignment explanation
Indices: 1218422--1218869 Score: 629
Period size: 57 Copynumber: 7.9 Consensus size: 58
1218412 TTTCCCAAAT
* * **
1218422 GGAAATTAATACACTTAGTATGAATCTCTTAACTATTTT-CACATAAAGTGCCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACT-TTTTGCACACGAAGTGCCCAATAC
* *
1218480 GAAAATTCATACACTTAGTATGAATTTCTTAAC-TTTTGCACATGAAGTGCCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATAC
*
1218537 GTAAATTCAT--ACTTAGTATGAATTTCTTAACCTTTTTGCACACGAAGTGCCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAA-CTTTTTGCACACGAAGTGCCCAATAC
** * *
1218594 AAAAATTCATACACTTAGTATGAATTTCCTAACCTTTTTGCACACGAAGCGCCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAA-CTTTTTGCACACGAAGTGCCCAATAC
*
1218653 GGAAATTCATACACTTAGTATGAATTTCTTAAC-TTTTGAACACGAAGTGCCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATAC
1218710 GG------A-ACACTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAAC-TTTTTGCACACGAAGTGCCCAATAC
1218762 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTGCACA--AAGTGCCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAAC-TTTTTGCACACGAAGTGCCCAATAC
*
1218819 GGAAATTCATACACTTAGTATGAATTTCTTAAC-TTTTGCACACAAAGTGCC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCC
1218870 ATTTGGTAAT
Statistics
Matches: 358, Mismatches: 16, Indels: 33
0.88 0.04 0.08
Matches are distributed among these distances:
50 23 0.06
51 1 0.00
52 25 0.07
55 29 0.08
56 5 0.01
57 135 0.38
58 32 0.09
59 108 0.30
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (58 bp):
GGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACGAAGTGCCCAATAC
Found at i:1218762 original size:109 final size:109
Alignment explanation
Indices: 1218422--1218869 Score: 505
Period size: 109 Copynumber: 3.9 Consensus size: 109
1218412 TTTCCCAAAT
* * *
1218422 GGAAATTAATACACTTAGTATGAATCTCTTAACTATTTT-CACATAAAGTGCCCAATACGAAAAT
1 GGAAATTCATACACTTAGTATGAATTTCTTAACT-TTTTGCACACAAAGTGCCCAATACG-----
*
1218486 TCATACACTTAGTATGAATTTCTTAACTTTTGCACATGAAGTGCCCAATAC
60 -CATACACTTAGTATGAATTTCTTAACTTTTGCACACGAAGTGCCCAATAC
* *
1218537 GTAAATTCAT--ACTTAGTATGAATTTCTTAACCTTTTTGCACACGAAGTGCCCAATACAAAAAT
1 GGAAATTCATACACTTAGTATGAATTTCTTAA-CTTTTTGCACACAAAGTGCCCAATAC------
* * *
1218600 TCATACACTTAGTATGAATTTCCTAACCTTTTTGCACACGAAGCGCCCAATAC
59 GCATACACTTAGTATGAATTTCTTAA-C-TTTTGCACACGAAGTGCCCAATAC
* * *
1218653 GGAAATTCATACACTTAGTATGAATTTCTTAAC-TTTTGAACACGAAGTGCCCAATACGGA-ACA
1 GGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACGCATACA
1218716 CTTAGTATGAATTTCTTAACATTTTTGCACACGAAGTGCCCAATAC
66 CTTAGTATGAATTTCTTAAC--TTTTGCACACGAAGTGCCCAATAC
1218762 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTTG--CACAAAGTGCCCAATACGGAAAT
1 GGAAATTCATACACTTAGTATGAATTTCTTAAC-TTTTTGCACACAAAGTGCCCAATAC-G----
*
1218825 TCATACACTTAGTATGAATTTCTTAACTTTTGCACACAAAGTGCC
60 -CATACACTTAGTATGAATTTCTTAACTTTTGCACACGAAGTGCC
1218870 ATTTGGTAAT
Statistics
Matches: 293, Mismatches: 18, Indels: 45
0.82 0.05 0.13
Matches are distributed among these distances:
108 1 0.00
109 94 0.32
110 2 0.01
111 5 0.02
113 23 0.08
114 60 0.20
115 10 0.03
116 77 0.26
117 1 0.00
118 20 0.07
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (109 bp):
GGAAATTCATACACTTAGTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCAATACGCATACA
CTTAGTATGAATTTCTTAACTTTTGCACACGAAGTGCCCAATAC
Found at i:1221421 original size:21 final size:21
Alignment explanation
Indices: 1221396--1221451 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
1221386 TGATGAACAA
1221396 TATCGATATTGATGCAAGTAG
1 TATCGATATTGATGCAAGTAG
1221417 TATCGATATTGATGCAAGTAG
1 TATCGATATTGATGCAAGTAG
*
1221438 TATCGATACTGATG
1 TATCGATATTGATG
1221452 TGTAGGTATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (21 bp):
TATCGATATTGATGCAAGTAG
Found at i:1249683 original size:38 final size:37
Alignment explanation
Indices: 1249595--1249881 Score: 192
Period size: 38 Copynumber: 7.7 Consensus size: 37
1249585 CTCATTTAAT
* * **
1249595 ACAAAAATTTATCTCACTTGAGATTGTTTTTCTTA-AA
1 ACAAAAATTTATCTCGCTTGAGATAGTTTCAC-TAGAA
* * *
1249632 AC-AAGATTCATCTCGCTAGAGATAGTTTCACTAGAA
1 ACAAAAATTTATCTCGCTTGAGATAGTTTCACTAGAA
* * * * *
1249668 GCAAAAATTTTATCTCACTTAAGATAGCTTCACTCGAA
1 ACAAAAA-TTTATCTCGCTTGAGATAGTTTCACTAGAA
* * * * **
1249706 ACAGCAAATTTAGCTCACTTGAGATTGTTTTTCTTA-AA
1 ACA-AAAATTTATCTCGCTTGAGATAGTTTCAC-TAGAA
* * *
1249744 AC-AAGATTCATCTCGCTTGAGATAGTTTCACTCGAAA
1 ACAAAAATTTATCTCGCTTGAGATAGTTTCACTAG-AA
* ** *
1249781 AAAAAATATTTATCTTACTTGAGATTGTTTTC-CTA-AA
1 ACAAAA-ATTTATCTCGCTTGAGATAG-TTTCACTAGAA
* * *
1249818 AC-AAGATTCATCTCGCTTGAGATAGTTTCACTCGAA
1 ACAAAAATTTATCTCGCTTGAGATAGTTTCACTAGAA
*
1249854 GAAAAAAATTTATCTCGCTTGAGATAGT
1 -ACAAAAATTTATCTCGCTTGAGATAGT
1249882 GTTAGGATTT
Statistics
Matches: 186, Mismatches: 50, Indels: 27
0.71 0.19 0.10
Matches are distributed among these distances:
34 4 0.02
35 21 0.11
36 50 0.27
37 12 0.06
38 73 0.39
39 22 0.12
40 4 0.02
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (37 bp):
ACAAAAATTTATCTCGCTTGAGATAGTTTCACTAGAA
Found at i:1249735 original size:112 final size:113
Alignment explanation
Indices: 1249599--1249805 Score: 344
Period size: 112 Copynumber: 1.8 Consensus size: 113
1249589 TTTAATACAA
*
1249599 AAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAGATTCATCTCGCTAGAGATAGTTTCACT
1 AAATTTAGCTCACTTGAGATTGTTTTTCTTAAAACAAGATTCATCTCGCTAGAGATAGTTTCACT
**
1249664 AGAAGCAAAAAT-TTTATCTCACTTAAGATAGCTTCACTCGAAACAGC
66 AGAAAAAAAAATATTTATCTCACTTAAGATAGCTTCACTCGAAACAGC
*
1249711 AAATTTAGCTCACTTGAGATTGTTTTTCTTAAAACAAGATTCATCTCGCTTGAGATAGTTTCACT
1 AAATTTAGCTCACTTGAGATTGTTTTTCTTAAAACAAGATTCATCTCGCTAGAGATAGTTTCACT
* * *
1249776 CGAAAAAAAAATATTTATCTTACTTGAGAT
66 AGAAAAAAAAATATTTATCTCACTTAAGAT
1249806 TGTTTTCCTA
Statistics
Matches: 87, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
112 72 0.83
113 15 0.17
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.36
Consensus pattern (113 bp):
AAATTTAGCTCACTTGAGATTGTTTTTCTTAAAACAAGATTCATCTCGCTAGAGATAGTTTCACT
AGAAAAAAAAATATTTATCTCACTTAAGATAGCTTCACTCGAAACAGC
Found at i:1249757 original size:74 final size:74
Alignment explanation
Indices: 1249679--1249878 Score: 269
Period size: 74 Copynumber: 2.7 Consensus size: 74
1249669 CAAAAATTTT
* * * * ** *
1249679 ATCTCACTTAAGATAGCTTCACTCGAAACAGCAA-ATTTAGCTCACTTGAGATTGTTTTTCTTAA
1 ATCTCGCTTGAGATAGTTTCACTCGAAAAAAAAATATTTAGCTCACTTGAGATTG-TTTTCCTAA
1249743 AACAAGATTC
