Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 168 of 373
Found at i:56206720 original size:40 final size:40
Alignment explanation
Indices: 56206620--56206844 Score: 285
Period size: 40 Copynumber: 5.7 Consensus size: 40
56206610 GCTCCTCGTT
* * ** *
56206620 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
*
56206660 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
56206699 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
*
56206739 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
* * * * * *
56206779 CGAATGCCTTCGGAACTTAATCCGGATATATTC-ACTTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTA-ACAAC-TCGCA
*
56206820 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
56206845 CAACATTCAA
Statistics
Matches: 167, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.21
40 124 0.74
41 8 0.05
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
Found at i:56214635 original size:40 final size:40
Alignment explanation
Indices: 56214453--56214675 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
56214443 TCCTCGTTCA
* * * * * *
56214453 AATGCCTTTGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
56214492 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
56214532 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
56214572 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
56214612 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
56214652 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
56214676 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 36 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:56214684 original size:41 final size:41
Alignment explanation
Indices: 56214607--56214684 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
56214597 TTAGTATCTC
* * *
56214607 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
56214648 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
56214685 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:56218263 original size:50 final size:50
Alignment explanation
Indices: 56218173--56218428 Score: 212
Period size: 50 Copynumber: 5.3 Consensus size: 50
56218163 CCATATCAAT
* * * * **
56218173 AGACATGGTCTTGCACT-A-GCTCATACATCAA-AGTCGATGCCATGTCTT
1 AGACATGGTCTTACACTGACTCTCATATATCAAGA-CCGATGCCATGTCCC
*
56218221 AGACATGGTCTTACACTGACTCTCATATATCAAGACCTATGCCATGTCCC
1 AGACATGGTCTTACACTGACTCTCATATATCAAGACCGATGCCATGTCCC
** *
56218271 AGACATGGTCTTA-A---ACTAACACATATCAA-ACCGATGCCATGTCCC
1 AGACATGGTCTTACACTGACTCTCATATATCAAGACCGATGCCATGTCCC
* * * * ** * * **
56218316 AGACATGGTCTTACGCTAACTTTTAGGTCTCGAGGTCGATGCCATGTCCC
1 AGACATGGTCTTACACTGACTCTCATATATCAAGACCGATGCCATGTCCC
* **
56218366 AGACATGGTCTTACACTGCCTCTCATA-AT-GTGACCGATG-CATGTCCC
1 AGACATGGTCTTACACTGACTCTCATATATCAAGACCGATGCCATGTCCC
56218413 AGACAT-GTCTTACACT
1 AGACATGGTCTTACACT
56218429 AGCACACATA
Statistics
Matches: 168, Mismatches: 32, Indels: 18
0.77 0.15 0.08
Matches are distributed among these distances:
45 28 0.17
46 22 0.13
47 14 0.08
48 23 0.14
49 11 0.07
50 69 0.41
51 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.28
Consensus pattern (50 bp):
AGACATGGTCTTACACTGACTCTCATATATCAAGACCGATGCCATGTCCC
Found at i:56230016 original size:34 final size:34
Alignment explanation
Indices: 56229972--56230051 Score: 83
Period size: 34 Copynumber: 2.4 Consensus size: 34
56229962 CAGTAAGAGT
*
56229972 TCAGTTTCAGT-TAGGGCCTAAACCCATTATAGTA
1 TCAGTATCAGTGT-GGGCCTAAACCCATTATAGTA
* * *
56230006 TCAGTATCAGTGTGGGCCTTAGCCCATTTTAGTGA
1 TCAGTATCAGTGTGGGCCTAAACCCATTATAGT-A
*
56230041 -CAGTAACAGTG
1 TCAGTATCAGTG
56230052 CATATATGCA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
34 37 0.95
35 2 0.05
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (34 bp):
TCAGTATCAGTGTGGGCCTAAACCCATTATAGTA
Found at i:56230357 original size:27 final size:27
Alignment explanation
Indices: 56230325--56230377 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
56230315 ACAGTCATAC
* *
56230325 ATCTCATAAGGGCATAATAGTCATTTT
1 ATCTCATAAGGGCATAACAATCATTTT
*
56230352 ATCTCATAGGGGCATAACAATCATTT
1 ATCTCATAAGGGCATAACAATCATTT
56230378 GTCACTTTGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (27 bp):
ATCTCATAAGGGCATAACAATCATTTT
Found at i:56234339 original size:37 final size:37
Alignment explanation
Indices: 56234289--56234367 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
56234279 TTATTACGAA
* * *
56234289 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
56234326 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
56234363 GTCTT
1 GTCTT
56234368 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:56234560 original size:49 final size:49
Alignment explanation
Indices: 56234488--56235449 Score: 1546
Period size: 49 Copynumber: 20.0 Consensus size: 49
56234478 CTTCGGGACT
* * * *
56234488 TATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCA-GCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCA-TTAGGCCC
* * *
56234535 TGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
56234584 TATCAC--ATATATACACTTTCACGTTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
56234631 TATCAC--GTATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
56234678 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
56234727 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* * *
56234776 TATCTC--ATATATACACTTT-ACATTCATCAAATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
56234822 TATCACATATATACACACTTTCACATTCATCACATCAGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
56234871 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
56234920 TATCTCATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
56234969 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
56235016 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
* *
56235065 TATCACATATATACACACTTTCACATTCATCACATCAGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
56235114 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
56235163 TATCTCATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
56235212 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
56235259 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
56235308 TATCTCATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
56235357 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
*
56235404 TATCAC--GTATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
56235450 TTACTATCAT
Statistics
Matches: 860, Mismatches: 43, Indels: 24
0.93 0.05 0.03
Matches are distributed among these distances:
46 31 0.04
47 290 0.34
48 15 0.02
49 524 0.61
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (49 bp):
TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:56234768 original size:98 final size:98
Alignment explanation
Indices: 56234486--56235452 Score: 1565
Period size: 96 Copynumber: 10.0 Consensus size: 98
56234476 CCCTTCGGGA
* * * * *
56234486 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCA-GCCCTGTCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCA-TTAGGCCCTATCACATATATA
*
56234548 TACACTTCCACATTCATCACATCGGCCATTAGGC
65 TACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
56234582 CTTATCAC--ATATATACACTTTCACGTTCATCACATCGGCCATTAGGCCTTATCAC--GTATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
56234643 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
56234676 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
56234741 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
56234774 CTTATCTC--ATATATACACTTT-ACATTCATCAAATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
*
56234836 ACACTTTCACATTCATCACATCAGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
56234869 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
56234934 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
56234967 CCTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
56235030 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56235063 CTTATCACATATATACACACTTTCACATTCATCACATCAGCCATTAGGCCCTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
56235128 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
56235161 CTTATCTCATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
56235224 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
56235257 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
56235322 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56235355 CCTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--GTATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
56235416 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
56235449 CTTA
1 CTTA
56235453 CTATCATTTC
Statistics
Matches: 818, Mismatches: 39, Indels: 30
0.92 0.04 0.03
Matches are distributed among these distances:
94 86 0.11
95 79 0.10
96 330 0.40
97 13 0.02
98 310 0.38
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (98 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
ACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56235050 original size:145 final size:144
Alignment explanation
Indices: 56234486--56235449 Score: 1571
Period size: 145 Copynumber: 6.7 Consensus size: 144
56234476 CCCTTCGGGA
* * * * * *
56234486 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCA-GCCCTGTCACATATATATA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGCCCTATCACA-ATATATA
* * *
56234550 CACTTCCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACGTTCATC
64 CACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATC
56234613 ACATCGGCCATTAGGC
129 ACATCGGCCATTAGGC
* *
56234629 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATATAC
56234694 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCA
56234759 CATCGGCCATTAGGC
130 CATCGGCCATTAGGC
* * * *
56234774 CTTATCTCATATATACACTTT-ACATTCATCAAATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATATAC
*
56234838 ACTTTCACATTCATCACATCAGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCA
56234903 CATCGGCCATTAGGC
130 CATCGGCCATTAGGC
*
56234918 CTTATCTCATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC-ATATATA
1 CTTA--TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATA
56234982 CACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATC
64 CACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATC
56235047 ACATCGGCCATTAGGC
129 ACATCGGCCATTAGGC
*
56235063 CTTATCACATATATACACACTTTCACATTCATCACATCAGCCATTAGGCCCTATCACATATATAT
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATAT
* *
56235128 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATATACACTTTCACATTCAT
63 ACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCAT
56235193 CACATCGGCCATTAGGC
128 CACATCGGCCATTAGGC
*
56235210 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACA-ATATATAC
* *
56235275 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATATACACTTTCACATTCATCA
65 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCA
56235340 CATCGGCCATTAGGC
130 CATCGGCCATTAGGC
* *
56235355 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC-GTATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATACA
56235419 CTTTCACATTCATCACATCGGCCATTAGGCC
66 CTTTCACATTCATCACATCGGCCATTAGGCC
56235450 TTACTATCAT
Statistics
Matches: 782, Mismatches: 29, Indels: 20
0.94 0.03 0.02
Matches are distributed among these distances:
142 2 0.00
143 139 0.18
144 124 0.16
145 372 0.48
146 15 0.02
147 130 0.17
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (144 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACAATATATACA
CTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCAC
ATCGGCCATTAGGC
Found at i:56239264 original size:40 final size:40
Alignment explanation
Indices: 56239219--56239374 Score: 177
Period size: 40 Copynumber: 3.9 Consensus size: 40
56239209 CGAATACACT
* * *
56239219 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * ** *
56239259 ACACCAGCACAAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * * *
56239299 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
* * *
56239339 TCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGA
1 TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGA
56239375 CATCATTCGA
Statistics
Matches: 99, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 99 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TCACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
Found at i:56239722 original size:29 final size:29
Alignment explanation
Indices: 56239683--56239761 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
56239673 CTTAATAATC
*
56239683 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
56239713 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
56239742 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
56239762 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:56241714 original size:37 final size:37
Alignment explanation
Indices: 56241664--56241742 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
56241654 TTATTACGAA
* * *
56241664 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
56241701 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
56241738 GTCTT
1 GTCTT
56241743 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:56241987 original size:47 final size:47
Alignment explanation
Indices: 56241861--56242295 Score: 629
Period size: 47 Copynumber: 9.1 Consensus size: 47
56241851 CCCTTCGGGA
* * * * * * *
56241861 CTTATCACATTTATAGACTTTCACATCCATCACGTTGGCCACTCAGCC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCA-TTAGGC
* *
56241909 CTGTCA-CATATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CT-T-ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56241957 CTTATCACATATATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56242004 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56242051 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATAT--ACACTTTCACATTCATCACATCGGCCATTAGGC
*
56242100 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56242149 CTTATCTCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTA--TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56242198 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
56242245 CCTATCACGTATATACACTTTCACATGCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56242292 CTTA
1 CTTA
56242296 CTATCATTTC
Statistics
Matches: 355, Mismatches: 23, Indels: 19
0.89 0.06 0.05
Matches are distributed among these distances:
46 1 0.00
47 188 0.53
48 8 0.02
49 148 0.42
50 1 0.00
51 9 0.03
ACGTcount: A:0.29, C:0.31, G:0.10, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56245565 original size:40 final size:40
Alignment explanation
Indices: 56245416--56245601 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
56245406 TTGAATGATG
* * * *
56245416 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
56245456 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATATTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
56245496 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
56245536 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
56245577 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
56245602 AACGAGGAAC
Statistics
Matches: 128, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 117 0.91
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:56245619 original size:80 final size:79
Alignment explanation
Indices: 56245469--56245634 Score: 185
Period size: 80 Copynumber: 2.1 Consensus size: 79
56245459 GGACTAAGAT
* ** **
56245469 CCGAAGGCATTTGTGCGAGATATTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGGAACTA
*
56245534 AATCCGGGTTAAGTC
66 AATCC-GGTTAAATC
* *
56245549 CCGAAGGCATTTGTGCGA-ATTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGGAA
1 CCGAAGGCATTTGTGCGAGA-TACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGGAA
* *
56245611 CTATATCCGGTTAAATT
63 CTAAATCCGGTTAAATC
56245628 CCGAAGG
1 CCGAAGG
56245635 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
79 16 0.22
80 55 0.75
81 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGGAACTA
AATCCGGTTAAATC
Found at i:56253548 original size:40 final size:40
Alignment explanation
Indices: 56253399--56253584 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
56253389 TTGAATGATG
* * * *
56253399 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
56253439 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
56253479 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
56253519 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
56253560 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
56253585 AACGAGGAGC
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 119 0.92
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:56253602 original size:80 final size:79
Alignment explanation
Indices: 56253452--56253617 Score: 187
Period size: 80 Copynumber: 2.1 Consensus size: 79
56253442 GGACTAAGAT
** *
56253452 CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTGACTA
*
56253517 AATCCGGGTTAAGTC
66 AATCC-GGTTAAATC
* *
56253532 CCGAAGGCATTTGTGCGA-ATTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAG-GA
1 CCGAAGGCATTTGTGCGAGA-TACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTGA
* *
56253593 GCTATATCCGGTTAAATT
63 -CTAAATCCGGTTAAATC
56253611 CCGAAGG
1 CCGAAGG
56253618 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
79 17 0.23
80 55 0.74
81 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTGACTA
AATCCGGTTAAATC
Found at i:56258183 original size:43 final size:43
Alignment explanation
Indices: 56258117--56258314 Score: 306
Period size: 43 Copynumber: 4.6 Consensus size: 43
56258107 CTGGCATTAC
56258117 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
56258160 GCCTACTAGGCACGAAGGCCCGAATACACATCACCGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
56258203 GCTTGCTAGGCACGAAGGCCCGAATACACATCACCGGTACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * ** *
56258246 GCCTGCTAGGCACAAAGGCCTGAATACACATCACCGATACAAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
56258289 GCCTGCTAGGCACAAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
56258315 TAATACCAGC
Statistics
Matches: 143, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 143 1.00
ACGTcount: A:0.32, C:0.32, G:0.24, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:56258398 original size:38 final size:38
Alignment explanation
Indices: 56258311--56258414 Score: 127
Period size: 38 Copynumber: 2.7 Consensus size: 38
56258301 CAAAGGCCCG
* * * *
56258311 AATATAATACCAGCACTAGGCCTGCGGGATTTATCCCT
1 AATATAATACCAGCACAAAGCCTGCGGGATTTAACCCA
* *
56258349 GATATAATACCAGCACGAAGCCTGCGGGATTTAACCCA
1 AATATAATACCAGCACAAAGCCTGCGGGATTTAACCCA
** *
56258387 AATATTTTACCAGCACAAAGCCTACGGG
1 AATATAATACCAGCACAAAGCCTGCGGG
56258415 TCTTTAAGCC
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 56 1.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (38 bp):
AATATAATACCAGCACAAAGCCTGCGGGATTTAACCCA
Found at i:56262951 original size:18 final size:18
Alignment explanation
Indices: 56262928--56262962 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
56262918 GGTACCTGTA
*
56262928 TATATATATTTATATATG
1 TATATATATTTACATATG
56262946 TATATATATTTACATAT
1 TATATATATTTACATAT
56262963 TTTTGCACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (18 bp):
TATATATATTTACATATG
Found at i:56281497 original size:42 final size:43
Alignment explanation
Indices: 56281430--56281534 Score: 133
Period size: 43 Copynumber: 2.5 Consensus size: 43
56281420 AGGGTCACTA
** *
56281430 AGATTACGTGTAAGACCATCTCTGGGATA-TGGCATCGATATG
1 AGATTACGTGTAAGACCATAGCTGGGATATTGGCATCGATACG
* *
56281472 AGACTT-TGTGTAAGACCATAGCTGGGCTATTGGCATCGATACG
1 AGA-TTACGTGTAAGACCATAGCTGGGATATTGGCATCGATACG
*
56281515 AGATTACATGTAAGACCATA
1 AGATTACGTGTAAGACCATA
56281535 TCCAGGATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
42 24 0.45
43 29 0.55