65 AACAAGATTC
* *
1249753 ATCTCGCTTGAGATAGTTTCACTCGAAAAAAAAATATTTATCTTACTTGAGATTGTTTTCCTAAA
1 ATCTCGCTTGAGATAGTTTCACTCGAAAAAAAAATATTTAGCTCACTTGAGATTGTTTTCCTAAA
1249818 ACAAGATTC
66 ACAAGATTC
* * *
1249827 ATCTCGCTTGAGATAGTTTCACTCGAAGAAAAAA-ATTTATCTCGCTTGAGAT
1 ATCTCGCTTGAGATAGTTTCACTCGAAAAAAAAATATTTAGCTCACTTGAGAT
1249879 AGTGTTAGGA
Statistics
Matches: 113, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
73 16 0.14
74 79 0.70
75 18 0.16
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (74 bp):
ATCTCGCTTGAGATAGTTTCACTCGAAAAAAAAATATTTAGCTCACTTGAGATTGTTTTCCTAAA
ACAAGATTC
Found at i:1250999 original size:38 final size:38
Alignment explanation
Indices: 1250884--1251184 Score: 192
Period size: 38 Copynumber: 8.1 Consensus size: 38
1250874 ATAATACAAC
* * * *
1250884 AGATAGTTTCACTCGAAACAGAATATTTAGCTCATTTA
1 AGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTG
* ** * * * *
1250922 AGATTGTTTTTCT-TAAA-AAAAGATTCATCTCGCTTG
1 AGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTG
*
1250958 AGATAGTTTCACTCGAAACAGAATATTTATCTCACTTG
1 AGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTG
* * * *
1250996 AGATTGTTTTC-CT--AAA-AAAAGATTCATCTCGCTTG
1 AGATAG-TTTCACTCGAAACAGAAGATTTATCTCACTTG
* ** * * *
1251031 AGATAGTTTCACTTGAAGGA-AAGGTTTTATCTCGCTTT
1 AGATAGTTTCACTCGAAACAGAA-GATTTATCTCACTTG
*
1251069 AGATAGTTTCACTCGAAACAGAA-ATTTTATCTCACTTT
1 AGATAGTTTCACTCGAAACAGAAGA-TTTATCTCACTTG
* ** * * * **
1251107 AGATTGTTTTTCT-TAAA-ACAAGATTCATCTTGCTTG
1 AGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTG
*
1251143 AGATAGTTTTCACTCGAAACAGAA-ATTTTATGTCACTTG
1 AGATAG-TTTCACTCGAAACAGAAGA-TTTATCTCACTTG
1251182 AGA
1 AGA
1251185 CTGTTTTTCT
Statistics
Matches: 196, Mismatches: 52, Indels: 29
0.71 0.19 0.10
Matches are distributed among these distances:
34 4 0.02
35 22 0.11
36 42 0.21
37 19 0.10
38 88 0.45
39 21 0.11
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.38
Consensus pattern (38 bp):
AGATAGTTTCACTCGAAACAGAAGATTTATCTCACTTG
Found at i:1251005 original size:74 final size:73
Alignment explanation
Indices: 1250884--1251043 Score: 275
Period size: 73 Copynumber: 2.2 Consensus size: 73
1250874 ATAATACAAC
* *
1250884 AGATAGTTTCACTCGAAACAGAATATTTAGCTCATTTAAGATTGTTTTTCTTAAAAAAAGATTCA
1 AGATAGTTTCACTCGAAACAGAATATTTAGCTCACTTAAGATTG-TTTTCCTAAAAAAAGATTCA
1250949 TCTCGCTTG
65 TCTCGCTTG
* *
1250958 AGATAGTTTCACTCGAAACAGAATATTTATCTCACTTGAGATTGTTTTCCTAAAAAAAGATTCAT
1 AGATAGTTTCACTCGAAACAGAATATTTAGCTCACTTAAGATTGTTTTCCTAAAAAAAGATTCAT
1251023 CTCGCTTG
66 CTCGCTTG
1251031 AGATAGTTTCACT
1 AGATAGTTTCACT
1251044 TGAAGGAAAG
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
73 41 0.50
74 41 0.50
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (73 bp):
AGATAGTTTCACTCGAAACAGAATATTTAGCTCACTTAAGATTGTTTTCCTAAAAAAAGATTCAT
CTCGCTTG
Found at i:1251161 original size:75 final size:75
Alignment explanation
Indices: 1251063--1251302 Score: 252
Period size: 75 Copynumber: 3.2 Consensus size: 75
1251053 GGTTTTATCT
* *
1251063 CGCTTTAGATAG-TTTCACTCGAAACAGAAATTTTATCTCACTTTAGATTGTTTTTCTTAAAACA
1 CGCTTGAGATAGTTTTCACTCGAAACAGAAATTTTATCTCACTTAAGATTGTTTTTCTTAAAACA
*
1251127 AGA-TTCATCT
66 A-ACTTCATCA
* * * *
1251137 TGCTTGAGATAGTTTTCACTCGAAACAGAAATTTTATGTCACTTGAGACTGTTTTTCTTAAAACA
1 CGCTTGAGATAGTTTTCACTCGAAACAGAAATTTTATCTCACTTAAGATTGTTTTTCTTAAAACA
**
1251202 AACTTTTTCA
66 AACTTCATCA
* * * * * * * *
1251212 CGCTTGACACAGTTTTTACTCAAAAAAAGAAATTTCATTTCACTCAAGATTGTTTTTCTTAAAGA
1 CGCTTGAGATAGTTTTCACTC-GAAACAGAAATTTTATCTCACTTAAGATTGTTTTTCTTAAA-A
*
1251277 -AAATTTCATCA
64 CAAACTTCATCA
* *
1251288 TGCTTGAGAAAGTTT
1 CGCTTGAGATAGTTT
1251303 CCCTTCAAAT
Statistics
Matches: 137, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
74 11 0.08
75 71 0.52
76 54 0.39
77 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (75 bp):
CGCTTGAGATAGTTTTCACTCGAAACAGAAATTTTATCTCACTTAAGATTGTTTTTCTTAAAACA
AACTTCATCA
Found at i:1254958 original size:2 final size:2
Alignment explanation
Indices: 1254953--1254998 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
1254943 TTTTTATAAC
*
1254953 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1254994 -A TA TA
1 TA TA TA
1254999 AATTAGATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:1258051 original size:18 final size:19
Alignment explanation
Indices: 1258028--1258069 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
1258018 TATATATATA
*
1258028 TATTTATTTATTATTT-TT
1 TATTTATCTATTATTTGTT
*
1258046 TATTTATCTATTTTTTGTT
1 TATTTATCTATTATTTGTT
1258065 TATTT
1 TATTT
1258070 GATTATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.76
Consensus pattern (19 bp):
TATTTATCTATTATTTGTT
Found at i:1258059 original size:15 final size:14
Alignment explanation
Indices: 1258030--1258068 Score: 60
Period size: 15 Copynumber: 2.7 Consensus size: 14
1258020 TATATATATA
1258030 TTTATTTATTATTT
1 TTTATTTATTATTT
1258044 TTTATTTATCTATTT
1 TTTATTTAT-TATTT
*
1258059 TTTGTTTATT
1 TTTATTTATT
1258069 TGATTATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.77
Consensus pattern (14 bp):
TTTATTTATTATTT
Found at i:1260772 original size:36 final size:37
Alignment explanation
Indices: 1260715--1260790 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 37
1260705 TTTCGTCCTA
*
1260715 CTAGGATTCAAACTCTCAAAAATATGATAGAATTCTG
1 CTAGGATTCAAACTCTCAAAAATAGGATAGAATTCTG
*
1260752 CTAGGATTC-AACTC-CTAAAAATAGGATAGAATTTTG
1 CTAGGATTCAAACTCTC-AAAAATAGGATAGAATTCTG
1260788 CTA
1 CTA
1260791 TGTTTTAAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
35 1 0.03
36 26 0.72
37 9 0.25
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.30
Consensus pattern (37 bp):
CTAGGATTCAAACTCTCAAAAATAGGATAGAATTCTG
Found at i:1261410 original size:17 final size:17
Alignment explanation
Indices: 1261390--1261428 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
1261380 ATTATATGTA
1261390 TATTTTTTATTGTATTT
1 TATTTTTTATTGTATTT
*
1261407 TATTTTTTATTTTATTT
1 TATTTTTTATTGTATTT
1261424 T-TTTT
1 TATTTT
1261429 AAACATATGC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (17 bp):
TATTTTTTATTGTATTT
Found at i:1261417 original size:12 final size:12
Alignment explanation
Indices: 1261402--1261426 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1261392 TTTTTTATTG
1261402 TATTTTATTTTT
1 TATTTTATTTTT
1261414 TATTTTATTTTT
1 TATTTTATTTTT
1261426 T
1 T