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (43 bp):
AGATTACGTGTAAGACCATAGCTGGGATATTGGCATCGATACG
Found at i:56283604 original size:28 final size:27
Alignment explanation
Indices: 56283532--56283619 Score: 133
Period size: 28 Copynumber: 3.3 Consensus size: 27
56283522 AGAATGGTTG
* *
56283532 CCAGAACAGATA-TTGTGACAGAGCCA
1 CCAGAACAGATATTTGTGGCATAGCCA
*
56283558 CCAGAACAGATATTCGTGGCATAGCCA
1 CCAGAACAGATATTTGTGGCATAGCCA
56283585 CCAGAAACAGATATTTGTGGCATAGCCA
1 CCAG-AACAGATATTTGTGGCATAGCCA
56283613 CCAGAAC
1 CCAGAAC
56283620 GCTTCTTCCA
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
26 12 0.21
27 18 0.32
28 26 0.46
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGGCATAGCCA
Found at i:56285247 original size:40 final size:40
Alignment explanation
Indices: 56285024--56285233 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
56285014 TCCTCGTTCA
* * * * *
56285024 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
56285063 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
56285103 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
56285143 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
56285183 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
56285223 AAGGCCTTCGG
1 AATGCCTTCGG
56285234 ATCTTAGTCC
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 34 0.21
40 125 0.79
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:56285270 original size:80 final size:80
Alignment explanation
Indices: 56285027--56285286 Score: 265
Period size: 80 Copynumber: 3.3 Consensus size: 80
56285017 TCGTTCAAAT
* * * * * * * *
56285027 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* * *
56285091 ACAACTCGCACGAAT
66 ATAACTAGCACGAAA
* * *
56285106 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* *
56285171 ATAACTCGCACGAAT
66 ATAACTAGCACGAAA
* * **
56285186 GCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATAT
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATAT
* **
56285250 ATTCGCTTAGCAC-AAA
65 AATAAC-TAGCACGAAA
*
56285266 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
56285287 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
79 34 0.22
80 119 0.75
81 5 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
ATAACTAGCACGAAA
Found at i:56285270 original size:120 final size:118
Alignment explanation
Indices: 56285022--56285286 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 118
56285012 GCTCCTCGTT
* * *
56285022 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAA-GCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGA
* * * *
56285087 TTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
65 TTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCA
* * * *
56285141 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 C-AAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCACAC-AATGCCTTCGGGACATAACCCGG
** * ** * **
56285206 ATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATATATTCGCTTAGCA
64 ATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATAATAAC-TAGCA
56285262 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
56285287 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
119 35 0.29
120 81 0.67
121 5 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (118 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGAT
TTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCA
Found at i:56293179 original size:40 final size:40
Alignment explanation
Indices: 56292956--56293165 Score: 314
Period size: 40 Copynumber: 5.3 Consensus size: 40
56292946 TCCTCGTTCA
* * * * *
56292956 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
56292995 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
56293035 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
56293075 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
56293115 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
56293155 AAGGCCTTCGG
1 AATGCCTTCGG
56293166 ATCTTAGTCC
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 34 0.21
40 125 0.79
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:56293202 original size:80 final size:80
Alignment explanation
Indices: 56292959--56293218 Score: 265
Period size: 80 Copynumber: 3.3 Consensus size: 80
56292949 TCGTTCAAAT
* * * * * * * *
56292959 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* * *
56293023 ACAACTCGCACGAAT
66 ATAACTAGCACGAAA
* * *
56293038 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* *
56293103 ATAACTCGCACGAAT
66 ATAACTAGCACGAAA
* * **
56293118 GCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATAT
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATAT
* **
56293182 ATTCGCTTAGCAC-AAA
65 AATAAC-TAGCACGAAA
*
56293198 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
56293219 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
79 34 0.22
80 119 0.75
81 5 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
ATAACTAGCACGAAA
Found at i:56293202 original size:120 final size:118
Alignment explanation
Indices: 56292954--56293218 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 118
56292944 GCTCCTCGTT
* * *
56292954 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAA-GCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGA
* * * *
56293019 TTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
65 TTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCA
* * * *
56293073 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 C-AAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCACAC-AATGCCTTCGGGACATAACCCGG
** * ** * **
56293138 ATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGATATATTCGCTTAGCA
64 ATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATAATAAC-TAGCA
56293194 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
56293219 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
119 35 0.29
120 81 0.67
121 5 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (118 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGAT
TTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCA
Found at i:56310021 original size:46 final size:46
Alignment explanation
Indices: 56309965--56310134 Score: 161
Period size: 46 Copynumber: 3.7 Consensus size: 46
56309955 TGGTTGAGCA
56309965 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* * *
56310011 TCCGAACTCGTTGAGTTGAGTCCAAGTT---C-GTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATG-GATGCGAA-T--G
* * *
56310056 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
* * * *
56310104 CCCTAGCTCGTTGAGTTGAGTCTGAGTTCAC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAC
56310135 TTAGGGGCGG
Statistics
Matches: 99, Mismatches: 14, Indels: 22
0.73 0.10 0.16
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
45 1 0.01
46 53 0.54
47 26 0.26
48 1 0.01
50 4 0.04
51 4 0.04
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
Found at i:56324980 original size:94 final size:94
Alignment explanation
Indices: 56324732--56325075 Score: 348
Period size: 94 Copynumber: 3.7 Consensus size: 94
56324722 ATATTGTCGA
* * * *
56324732 TGCCATGTCCCTGACATGGTCTTACACTGGCTCTCATA-TACGCGTTCTGATGCATGTCCCAGAC
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATG-G--CCGATGCATGTCCCAGAC
*
56324796 ATGTCTTACACTAGCA--CAACTCT-TAGCC-G
63 ATGTCTTACACTAGCACTCATCTCTGT-GCCAG
* * *
56324825 ATG-CGTGTCCCAGACAT-GTCTTACACTTGCTATC-TCTGTCGA-GGCCGATGCATGTCCCAGA
1 -TGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGT--ATGGCCGATGCATGTCCCAGA
*
56324886 CATGTCTTACACTGGCACTCATCTCTGTGCCAG
62 CATGTCTTACACTAGCACTCATCTCTGTGCCAG
* *
56324919 TGCCATGTCCTAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGACATG
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCCAGACATG
* * * *
56324984 TCTTACACTAGCCCTCGTCT-GGATGCCAA
66 TCTTACACTAGCACTCATCTCTG-TGCCAG
* * * * * *
56325013 TGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGAAGCATGTCCTAGACA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCCAGACA
56325076 CATTTTACAC
Statistics
Matches: 211, Mismatches: 26, Indels: 26
0.80 0.10 0.10
Matches are distributed among these distances:
91 33 0.16
92 15 0.07
93 27 0.13
94 116 0.55
95 19 0.09
96 1 0.00
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.28
Consensus pattern (94 bp):
TGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCCAGACATG
TCTTACACTAGCACTCATCTCTGTGCCAG
Found at i:56325075 original size:47 final size:45
Alignment explanation
Indices: 56324729--56325089 Score: 246
Period size: 47 Copynumber: 7.7 Consensus size: 45
56324719 GATATATTGT
* * * *
56324729 CGATGCCATGTCCCTGACATGGTCTTACACTGGCTCTCATATACGCGTTC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCT--GTG-GC
* * * * *
56324779 TGATGCATGTCCCAGACATGTCTTACACTAGCAC-AACTCT-TAGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCA-TCTGTGGC
* * *
56324823 CGATGCGTGTCCCAGACATGTCTTACACTTGCTATC-TCTGTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTGT---GGC
* *
56324870 CGATGCATGTCCCAGACATGTCTTACACTGGCACTCATCTCTGTGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTGTG-GC
* * * *
56324916 C-AGTGCCATGTCCTAGACATGGTCTTACACTGGCTATCATAGTATGGC
1 CGA-TG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTGTGGC
* * * *
56324964 TGATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTG-GATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTGTG--GC
* * *
56325010 CAATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTGTGGC
* * ** *
56325058 CGAAGCATGTCCTAGACACATTTTACACTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC
56325090 GCACAAATCA
Statistics
Matches: 244, Mismatches: 48, Indels: 42
0.73 0.14 0.13
Matches are distributed among these distances:
43 3 0.01
44 32 0.13
45 3 0.01
46 36 0.15
47 85 0.35
48 61 0.25
49 19 0.08
50 5 0.02
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTGTGGC
Found at i:56332454 original size:47 final size:45
Alignment explanation