1261427 TTAAACATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TATTTTATTTTT
Found at i:1261549 original size:21 final size:21
Alignment explanation
Indices: 1261523--1261563 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1261513 ATATTACATT
*
1261523 ATTATAATTTTACTTTATTAA
1 ATTATAATTTTACGTTATTAA
* *
1261544 ATTATATTTTTTCGTTATTA
1 ATTATAATTTTACGTTATTA
1261564 TATTTATTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (21 bp):
ATTATAATTTTACGTTATTAA
Found at i:1261572 original size:9 final size:9
Alignment explanation
Indices: 1261559--1261592 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
1261549 ATTTTTTCGT
*
1261559 TATTATATT
1 TATTATATA
1261568 TATTATATA
1 TATTATATA
1261577 TA-TATATA
1 TATTATATA
1261585 TATTATAT
1 TATTATAT
1261593 CATAATGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TATTATATA
Found at i:1264100 original size:27 final size:26
Alignment explanation
Indices: 1264065--1264133 Score: 63
Period size: 27 Copynumber: 2.6 Consensus size: 26
1264055 TTTTAATCTT
1264065 TAGA-TCTTTGAATATTAAATGAATTA
1 TAGATTCTTTGAATATTAAA-GAATTA
* *
1264091 -AGGATTCTTTTAATTCTTAAAGAATTA
1 TA-GATTCTTTGAA-TATTAAAGAATTA
1264118 TAGATT-TTTGACATAT
1 TAGATTCTTTGA-ATAT
1264134 GACAAGATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
25 1 0.03
26 8 0.24
27 18 0.53
28 7 0.21
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.45
Consensus pattern (26 bp):
TAGATTCTTTGAATATTAAAGAATTA
Found at i:1264852 original size:22 final size:22
Alignment explanation
Indices: 1264829--1264890 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
1264819 CAAAAAGGGC
1264829 AAAAAGAAAAAAGAAAAGAAGCA
1 AAAAAGAAAAAA-AAAAGAAGCA
* *
1264852 AAAAAGGAAAAAACAAGAA-CA
1 AAAAAGAAAAAAAAAAGAAGCA
1264873 AAAAAGAAAGAACAAAAA
1 AAAAAGAAA-AA-AAAAA
1264891 TAAAAAAGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 10 0.30
22 8 0.24
23 15 0.45
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (22 bp):
AAAAAGAAAAAAAAAAGAAGCA
Found at i:1264881 original size:20 final size:20
Alignment explanation
Indices: 1264829--1264898 Score: 68
Period size: 20 Copynumber: 3.3 Consensus size: 20
1264819 CAAAAAGGGC
*
1264829 AAAAAGAAAAAAGAAAAGAAGCA
1 AAAAAG-AAAAA-ACAAGAA-CA
1264852 AAAAAGGAAAAAACAAGAACA
1 AAAAA-GAAAAAACAAGAACA
* * *
1264873 AAAAAGAAAGAACAAAAATA
1 AAAAAGAAAAAACAAGAACA
1264893 AAAAAG
1 AAAAAG
1264899 GGAACAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 18 0.43
21 7 0.17
22 6 0.14
23 10 0.24
24 1 0.02
ACGTcount: A:0.79, C:0.06, G:0.14, T:0.01
Consensus pattern (20 bp):
AAAAAGAAAAAACAAGAACA
Found at i:1266443 original size:36 final size:36
Alignment explanation
Indices: 1266396--1266500 Score: 165
Period size: 36 Copynumber: 2.9 Consensus size: 36
1266386 GTGCTCACCA
1266396 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
*
1266432 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAACT
* * *
1266469 TTTTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
1266501 TAAACATTGA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
36 32 0.50
37 32 0.50
ACGTcount: A:0.25, C:0.24, G:0.13, T:0.38
Consensus pattern (36 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAACT
Found at i:1266490 original size:37 final size:37