Indices: 56332257--56332615 Score: 201
Period size: 47 Copynumber: 7.7 Consensus size: 45
56332247 GATATATTGT
*
56332257 CGATGCCATGTCCCAGACATGATCTTACACTAGTTCTCAT-ATACGCT-TGC
1 CGATG-CATGTCCCAGACATG-TCTTACACT-G-GCT-ATCATA--CTATGC
* *
56332307 TGATGCATGTCCCAGACATGTCTTACACTAGC-A-CA-ACTCTTAT-C
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTATCATA--C-TATGC
* * * * * * * *
56332351 TGATGCGTGTCCCAGACATGTCTTCCACTGGTTATCTCTGTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTATC-AT-ACTATGC
* * * *
56332398 CGATGCATGTCCCAGACATGTCTTACATTGGCTGTCATCTCTCTGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTATCAT-ACTATGC
* * *
56332444 CGGTGCCATGTCCCAGACATGGCTTACACTGGCTATCATAGTATGC
1 CGATG-CATGTCCCAGACATGTCTTACACTGGCTATCATACTATGC
* * ** ** * *
56332490 TGATGCATGTCCTAGACATGTCTTACACTAACCCTCGT-CGGGATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTATCATAC--TATGC
* * * * *
56332536 TGATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATACTAT-GC
* *
56332584 CGAAGCATGTCCCAGACACGTCTTACACTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGC
56332616 GCACAAATCA
Statistics
Matches: 239, Mismatches: 54, Indels: 36
0.73 0.16 0.11
Matches are distributed among these distances:
43 3 0.01
44 32 0.13
45 28 0.12
46 41 0.17
47 87 0.36
48 29 0.12
49 15 0.06
50 4 0.02
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.28
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTATCATACTATGC
Found at i:56341936 original size:52 final size:51
Alignment explanation
Indices: 56341820--56341996 Score: 252
Period size: 52 Copynumber: 3.5 Consensus size: 51
56341810 AGATACCCGA
* * * *
56341820 TGGCCTGCACATAGTACCACCCTTGT-AGTCAAAGCTACCTTCTTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTATCTTCTTCACAAAG
56341871 TGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATC-TTCTTCACAAAG
* *
56341923 TGGCCTTCACATAGTACCATACTTGTGACC-AAGCTATC-TCTTCTCAAAG
1 TGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAAG
*
56341972 TGGCCTTCACATAGTACTACACTTG
1 TGGCCTTCACATAGTACCACACTTG
56341997 GGTCACGAGT
Statistics
Matches: 116, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
49 33 0.28
51 41 0.35
52 42 0.36
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (51 bp):
TGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAAG
Found at i:56343995 original size:25 final size:25
Alignment explanation
Indices: 56343967--56344061 Score: 84
Period size: 25 Copynumber: 3.8 Consensus size: 25
56343957 TGCTCATATG
*
56343967 AGCTATGAATCGGTATGCTCACACA
1 AGCTATAAATCGGTATGCTCACACA
* * * * *
56343992 AGCTGTAAATTGATATGCTCTCACG
1 AGCTATAAATCGGTATGCTCACACA
* * * *
56344017 AGCTGTAAATTGCTATGCT-ATTACA
1 AGCTATAAATCGGTATGCTCA-CACA
56344042 AGCTATAAATCGGTATGCTC
1 AGCTATAAATCGGTATGCTC
56344062 TTATGAGTTG
Statistics
Matches: 55, Mismatches: 13, Indels: 3
0.77 0.18 0.04
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.31
Consensus pattern (25 bp):
AGCTATAAATCGGTATGCTCACACA
Found at i:56352810 original size:34 final size:33
Alignment explanation
Indices: 56352772--56352870 Score: 99
Period size: 34 Copynumber: 2.9 Consensus size: 33
56352762 TAATAGTTAG
* *
56352772 GGCCTTAGCCCATTTCAGTAACAGTAGCAATCTA
1 GGCCTGAGCCC-TTTCAGTAATAGTAGCAATCTA
* * * * *
56352806 GGCCTGAACCCGTTGCAGTAATAGTAGTAGTCTG
1 GGCCTGAGCCC-TTTCAGTAATAGTAGCAATCTA
56352840 GGCCTGAGCCCTTTACAGTAATAGTATGCAA
1 GGCCTGAGCCCTTT-CAGTAATAGTA-GCAA
56352871 ACAGAAATCC
Statistics
Matches: 51, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
33 2 0.04
34 47 0.92
35 2 0.04
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.26
Consensus pattern (33 bp):
GGCCTGAGCCCTTTCAGTAATAGTAGCAATCTA
Found at i:56353924 original size:43 final size:42
Alignment explanation
Indices: 56353831--56354059 Score: 300
Period size: 43 Copynumber: 5.3 Consensus size: 42
56353821 TTCAACTAAC
* *
56353831 TCGCAGACTTAGTGCCGATTAATTAGCTGAA-CTATAATTGTA
1 TCGCACACTTAGTGCCAATTAATTAGC-GAAGCTATAATTGTA
56353873 TCGCACACTTAGTGCCAATTAATTAGTCGAAGCTATAATTGTA
1 TCGCACACTTAGTGCCAATTAATTAG-CGAAGCTATAATTGTA
* * *
56353916 TCGTACACTTAGTGCCAATTAATTACCCGAGGCTATAATTGTA
1 TCGCACACTTAGTGCCAATTAATTA-GCGAAGCTATAATTGTA
*
56353959 TCGCACACTTAGTGCCAATTAATTAGCTGAGGCTATAATTGTA
1 TCGCACACTTAGTGCCAATTAATTAGC-GAAGCTATAATTGTA
* * *
56354002 TCGCACACTTAGTGCCAATTAATTAGCCGTAGCTACTTCATT-TG
1 TCGCACACTTAGTGCCAATTAATTAG-CGAAGCTA--TAATTGTA
56354046 TCGCACACTTAGTG
1 TCGCACACTTAGTG
56354060 TCTCAAATTC
Statistics
Matches: 169, Mismatches: 11, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
42 28 0.17
43 121 0.72
44 16 0.09
45 4 0.02
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (42 bp):
TCGCACACTTAGTGCCAATTAATTAGCGAAGCTATAATTGTA
Found at i:56360171 original size:43 final size:43
Alignment explanation
Indices: 56360124--56360347 Score: 285
Period size: 43 Copynumber: 5.2 Consensus size: 43
56360114 AACTAACTCA
* * * *
56360124 TACACTTTGTGTCGATTAATTAGCTGAAGCTATAATTGTATCG
1 TACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATCG
*
56360167 TACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATCA
1 TACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATCG
* *
56360210 CACACTTAGTGCCAATTAATTAGCCGAGGCTATAATTGTATC-
1 TACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATCG
*
56360252 TCACACTTAGTGCCAATTAATTAG-CGAGGCTATAATTGTA-CTG
1 T-ACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATC-G
* *
56360295 GACACTTAGTGCCAATTAATTAGCCGTAGCTACTTAATT-TATCG
1 TACACTTAGTGCCAATTAATTAGCCGAAGCTA--TAATTGTATCG
*
56360339 CACACTTAG
1 TACACTTAG
56360348 GGTTTCAAAT
Statistics
Matches: 162, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
41 1 0.01
42 38 0.23
43 106 0.65
44 11 0.07
45 6 0.04
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (43 bp):
TACACTTAGTGCCAATTAATTAGCCGAAGCTATAATTGTATCG
Found at i:56361363 original size:61 final size:61
Alignment explanation
Indices: 56361265--56361385 Score: 215
Period size: 61 Copynumber: 2.0 Consensus size: 61
56361255 CCACTTAAGA
* *
56361265 ACCTTAAATTTTAAGTTCTATAGCTATTTGACGCCTTTAGCTTATAGAACACAACTTTTAG
1 ACCTTAAATTTTAAGTTCTATAGCTATTTGACACCTTTAGATTATAGAACACAACTTTTAG
*
56361326 ACCTTAACTTTTAAGTTCTATAGCTATTTGACACCTTTAGATTATAGAACACAACTTTTA
1 ACCTTAAATTTTAAGTTCTATAGCTATTTGACACCTTTAGATTATAGAACACAACTTTTA
56361386 CACTTTACGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (61 bp):
ACCTTAAATTTTAAGTTCTATAGCTATTTGACACCTTTAGATTATAGAACACAACTTTTAG
Found at i:56366584 original size:40 final size:39
Alignment explanation
Indices: 56366498--56366591 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 39
56366488 TCGACTATGT
*
56366498 TAGGCACTAAGTGTGCGTTTCAAACAGCTTTGGCTATAAA
1 TAGGCACTAAGTGTGCGGTTCAAACAGCTTTGGCTAT-AA
** *
56366538 TA-GCACTAAGTGTGCGAGTTGGAATAGCTTTGGCTAT-A
1 TAGGCACTAAGTGTGCG-GTTCAAACAGCTTTGGCTATAA
56366576 TGAGGCACTAAGTGTG
1 T-AGGCACTAAGTGTG
56366592 TGATACCGAG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
38 2 0.04
39 15 0.32
40 30 0.64
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (39 bp):
TAGGCACTAAGTGTGCGGTTCAAACAGCTTTGGCTATAA
Found at i:56382337 original size:34 final size:33
Alignment explanation
Indices: 56382299--56382380 Score: 85
Period size: 34 Copynumber: 2.5 Consensus size: 33
56382289 TTAGCCCCTT
56382299 TTTCAGTAACAGTATCAGTCTGGACCTAAGCCCA
1 TTTCAGTAACAGTAT-AGTCTGGACCTAAGCCCA
* ** * * *
56382333 TTTCAGTAGCAAAAGTAGTCTGGGCCTGAGCTCA
1 TTTCAGTAACAGTA-TAGTCTGGACCTAAGCCCA
56382367 TTTCAGT-ACAGTAT
1 TTTCAGTAACAGTAT
56382381 GTAAACAAAG
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
32 1 0.03
33 3 0.08
34 33 0.87
35 1 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (33 bp):
TTTCAGTAACAGTATAGTCTGGACCTAAGCCCA
Found at i:56389708 original size:28 final size:28
Alignment explanation
Indices: 56389677--56389752 Score: 125
Period size: 28 Copynumber: 2.7 Consensus size: 28
56389667 ATCAAATATA
56389677 ACACTTAGTGTGCGAAATATTGAGAATG
1 ACACTTAGTGTGCGAAATATTGAGAATG
*
56389705 ACACTTAGTGTGCGAGATATTGAGAATG
1 ACACTTAGTGTGCGAAATATTGAGAATG
* *
56389733 GCACTTAGTGTGCAAAATAT
1 ACACTTAGTGTGCGAAATAT
56389753 CTAATGAATC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (28 bp):
ACACTTAGTGTGCGAAATATTGAGAATG
Found at i:56391824 original size:39 final size:39
Alignment explanation
Indices: 56391660--56391842 Score: 170
Period size: 40 Copynumber: 4.6 Consensus size: 39
56391650 GTGAATGCTG
* * * * * * *
56391660 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTACGTCCCGAAGGCATTGTGC-GAGTTATTAAA
* * * *
56391700 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATATTAAA
1 TCCGGGTTACG-TCCCGAAGG-CATTGTGCGAGTTATTAAA
* *
56391740 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTACGTCCCGAAGGCATT-GTGCGAGTTATTAAA
* *
56391780 TCCGGGTTACGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTACGTCCCGAAGGCATTGTGCGAGTTATTAAA
* *
56391819 ACCGGGCTACGTCCCGAAGGCATT
1 TCCGGGTTACGTCCCGAAGGCATT
56391843 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 17, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
39 38 0.31
40 75 0.61
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTACGTCCCGAAGGCATTGTGCGAGTTATTAAA
Found at i:56410226 original size:40 final size:40
Alignment explanation
Indices: 56410179--56410314 Score: 175
Period size: 40 Copynumber: 3.4 Consensus size: 40
56410169 CACAATTGAA
* *
56410179 TTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGCC
1 TTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCC
* *
56410219 TTTGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCC
1 TTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCC
* * * *
56410259 TTCGGGTCTTAGCCCGGATAAAATC-ACTAGCATAAATGCC
1 TTCGGGTCTTAGCCCGGAT-ATAGCAACTCGCACAAATGCC
*
56410299 TTCGGGACTTAGCCCG
1 TTCGGGTCTTAGCCCG
56410315 ATAAAATCAC
Statistics
Matches: 86, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 82 0.95
41 4 0.05
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGCC
Found at i:56410329 original size:39 final size:40
Alignment explanation
Indices: 56410212--56410346 Score: 193
Period size: 40 Copynumber: 3.4 Consensus size: 40
56410202 CAACTCGCAC
* * * * *
56410212 AAATGCCTTTGGGTCTTAGCCCGGAT-ATATCAACTCGCAC
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTAGCAT
*
56410252 AAATGCCTTCGGGTCTTAGCCCGGATAAAATCACTAGCAT
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
56410292 AAATGCCTTCGGGACTTAGCCC-GATAAAATCACTAGCAT
1 AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
56410331 AAATGCCTTCGGGACT
1 AAATGCCTTCGGGACT
56410347 CAGTCCAGAT
Statistics
Matches: 89, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
39 33 0.37
40 52 0.58
41 4 0.04
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (40 bp):
AAATGCCTTCGGGACTTAGCCCGGATAAAATCACTAGCAT
Found at i:56414391 original size:22 final size:22
Alignment explanation
Indices: 56414347--56414391 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
56414337 CTCTTAGTTC
* *
56414347 TTTAGGTATTATCTTTATGGGT
1 TTTAGGTATTATCTTAATAGGT
56414369 TTTAGGCTATT-TCTTAATAGGT
1 TTTAGG-TATTATCTTAATAGGT
56414391 T
1 T
56414392 CTATCTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.20, C:0.07, G:0.20, T:0.53
Consensus pattern (22 bp):
TTTAGGTATTATCTTAATAGGT
Found at i:56418159 original size:20 final size:20
Alignment explanation
Indices: 56418134--56418173 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
56418124 ATTGAGCTAA
56418134 ATAGATGGTCGAACCCTAGC
1 ATAGATGGTCGAACCCTAGC
56418154 ATAGATGGTCGAACCCTAGC
1 ATAGATGGTCGAACCCTAGC
56418174 TTGTTGTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.20
Consensus pattern (20 bp):
ATAGATGGTCGAACCCTAGC
Found at i:56418736 original size:27 final size:26
Alignment explanation
Indices: 56418700--56418801 Score: 129
Period size: 27 Copynumber: 3.9 Consensus size: 26
56418690 GACTTTTGAA
*
56418700 ATTACTGAAATACCCTTGTAGGGTAGA
1 ATTAC-GAAATACCCTTGTAGGGTAGG
56418727 ATTAACGAAATACCCTTGTAGGGTAGG
1 ATT-ACGAAATACCCTTGTAGGGTAGG
* *
56418754 ATTATCGAAATACCCCTGTAAGGTAGG
1 ATTA-CGAAATACCCTTGTAGGGTAGG
56418781 ATT---AAATACCCTTGTAGGGTA
1 ATTACGAAATACCCTTGTAGGGTA
56418802 AAATAACCAT
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
23 16 0.24
26 1 0.01
27 49 0.72
28 2 0.03
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (26 bp):
ATTACGAAATACCCTTGTAGGGTAGG
Found at i:56418900 original size:14 final size:14
Alignment explanation
Indices: 56418881--56418914 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
56418871 ATGACTGCTT
56418881 TGACTGTGAATGTA
1 TGACTGTGAATGTA
**
56418895 TGACTGTGGTTGTA
1 TGACTGTGAATGTA
56418909 TGACTG
1 TGACTG
56418915 ATATGCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.09, G:0.32, T:0.38
Consensus pattern (14 bp):
TGACTGTGAATGTA
Found at i:56419393 original size:32 final size:31
Alignment explanation
Indices: 56419291--56419393 Score: 80
Period size: 32 Copynumber: 3.2 Consensus size: 31
56419281 ATATTTATCC
* * * *
56419291 AAGGCTGTGTGTCGATTATATTACCGTCACTG
1 AAGGCTTTGTGCCAATTATAATACCGT-ACTG
* * ** * *
56419323 ATGGCTATGTGCCAAACATAATACGGTTACCG
1 AAGGCTTTGTGCCAATTATAATACCG-TACTG
*
56419355 ATGGCTTTGTGCCAATTATAATACCAGTACTG
1 AAGGCTTTGTGCCAATTATAATACC-GTACTG
56419387 AAGGCTT
1 AAGGCTT
56419394 AGAGCCGCAT
Statistics
Matches: 54, Mismatches: 15, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
32 52 0.96
33 2 0.04
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.31
Consensus pattern (31 bp):
AAGGCTTTGTGCCAATTATAATACCGTACTG
Found at i:56423033 original size:26 final size:27
Alignment explanation
Indices: 56423004--56423056 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
56422994 TTGTACATCT
56423004 CATAAGGGCATAACACTCA-TTTATCA
1 CATAAGGGCATAACACTCATTTTATCA
* * *
56423030 CATAGGGGCATAATAGTCATTTTATCA
1 CATAAGGGCATAACACTCATTTTATCA
56423057 ACTGAGGGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (27 bp):
CATAAGGGCATAACACTCATTTTATCA
Found at i:56428922 original size:46 final size:46
Alignment explanation
Indices: 56428870--56429045 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
56428860 TATTTGGGCA
56428870 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
56428916 TCCGAACTCGTTGAGTTGAGTCCGA----ATTTGTGAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* * *
56428961 CATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
56429009 CCCGAGCTCGTTGAGTTGAGTCCGGGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56429046 GTGGGTTACA
Statistics
Matches: 106, Mismatches: 13, Indels: 22
0.75 0.09 0.16
Matches are distributed among these distances:
42 7 0.07
43 5 0.05
45 1 0.01
46 58 0.55
47 23 0.22
48 1 0.01
50 4 0.04
51 7 0.07
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:56432665 original size:24 final size:24
Alignment explanation
Indices: 56432631--56432680 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
56432621 ACTTGTGTAT
* *
56432631 TGATCCGTAGAAATCCCTAAATTA
1 TGATCCATAGAAATCCCAAAATTA
*
56432655 TGATCCATAGAAATCTCAAAATTA
1 TGATCCATAGAAATCCCAAAATTA
56432679 TG
1 TG
56432681 TTAATATCTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (24 bp):
TGATCCATAGAAATCCCAAAATTA
Found at i:56435530 original size:27 final size:27
Alignment explanation
Indices: 56435499--56435676 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
56435489 TAAATTGTAC
56435499 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
56435526 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56435552 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
56435580 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
56435608 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56435635 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
56435662 AGTACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56435677 GACTCAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:56435613 original size:82 final size:81
Alignment explanation
Indices: 56435500--56435655 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
56435490 AAATTGTACA
* *
56435500 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
56435564 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
56435581 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
56435646 TGCGAGTTGA
65 TGCGAATTGA
56435656 TTATATAGTA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:56441686 original size:29 final size:28
Alignment explanation
Indices: 56441643--56441720 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
56441633 TCATGAGATT
56441643 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
* *
56441673 -GCACTAAGTGTGCGAGTTTACAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
56441700 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
56441721 GATTATTAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.12
29 34 0.81
30 3 0.07
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:56441860 original size:29 final size:29
Alignment explanation
Indices: 56441823--56441888 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
56441813 CGGAAAAAGG
*
56441823 TAAGTGTGTGAACTTGAAA-TGCATGGTAC
1 TAAGTGTGTG-ACTTGAAAGTGCATGGCAC
* *
56441852 TAAGTGTGTGAGTTTAAAGTGCATGGCAC
1 TAAGTGTGTGACTTGAAAGTGCATGGCAC
*
56441881 TGAGTGTG
1 TAAGTGTG
56441889 CGTGGGTGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 6 0.19
29 26 0.81
ACGTcount: A:0.27, C:0.09, G:0.32, T:0.32
Consensus pattern (29 bp):
TAAGTGTGTGACTTGAAAGTGCATGGCAC
Found at i:56441969 original size:174 final size:174
Alignment explanation
Indices: 56441675--56442000 Score: 501
Period size: 174 Copynumber: 1.9 Consensus size: 174
56441665 ATTGTACAGC
* * * *
56441675 ACTAAGTGTGCGAGTTTACAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTAAGTG
1 ACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGGTGATTACTAAACACTAAGTG
* ** *
56441740 TGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATT
66 TGCGAACCCAATATATATTTTCCATAAATTATTTACACGAAGGGTGCGACTTTACCGAGTCAATT
56441805 TTGGACAGCGGAAAAAGGTAAGTGTGTGAACTTGAAATGCATGGT
131 TTGGACAGCGG-AAAAGGTAAGTGTGTGAACTTGAAATGCATGGT
* * * * * *
56441850 ACTAAGTGTGTGAGTTTAAAGTGCATGGCACTGAGTGTGCGTGGGTGATTACTAAACATTATGTG
1 ACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGGTGATTACTAAACACTAAGTG
*
56441915 TGC-AACCCAATATATATTTTCCATAAATTATTTACACGAAGGGTGCGGCTTTACCGAGTCAATT
66 TGCGAACCCAATATATATTTTCCATAAATTATTTACACGAAGGGTGCGACTTTACCGAGTCAATT
56441979 TTGGACAGCGGAAAAGGTAAGT
131 TTGGACAGCGGAAAAGGTAAGT
56442001 ACCTTGAGTT
Statistics
Matches: 136, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
173 11 0.08
174 67 0.49
175 58 0.43
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
ACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGGTGATTACTAAACACTAAGTG
TGCGAACCCAATATATATTTTCCATAAATTATTTACACGAAGGGTGCGACTTTACCGAGTCAATT
TTGGACAGCGGAAAAGGTAAGTGTGTGAACTTGAAATGCATGGT
Found at i:56446828 original size:27 final size:27
Alignment explanation
Indices: 56446797--56446972 Score: 201
Period size: 27 Copynumber: 6.5 Consensus size: 27
56446787 TAAATTGTAC
56446797 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
56446824 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56446850 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
56446878 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
56446906 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56446933 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
56446960 AGCACTGAGTGTG
1 AGCACTAAGTGTG
56446973 TGGACTCAAT
Statistics
Matches: 127, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:56446911 original size:82 final size:81
Alignment explanation
Indices: 56446798--56446953 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
56446788 AAATTGTACA
* *
56446798 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
56446862 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
56446879 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
56446944 TGCGAGTTGA
65 TGCGAATTGA
56446954 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:56446965 original size:82 final size:81
Alignment explanation
Indices: 56446794--56446972 Score: 225
Period size: 82 Copynumber: 2.2 Consensus size: 81
56446784 GATTAAATTG
* *
56446794 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
56446859 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
56446875 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
56446939 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
56446957 TATAGCACTGAGTGTG
1 TACAGCACTAAGTGTG
56446973 TGGACTCAAT
Statistics
Matches: 82, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:56459019 original size:49 final size:48
Alignment explanation
Indices: 56458963--56459146 Score: 233
Period size: 49 Copynumber: 3.7 Consensus size: 48
56458953 TATTTGGTAG
*
56458963 CATAGTAGCCTGCACTTAGTACCACACATGTGACCAATAATCTGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT-ATCTGGTACA
* * * * *
56459012 CGTAGTAGCCTGCACTTAGTACTACACATGTGATCACAGTTTTTGGGTACG
1 CATAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAATATCT-GGTACA
* **
56459063 CATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACA
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACCAA-TATCTGGTACA
*
56459112 CATAGTAGCCTGCACTTAGTACTACACACGTGACC
1 CATAGTAGCCTGCACTTAGTACTACACATGTGACC
56459147 TCACAATAGT
Statistics
Matches: 115, Mismatches: 16, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
49 70 0.61
50 6 0.05
51 39 0.34
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (48 bp):
CATAGTAGCCTGCACTTAGTACTACACATGTGACCAATATCTGGTACA
Found at i:56459075 original size:100 final size:99
Alignment explanation
Indices: 56458958--56459144 Score: 302
Period size: 100 Copynumber: 1.9 Consensus size: 99
56458948 GAAGCTATTT
* ** *
56458958 GGTAGCATAGTAGCCTGCACTTAGTACCACACATGTGACCAATAATCTGGTACACGTAGTAGCCT
1 GGTAGCATAGTAGCCTGCACTTAGTACCACACATGCGACCAATAATCCAGTACACATAGTAGCCT
*
56459023 GCACTTAGTACTACACATGTGATCACAGTTTTTG
66 GCACTTAGTACTACACACGTGATCACAGTTTTTG
* *
56459057 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACATAGTAGCC
1 GGTA-GCATAGTAGCCTGCACTTAGTACCACACATGCGACCAATAATCCAGTACACATAGTAGCC
56459122 TGCACTTAGTACTACACACGTGA
65 TGCACTTAGTACTACACACGTGA
56459145 CCTCACAATA
Statistics
Matches: 80, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
99 4 0.05
100 76 0.95
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (99 bp):
GGTAGCATAGTAGCCTGCACTTAGTACCACACATGCGACCAATAATCCAGTACACATAGTAGCCT
GCACTTAGTACTACACACGTGATCACAGTTTTTG
Found at i:56459139 original size:26 final size:26
Alignment explanation
Indices: 56459063--56459139 Score: 65
Period size: 26 Copynumber: 3.1 Consensus size: 26
56459053 TTTGGGTACG
56459063 CATAGTAGCCTGCACTTAGTACTACA
1 CATAGTAGCCTGCACTTAGTACTACA
* * * *
56459089 CAT-G-CGAC--CAATTA-TCCAGTACA
1 CATAGTAGCCTGCACTTAGT--ACTACA
56459112 CATAGTAGCCTGCACTTAGTACTACA
1 CATAGTAGCCTGCACTTAGTACTACA
56459138 CA
1 CA
56459140 CGTGACCTCA
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 5 0.14
23 8 0.22
24 3 0.08
25 3 0.08
26 10 0.28
27 5 0.14
28 1 0.03
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (26 bp):
CATAGTAGCCTGCACTTAGTACTACA
Found at i:56466585 original size:24 final size:23
Alignment explanation
Indices: 56466558--56466692 Score: 85
Period size: 25 Copynumber: 5.4 Consensus size: 23
56466548 CTGGAGGCCT
56466558 AGCCTCTTTTAATAACTGGGACAA
1 AGCC-CTTTTAATAACTGGGACAA
** *
56466582 AGCCCTTTCTGGTAAACTGGGGCAA
1 AGCCCTTT-TAAT-AACTGGGACAA
56466607 AGCCCTTTTCAATAAACTGAGG-CATA
1 AGCCCTTTT-AAT-AACTG-GGACA-A
** *
56466633 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTT-AAT-AACTGGGACA-A
56466659 AGCCCTTTTAAATAAACTGGG-CATA
1 AGCCCTTTT-AAT-AACTGGGACA-A
56466684 AGCCCTTTT
1 AGCCCTTTT
56466693 CGGTAAACTG
Statistics
Matches: 95, Mismatches: 10, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
23 4 0.04
24 7 0.07
25 42 0.44
26 42 0.44
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (23 bp):
AGCCCTTTTAATAACTGGGACAA
Found at i:56466599 original size:25 final size:25
Alignment explanation
Indices: 56466571--56466718 Score: 176
Period size: 26 Copynumber: 5.8 Consensus size: 25
56466561 CTCTTTTAAT
56466571 AACTGGGACA-AAGCCC-TTTCTGGTA
1 AACTGGG-CATAAGCCCTTTTC-GGTA
**
56466596 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACT-GGGCATAAGCCCTTTTCGGTA
56466621 AACTGAGGCATAAGCCCTTTTCGGTA
1 AACTG-GGCATAAGCCCTTTTCGGTA
***
56466647 AACTGGGGCATAAGCCCTTTTAAATA
1 AACT-GGGCATAAGCCCTTTTCGGTA
56466673 AACTGGGCATAAGCCCTTTTCGGTA
1 AACTGGGCATAAGCCCTTTTCGGTA
56466698 AACTGTGGCATAAGCCCTTTT
1 AACTG-GGCATAAGCCCTTTT
56466719 GCACTTCCTC
Statistics
Matches: 107, Mismatches: 10, Indels: 11
0.84 0.08 0.09
Matches are distributed among these distances:
24 1 0.01
25 45 0.42
26 60 0.56
27 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (25 bp):
AACTGGGCATAAGCCCTTTTCGGTA
Found at i:56466636 original size:51 final size:50
Alignment explanation
Indices: 56466558--56466718 Score: 231
Period size: 51 Copynumber: 3.2 Consensus size: 50
56466548 CTGGAGGCCT
56466558 AGCCTCTTTTAAT-AACTGGGACA-AAGCCC-TTTCTGGTAAACTGGGGCA-A
1 AGCC-CTTTTAATAAACTGGG-CATAAGCCCTTTTC-GGTAAACTGGGGCATA
56466607 AGCCCTTTTCAATAAACTGAGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTT-AATAAACTG-GGCATAAGCCCTTTTCGGTAAACTGGGGCATA
*
56466659 AGCCCTTTTAAATAAACTGGGCATAAGCCCTTTTCGGTAAACTGTGGCATA
1 AGCCCTTTT-AATAAACTGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
56466710 AGCCCTTTT
1 AGCCCTTTT
56466719 GCACTTCCTC
Statistics
Matches: 104, Mismatches: 2, Indels: 10
0.90 0.02 0.09
Matches are distributed among these distances:
48 5 0.05
49 7 0.07
50 7 0.07
51 62 0.60
52 23 0.22
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (50 bp):
AGCCCTTTTAATAAACTGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
Found at i:56466793 original size:20 final size:20
Alignment explanation
Indices: 56466768--56466842 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
56466758 TTATGAATAC
*
56466768 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
*
56466788 ATCATGTGTATATCATACAT
1 ATCATGTGCATATCATACAT
56466808 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
56466828 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
56466843 TCCCACGTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
18 8 0.16
20 41 0.80
21 2 0.04
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:56488951 original size:33 final size:33
Alignment explanation
Indices: 56488909--56488974 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
56488899 TCTCCCAGTA
56488909 CACAATTCAAATAGCCATAAAATATGTTTCATT
1 CACAATTCAAATAGCCATAAAATATGTTTCATT
*
56488942 CACAATTCAAATAGCCATGAAATATGTTTCATT
1 CACAATTCAAATAGCCATAAAATATGTTTCATT
56488975 TAAAACTAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.33
Consensus pattern (33 bp):
CACAATTCAAATAGCCATAAAATATGTTTCATT
Found at i:56498355 original size:28 final size:28
Alignment explanation
Indices: 56498323--56498377 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
56498313 AGTTGGGCTT
* *
56498323 GATGGGCCATATGAATGTGATTGGGCCC
1 GATGGGCCATATGAACGAGATTGGGCCC
*
56498351 GATGGGCCATGTGAACGAGATTGGGCC
1 GATGGGCCATATGAACGAGATTGGGCC
56498378 TAAAGGGGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.38, T:0.22
Consensus pattern (28 bp):
GATGGGCCATATGAACGAGATTGGGCCC
Found at i:56498726 original size:27 final size:25
Alignment explanation
Indices: 56498695--56499061 Score: 252
Period size: 27 Copynumber: 13.7 Consensus size: 25
56498685 TAATAAAGAG
*
56498695 AAATTACTAAACTATCCTCAGTTTGTA
1 AAATTACTAAA-TACCCTC-GTTTGTA
**
56498722 AAATTACCGCAATACCCTCAGTTTGTA
1 AAATTA-CTAAATACCCTC-GTTTGTA
*
56498749 AAATTA-TCAAAGTACCCCCGGTTTGTA
1 AAATTACT-AAA-TACCCTC-GTTTGTA
* *
56498776 AAATCACCAAAATACCCTCGATTTGTA
1 AAATTA-CTAAATACCCTCG-TTTGTA
*
56498803 AAATTATCGAAATACCCTCAGTTTGTA
1 AAATTA-CTAAATACCCTC-GTTTGTA
* * *
56498830 AATTTATTGAAATACCCTCGATTTATA
1 AAATTACT-AAATACCCTCG-TTTGTA
* *
56498857 AAATTATCGAAATACCCTCGATTGTA
1 AAATTA-CTAAATACCCTCGTTTGTA
56498883 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACT-AAATACCCTCG-TTTGTA
* **
56498910 AAATTACCGAAATACCCCTAATTTGTA
1 AAATTA-CTAAATA-CCCTCGTTTGTA
* * *
56498937 ATATTACTAAAATACCCTCGATTGTG
1 AAATTACT-AAATACCCTCGTTTGTA
*
56498963 AAATTACTGAAATACCCTCAATTTGTA
1 AAATTACT-AAATACCCTC-GTTTGTA
*
56498990 AAATTATCGAAATACCC-CTGATTTGTA
1 AAATTA-CTAAATACCCTC-G-TTTGTA
* * **
56499017 AAATAACTGAAACAACCCTAATTTGTA
1 AAATTACT-AAA-TACCCTCGTTTGTA
*
56499044 AAATTATCGAAATACCCT
1 AAATTA-CTAAATACCCT
56499062 TGTAGTGTTA
Statistics
Matches: 269, Mismatches: 49, Indels: 45
0.74 0.13 0.12
Matches are distributed among these distances:
25 1 0.00
26 58 0.22
27 192 0.71
28 18 0.07
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (25 bp):
AAATTACTAAATACCCTCGTTTGTA
Found at i:56498778 original size:54 final size:54
Alignment explanation
Indices: 56498710--56499061 Score: 353
Period size: 54 Copynumber: 6.6 Consensus size: 54
56498700 ACTAAACTAT
**
56498710 CCTCAGTTTGTAAAATTACCGCAATACCCTC-AGTTTGTAAAATTATC-AAAGTAC
1 CCTCAGTTTGTAAAATTACCAAAATACCCTCGA-TTTGTAAAATTATCGAAA-TAC
* * *
56498764 CCCCGGTTTGTAAAATCACCAAAATACCCTCGATTTGTAAAATTATCGAAATAC
1 CCTCAGTTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTATCGAAATAC
* *** *
56498818 CCTCAGTTTGTAAATTTATTGAAATACCCTCGATTTATAAAATTATCGAAATAC
1 CCTCAGTTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTATCGAAATAC
* * *
56498872 CCTC-GATTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATAC
1 CCTCAGTTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTATCGAAATAC
* * * *
56498925 CC-CTAATTTGTAATATTACTAAAATACCCTCGA-TTGTGAAATTA-CTGAAATAC
1 CCTC-AGTTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTATC-GAAATAC
* * * * *
56498978 CCTCAATTTGTAAAATTATCGAAATACCC-CTGATTTGTAAAA-TAACTGAAACAAC