Alignment explanation
Indices: 1266396--1266505 Score: 168
Period size: 37 Copynumber: 3.0 Consensus size: 37
1266386 GTGCTCACCA
1266396 TTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAACT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
*
1266432 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
* * *
1266469 TTTTCTCCCTTGAGACAGTTTCTCTTGAAACATAAAC
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAAC
1266506 ATTGAAAACA
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
36 31 0.46
37 33 0.49
38 3 0.04
ACGTcount: A:0.26, C:0.24, G:0.13, T:0.37
Consensus pattern (37 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAACT
Found at i:1266590 original size:102 final size:102
Alignment explanation
Indices: 1266414--1266805 Score: 678
Period size: 102 Copynumber: 3.9 Consensus size: 102
1266404 CTTGAGACAG
** * * *
1266414 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTTTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1266479 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* *
1266516 TTTCCCTTGAAATGAGTTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTTTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
*
1266581 TGAGACAGTTTCTCTTGAAACATAAACATTGGAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
1266618 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
*
1266683 TGAGACAGTTTCTCCTGAAACATAAACATTGAAAACA
66 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
* *
1266720 TTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATAATTTCCCTTGAAAC-AAATTTTGTCTCCCT
1 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1266784 TGAGACAGTTTCTCTTGAAACA
66 TGAGACAGTTTCTCTTGAAACA
1266806 CAAAACCTTT
Statistics
Matches: 277, Mismatches: 13, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
101 36 0.13
102 241 0.87
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.37
Consensus pattern (102 bp):
TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACA
Found at i:1266591 original size:37 final size:37
Alignment explanation
Indices: 1266532--1266602 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
1266522 TTGAAATGAG
* *
1266532 TTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAA
1 TTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAA
* *
1266569 TTTTTTCTCCCTTGAGACAGTTTCTCTTGAAACA
1 TTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACA
1266603 TAAACATTGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (37 bp):
TTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAA
Found at i:1266685 original size:37 final size:37
Alignment explanation
Indices: 1266618--1266704 Score: 115
Period size: 37 Copynumber: 2.4 Consensus size: 37
1266608 ATTGGAAACA
** * *
1266618 TTTCCCTTGAAA-TGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1266654 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
1266691 TTTCTCC-TGAAACA
1 TTTC-CCTTGAAACA
1266705 TAAACATTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
36 12 0.27
37 31 0.69
38 2 0.04
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
Found at i:1266764 original size:204 final size:203
Alignment explanation
Indices: 1266414--1266872 Score: 702