1 CCTCAGTTTGTAAAATTACCAAAATACCCTC-GATTTGTAAAATTATC-GAAA-TAC
* * *
56499033 CCT-AATTTGTAAAATTATCGAAATACCCT
1 CCTCAGTTTGTAAAATTACCAAAATACCCT
56499062 TGTAGTGTTA
Statistics
Matches: 258, Mismatches: 29, Indels: 21
0.84 0.09 0.07
Matches are distributed among these distances:
52 3 0.01
53 89 0.34
54 157 0.61
55 9 0.03
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (54 bp):
CCTCAGTTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTATCGAAATAC
Found at i:56498908 original size:80 final size:79
Alignment explanation
Indices: 56498717--56499020 Score: 373
Period size: 80 Copynumber: 3.8 Consensus size: 79
56498707 TATCCTCAGT
* * * * *
56498717 TTGTAAAATTACCGCAATACCCTCAGTTTGTAAAATTATC-AAAGTACCCCCGGTTTGTAAAATC
1 TTGTAAAATTACTGAAATACCCTCAGTTTGTAAAATTATCGAAA-TACCCCTGATTTGTAAAATT
56498781 ACCAAAATACCCTCGA
65 A-CAAAATACCCTCGA
* * *
56498797 TTTGTAAAATTA-TCGAAATACCCTCAGTTTGTAAATTTATTGAAATA-CCCTCGATTTATAAAA
1 -TTGTAAAATTACT-GAAATACCCTCAGTTTGTAAAATTATCGAAATACCCCT-GATTTGTAAAA
*
56498860 TTATCGAAATACCCTCGA
63 TTA-CAAAATACCCTCGA
* * * *
56498878 TTGTAAAATTACTAAAATACCCTC-GATTTGTAAAATTACCGAAATACCCCTAATTTGTAATATT
1 TTGTAAAATTACTGAAATACCCTCAG-TTTGTAAAATTATCGAAATACCCCTGATTTGTAAAATT
56498942 ACTAAAATACCCTCGA
65 AC-AAAATACCCTCGA
* *
56498958 TTGTGAAATTACTGAAATACCCTCAATTTGTAAAATTATCGAAATACCCCTGATTTGTAAAAT
1 TTGTAAAATTACTGAAATACCCTCAGTTTGTAAAATTATCGAAATACCCCTGATTTGTAAAAT
56499021 AACTGAAACA
Statistics
Matches: 191, Mismatches: 24, Indels: 17
0.82 0.10 0.07
Matches are distributed among these distances:
79 2 0.01
80 120 0.63
81 66 0.35
82 3 0.02
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.33
Consensus pattern (79 bp):
TTGTAAAATTACTGAAATACCCTCAGTTTGTAAAATTATCGAAATACCCCTGATTTGTAAAATTA
CAAAATACCCTCGA
Found at i:56498921 original size:107 final size:107
Alignment explanation
Indices: 56498710--56499061 Score: 369
Period size: 107 Copynumber: 3.3 Consensus size: 107
56498700 ACTAAACTAT
* * * *
56498710 CCTCAGTTTGTAAAATTACCGCAATACCCTC-AGTTTGTAAAATTATC-AAAGTACCCCCGGTTT
1 CCTCAATTTGTAAAATTACCGAAATACCCTCGA-TTTGTAAAATTATCGAAA-TACCCTC-GATT
* * *
56498773 GTAAAATCACCAAAATACCCTCGATTTGTAAAATTATCGAAATAC
63 GTAAAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATAC
* * ** *
56498818 CCTCAGTTTGTAAATTTATTGAAATACCCTCGATTTATAAAATTATCGAAATACCCTCGATTGTA
1 CCTCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTGTA
56498883 AAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATAC
66 AAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATAC
* ** * *
56498925 CC-CTAATTTGTAATATTACTAAAATACCCTCGA-TTGTGAAATTA-CTGAAATACCCTCAATTT
1 CCTC-AATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATC-GAAATACCCTCGA-TT
* * * *
56498987 GTAAAATTA-TCGAAATACCC-CTGATTTGTAAAATAACTGAAACAAC
63 GTAAAATTACT-AAAATACCCTC-GATTTGTAAAATTACCGAAA-TAC
*
56499033 CCT-AATTTGTAAAATTATCGAAATACCCT
1 CCTCAATTTGTAAAATTACCGAAATACCCT
56499062 TGTAGTGTTA
Statistics
Matches: 209, Mismatches: 26, Indels: 19
0.82 0.10 0.07
Matches are distributed among these distances:
105 1 0.00
106 24 0.11
107 130 0.62
108 50 0.24
109 4 0.02
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (107 bp):
CCTCAATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCGAAATACCCTCGATTGTA
AAATTACTAAAATACCCTCGATTTGTAAAATTACCGAAATAC
Found at i:56499100 original size:54 final size:54
Alignment explanation
Indices: 56499042--56499174 Score: 221
Period size: 54 Copynumber: 2.5 Consensus size: 54
56499032 CCCTAATTTG
*
56499042 TAAAATTATCGAAATACCCTTGTAGTGTTAAATTACCAAAATATCCTTGAAGTT
1 TAAAATGATCGAAATACCCTTGTAGTGTTAAATTACCAAAATATCCTTGAAGTT
*
56499096 TAAAATGATCGAAATACCCTTGTAGTGTTAAATTACCAAAATATCCTTGTAGTT
1 TAAAATGATCGAAATACCCTTGTAGTGTTAAATTACCAAAATATCCTTGAAGTT
* * *
56499150 TAAAATGACCGACATACCCATGTAG
1 TAAAATGATCGAAATACCCTTGTAG
56499175 GGTAAGATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 74 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (54 bp):
TAAAATGATCGAAATACCCTTGTAGTGTTAAATTACCAAAATATCCTTGAAGTT
Found at i:56499155 original size:27 final size:28
Alignment explanation
Indices: 56499042--56499174 Score: 130
Period size: 27 Copynumber: 4.9 Consensus size: 28
56499032 CCCTAATTTG
* *
56499042 TAAAATTATCGAAATACCCTTGTAGTGT
1 TAAAATTACCAAAATACCCTTGTAGTGT
* *
56499070 T-AAATTACCAAAATATCCTTGAAGT-T
1 TAAAATTACCAAAATACCCTTGTAGTGT
* * *
56499096 TAAAATGATCGAAATACCCTTGTAGTGT
1 TAAAATTACCAAAATACCCTTGTAGTGT
*
56499124 T-AAATTACCAAAATATCCTTGTAGT-T
1 TAAAATTACCAAAATACCCTTGTAGTGT
* * * *
56499150 TAAAATGACCGACATACCCATGTAG
1 TAAAATTACCAAAATACCCTTGTAG
56499175 GGTAAGATGA
Statistics
Matches: 84, Mismatches: 18, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
26 4 0.05
27 77 0.92
28 3 0.04
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (28 bp):
TAAAATTACCAAAATACCCTTGTAGTGT
Found at i:56501919 original size:50 final size:47
Alignment explanation
Indices: 56501844--56502069 Score: 213
Period size: 50 Copynumber: 4.6 Consensus size: 47
56501834 TGAATACACG
*
56501844 TGTGTAGTACTGAGTGCAGGCTACTACGTGTACCATACTGTTAAGTTGCA-
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-A-TGTT-AGTT-CAC
* * * * *
56501894 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACTTCGATCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAATG--TTAGTTCA-C
* * *
56501945 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGTCAC
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-AT-GTTAGTTCAC
*
56501994 GTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAAATTGTT-GTTCACC
1 -TGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-AA-TGTTAGTTCA-C
*
56502044 TGTGTAGTACTAAGTGCAGACTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
56502070 TGCGTATCAG
Statistics
Matches: 147, Mismatches: 18, Indels: 23
0.78 0.10 0.12
Matches are distributed among these distances:
49 32 0.22
50 76 0.52
51 38 0.26
52 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (47 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAATGTTAGTTCAC
Found at i:56502018 original size:101 final size:98
Alignment explanation
Indices: 56501840--56502081 Score: 265
Period size: 101 Copynumber: 2.4 Consensus size: 98
56501830 ATTGTGAATA
* * * * *
56501840 CACGTGTGTAGTACTGAGTGCAGGCTACTACGTGTACCATACTGTTAAGTTGCATGTGTAGTACT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTAAGGTGCATGTGTAGTACT
* *
56501905 AAGTGCAGGCTACTATGCGTACTC-AA-TGACTTCGAT
65 AAGTGCAAGCTACTACGCGTAC-CAAATTG--TT-GAT
* *
56501941 CATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTGAGGT-CACGTGTGTAGTAC
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTAAGGTGCA--TGTGTAGTAC
* *
56502005 TAAGTGCAAGCTACTACGTGTACCAAATTGTTGTT
64 TAAGTGCAAGCTACTACGCGTACCAAATTGTTGAT
* * * *
56502040 CACCTGTGTAGTACTAAGTGCAGACTACTATGCGTATCAGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT
56502082 AGCTTCGGCT
Statistics
Matches: 121, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
99 41 0.34
100 9 0.07
101 69 0.57
102 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.31
Consensus pattern (98 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTAAGGTGCATGTGTAGTACTA
AGTGCAAGCTACTACGCGTACCAAATTGTTGAT
Found at i:56502199 original size:27 final size:26
Alignment explanation
Indices: 56502169--56502220 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
56502159 GGGAAAATTG
56502169 ATAAAGTGGTAATATGTG-AAAGTTATT
1 ATAAAGTGG--ATATGTGCAAAGTTATT
* *
56502196 ATAAGGTGGATATGTGCAAATTTAT
1 ATAAAGTGGATATGTGCAAAGTTAT
56502221 GTTTATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 7 0.32
26 7 0.32
27 8 0.36
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (26 bp):
ATAAAGTGGATATGTGCAAAGTTATT
Found at i:56508941 original size:31 final size:31
Alignment explanation
Indices: 56508893--56509131 Score: 408
Period size: 31 Copynumber: 7.7 Consensus size: 31
56508883 TTGGTCTTGA
*
56508893 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
* * *
56508923 CATATCACTAGACTGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
56508954 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
56508985 CATATCACTGGGCTGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
56509016 CATATCACTGGGCCGTAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
56509047 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
56509078 CATATCACTGGGCTGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
56509109 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
56509132 ACTGTAAACG
Statistics
Matches: 195, Mismatches: 13, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
30 5 0.03
31 190 0.97
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:56509208 original size:42 final size:42
Alignment explanation
Indices: 56509155--56509317 Score: 292
Period size: 42 Copynumber: 3.9 Consensus size: 42
56509145 TGGCCCTTAG
*
56509155 GCCCA-TTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
* *
56509196 GCCCATTTCAATATTACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
56509238 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
56509280 GCCCATTTCAATATCACATGTAATGTCAATGAATGTAT
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTAT
56509318 AACTGGAGGC
Statistics
Matches: 118, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
41 5 0.04
42 113 0.96
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:56509366 original size:24 final size:24
Alignment explanation
Indices: 56509316--56509411 Score: 81
Period size: 25 Copynumber: 3.9 Consensus size: 24
56509306 CAATGAATGT
**
56509316 ATAACTGGAGGCCTAGCCTCTTT-TA
1 ATAACTGG-GGCAAAGCC-CTTTCTA
56509341 ATAACTGGGGCAAAGCCCTTTCTA
1 ATAACTGGGGCAAAGCCCTTTCTA
*
56509365 ATAAACTGGGGTAAAGCCCTTTTCGGT-
1 AT-AACTGGGGCAAAGCCC-TTTC--TA
*
56509392 A-AACTGGGGCAGAGCCCTTT
1 ATAACTGGGGCAAAGCCCTTT
56509412 TAGCACTTCC
Statistics
Matches: 61, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
23 4 0.07
24 14 0.23
25 37 0.61
26 4 0.07
27 1 0.02