Period size: 204 Copynumber: 2.2 Consensus size: 203
1266404 CTTGAGACAG
*
1266414 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTTTCTCCCT
1 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
* * *
1266479 TGAGACAGTTTCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAGTTTTGTCTCTCT
66 TGAGACAGTTTCTCCTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCGTCTCTCT
* *
1266544 TGAGATAGTTTCCCTTGAAACAAAATTTTTTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
131 TGAGATAATTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
1266609 TTGGAAACA
195 TTGGAAACA
** * *
1266618 TTTCCCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
1266683 TGAGACAGTTTCTCCTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCGTCTCTCT
66 TGAGACAGTTTCTCCTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCGTCTCTCT
* *
1266748 TGAGATAATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAACC
131 TGAGATAATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA-TAAACA
* ***
1266813 TTTGAGATTG
195 TTGGA-AACA
* * * * *
1266823 TTTCCCTCGAAACAAATTTTGTCTCCCATGAGACAGTTTCTCTTGAAACA
1 TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA
1266873 CAAAATCTTT
Statistics
Matches: 230, Mismatches: 23, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
203 36 0.16
204 150 0.65
205 44 0.19
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.37
Consensus pattern (203 bp):
TTTCCCTTGAAACAAACTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCT
TGAGACAGTTTCTCCTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCGTCTCTCT
TGAGATAATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACAT
TGGAAACA
Found at i:1266766 original size:36 final size:36
Alignment explanation
Indices: 1266719--1266805 Score: 111
Period size: 36 Copynumber: 2.4 Consensus size: 36
1266709 CATTGAAAAC
** * *
1266719 ATTTCCCTTGAAATGAATTTCGTCTCTCTTGAGATA
1 ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACA
*
1266755 ATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACA
1 ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACA
* *
1266791 GTTTCTCTTGAAACA
1 ATTTCCCTTGAAACA
1266806 CAAAACCTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (36 bp):
ATTTCCCTTGAAACAAATTTCGTCTCCCTTGAGACA
Found at i:1266896 original size:67 final size:67
Alignment explanation
Indices: 1266747--1266921 Score: 237
Period size: 67 Copynumber: 2.6 Consensus size: 67
1266737 TTCGTCTCTC
** *
1266747 TTGAGATAATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAAC
1 TTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCATGAGACAGTTTCTCTTGAAACACAAAAC
1266812 CT
66 CT
* *
1266814 TTGAGATTGTTTCCCTCGAAACAAATTTTGTCTCCCATGAGACAGTTTCTCTTGAAACACAAAAT
1 TTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCATGAGACAGTTTCTCTTGAAACACAAAAC
1266879 CT
66 CT
* * *
1266881 TTGA-ATT-TATCTCCCTTAAAACAAAATTTTGTTTCTCATGA
1 TTGAGATTGT-T-TCCCTTGAAAC-AAATTTTGTCTCCCATGA
1266922 AACAACAGAT
Statistics
Matches: 96, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
65 1 0.01
66 4 0.04
67 75 0.78
68 16 0.17
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (67 bp):
TTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCCCATGAGACAGTTTCTCTTGAAACACAAAAC
CT
Done.