28 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (24 bp):
ATAACTGGGGCAAAGCCCTTTCTA
Found at i:56509371 original size:25 final size:24
Alignment explanation
Indices: 56509330--56509413 Score: 98
Period size: 25 Copynumber: 3.4 Consensus size: 24
56509320 CTGGAGGCCT
56509330 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
*
56509354 AGCCCTTTCTAATAAACTGGGGTAA
1 AGCCCTTT-TAATAAACTGGGGCAA
** *
56509379 AGCCCTTTTCGGTAAACTGGGGCAG
1 AGCCCTTTT-AATAAACTGGGGCAA
56509404 AGCCCTTTTA
1 AGCCCTTTTA
56509414 GCACTTCCTC
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
23 4 0.08
24 9 0.18
25 38 0.75
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:56510369 original size:27 final size:27
Alignment explanation
Indices: 56510339--56510424 Score: 104
Period size: 27 Copynumber: 3.1 Consensus size: 27
56510329 GTAAATCTAC
56510339 AAACCAAGGGTATTTC-AGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
*
56510366 AAACCAATGGTATTTCTATAATTTCTAG-
1 AAACCAAGGGTATTTCTATAATTT-T-GT
*
56510394 AAAGTCAAGGGTATTTCTATAATTTTGT
1 AAA-CCAAGGGTATTTCTATAATTTTGT
56510422 AAA
1 AAA
56510425 TTAGGGGTAT
Statistics
Matches: 51, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
27 22 0.43
28 9 0.18
29 20 0.39
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.38
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:56510443 original size:27 final size:27
Alignment explanation
Indices: 56510426--56510552 Score: 166
Period size: 27 Copynumber: 4.7 Consensus size: 27
56510416 TTTTGTAAAT
56510426 TAGGGGTATTTTGGTAATTTTACAAA-
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * * *
56510452 TTGAGGGTATTTCGATAATTTCACAAAC
1 TAG-GGGTATTTTGGTAATTTTACAAAC
* * *
56510480 CAGTGGTATTTCGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
*
56510507 TAGGGATATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
56510534 TAGGGGTATTTTGGTAATT
1 TAGGGGTATTTTGGTAATT
56510553 CTATCCTACA
Statistics
Matches: 85, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 2 0.02
27 82 0.96
28 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTACAAAC
Found at i:56510444 original size:56 final size:53
Alignment explanation
Indices: 56510336--56510505 Score: 137
Period size: 54 Copynumber: 3.1 Consensus size: 53
56510326 TTGGTAAATC
* *
56510336 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTATAATTT
1 TACAAATCAAGGGTATTTCA-TAATTTTGTAAACCAAGGGTATTTCTATAATTT
* ** * *
56510390 CTAGAAAGTCAAGGGTATTTCTATAATTTTGTAAATTAGGGGTATTT-TGGTAATTT
1 -TACAAA-TCAAGGGTATTTC-ATAATTTTGTAAACCAAGGGTATTTCT-ATAATTT
** *** **
56510446 TACAAATTGAGGGTATTTCGATAATTTCACAAACC-AGTGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTC-ATAATTTTGTAAACCAAG-GGTATTTCTATAATTT
56510500 TACAAA
1 TACAAA
56510506 CTAGGGATAT
Statistics
Matches: 92, Mismatches: 18, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
53 1 0.01
54 41 0.45
55 11 0.12
56 38 0.41
57 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.39
Consensus pattern (53 bp):
TACAAATCAAGGGTATTTCATAATTTTGTAAACCAAGGGTATTTCTATAATTT
Found at i:56510569 original size:81 final size:81
Alignment explanation
Indices: 56510374--56510585 Score: 198
Period size: 81 Copynumber: 2.6 Consensus size: 81
56510364 GTAAACCAAT
* * * * ** * *
56510374 GGTATTTCTATAATTTCTAGAAAGTCAAGGGTATTTCTA-TAATTTTGTAAATTAGGGGTATTTT
1 GGTATTTCGATAATTTC-ACAAA-CCAGGGGTATTTC-AGTAATTTTACAAACTAGGGATATTTT
*
56510438 GGTAATTTTACAAATTGAG
63 GGTAATTTTACAAATAGAG
* *
56510457 GGTATTTCGATAATTTCACAAACCAGTGGTATTTCGGTAATTTTACAAACTAGGGATATTTTGGT
1 GGTATTTCGATAATTTCACAAACCAGGGGTATTTCAGTAATTTTACAAACTAGGGATATTTTGGT
56510522 AATTTTACAAACTAG-G
66 AATTTTACAAA-TAGAG
* * ** *
56510538 GGTATTTTGGTAA-TTCTATCCTA-CAGGGGTATTTCAGTAATTTCACAA
1 GGTATTTCGATAATTTC-A-CAAACCAGGGGTATTTCAGTAATTTTACAA
56510586 TTGAGGGTAA
Statistics
Matches: 107, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
80 3 0.03
81 80 0.75
82 8 0.07
83 16 0.15
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (81 bp):
GGTATTTCGATAATTTCACAAACCAGGGGTATTTCAGTAATTTTACAAACTAGGGATATTTTGGT
AATTTTACAAATAGAG
Found at i:56510571 original size:54 final size:54
Alignment explanation
Indices: 56510427--56510585 Score: 160
Period size: 54 Copynumber: 2.9 Consensus size: 54
56510417 TTTGTAAATT
* * * *
56510427 AGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGATAATTTCACAAACC
1 AGGGGTATTTCGGTAATTCTACAAACTAG-GGGTATTTCGGTAATTTCACAAACC
* * * * * *
56510481 AGTGGTATTTCGGTAATTTTACAAACTAGGGATATTTTGGTAATTTTACAAACT
1 AGGGGTATTTCGGTAATTCTACAAACTAGGGGTATTTCGGTAATTTCACAAACC
* ** *
56510535 AGGGGTATTTTGGTAATTCTATCCTAC-AGGGGTATTTCAGTAATTTCACAA
1 AGGGGTATTTCGGTAATTCTA-CAAACTAGGGGTATTTCGGTAATTTCACAA
56510586 TTGAGGGTAA
Statistics
Matches: 86, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
54 81 0.94
55 5 0.06
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.38
Consensus pattern (54 bp):
AGGGGTATTTCGGTAATTCTACAAACTAGGGGTATTTCGGTAATTTCACAAACC
Found at i:56510617 original size:27 final size:27
Alignment explanation
Indices: 56510588--56510716 Score: 179
Period size: 27 Copynumber: 4.8 Consensus size: 27
56510578 TTTCACAATT
* * *
56510588 GAGGGTAAAACGATAATTTTGTAAA-C
1 GAGGGTAAAATGGTAATTTTATAAATC
*
56510614 TGAGGGTAAAATGGTAATTTTGTAAATC
1 -GAGGGTAAAATGGTAATTTTATAAATC
*
56510642 GAGGGTAAAATGGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTTTATAAATC
*
56510669 GAGGGTAAAATGGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTTTATAAATC
*
56510696 GAGGGTAAAACGGTAATTTTA
1 GAGGGTAAAATGGTAATTTTA
56510717 GCCTAAATCT
Statistics
Matches: 95, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
27 94 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.24, T:0.30
Consensus pattern (27 bp):
GAGGGTAAAATGGTAATTTTATAAATC
Found at i:56515064 original size:23 final size:23
Alignment explanation
Indices: 56515031--56515103 Score: 103
Period size: 23 Copynumber: 3.1 Consensus size: 23
56515021 AGGAAGTGCA
56515031 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
56515054 AACGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
56515077 AAAAGGGCTCT-TGCCTCAGTTATT
1 -AAAGGGCT-TATGCCCCAGTTATT
56515101 AAA
1 AAA
56515104 AGAGGCTAGG
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
23 25 0.56
24 19 0.42
25 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:56515091 original size:24 final size:24
Alignment explanation
Indices: 56515030--56515110 Score: 112
Period size: 24 Copynumber: 3.4 Consensus size: 24
56515020 GAGGAAGTGC
56515030 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
56515054 -AACGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
56515077 AAAAGGGCTCT-TGCCTCAGTTATT
1 AAAAGGGCT-TATGCCCCAGTTATT
56515101 AAAAGAGGCT
1 AAAAG-GGCT
56515111 AGGCCTCCAA
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
23 22 0.43
24 24 0.47
25 5 0.10
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:56523230 original size:14 final size:14
Alignment explanation
Indices: 56523213--56523247 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
56523203 TATGGTTTAC
56523213 GGTTTAGGGTCTCA
1 GGTTTAGGGTCTCA
*
56523227 GGTTTAGGGTTTCA
1 GGTTTAGGGTCTCA
56523241 GGTTTAG
1 GGTTTAG
56523248 AGTATAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.14, C:0.09, G:0.37, T:0.40
Consensus pattern (14 bp):
GGTTTAGGGTCTCA
Found at i:56523292 original size:15 final size:15
Alignment explanation
Indices: 56523272--56523303 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
56523262 TTTAACTTAG
56523272 AAGATAAATATAAAT
1 AAGATAAATATAAAT
*
56523287 AAGATAAATATATAT
1 AAGATAAATATAAAT
56523302 AA
1 AA
56523304 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AAGATAAATATAAAT
Found at i:56523328 original size:37 final size:37
Alignment explanation
Indices: 56523278--56523358 Score: 153
Period size: 37 Copynumber: 2.2 Consensus size: 37
56523268 TTAGAAGATA
56523278 AATATAAATAAGATAAATATATATAAATTATTATTTT
1 AATATAAATAAGATAAATATATATAAATTATTATTTT
56523315 AATATAAATAAGATAAATATATATAAATTATTATTTT
1 AATATAAATAAGATAAATATATATAAATTATTATTTT
*
56523352 AAAATAA
1 AATATAA
56523359 TATATATCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (37 bp):
AATATAAATAAGATAAATATATATAAATTATTATTTT
Found at i:56525318 original size:47 final size:47
Alignment explanation
Indices: 56525249--56525856 Score: 682
Period size: 47 Copynumber: 13.2 Consensus size: 47
56525239 TTCGAGACTA
* * *
56525249 ATCACATTTATACACTTTCACATCCATCAGATTGGCCATTCGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
* * * * *
56525296 ATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGTCTT
1 ATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
* * *
56525343 ATCTCATATATACACTTTCACATCCATCACATTGGCCATTCGGGCTT
1 ATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
*
56525390 ATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
* *
56525437 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
*
56525484 GTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
* *
56525531 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
* * *
56525578 GTCACATATATACACTTTCACATTCATCACATCGGCC-TT----ATAT
1 ATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCT-T
* * * * *
56525621 AT-ACACT-T-T-CACATTCATCA--CATCGGCCATTAGGCCGTGTC-ACATAT
1 ATCACA-TATATACACTTTCA-CATTCATC--ACATT-GGCCAT-TCGGCCT-T
* *
56525668 AT-AC--AT-T-----TTCACGTTCATCACATTGGCCATTCAGCCTT
1 ATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
* *
56525706 ATCACATATATGCACTTTCACATTCATCACATTGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
* *
56525753 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
* * **
56525800 GTCACATATATACACTTTTACATTCATCACATTGGCCATTCCACCTT
1 ATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
56525847 ATCACATATA
1 ATCACATATA
56525857 CATATCTTGT
Statistics
Matches: 492, Mismatches: 45, Indels: 48
0.84 0.08 0.08
Matches are distributed among these distances:
38 5 0.01
39 13 0.03
40 12 0.02
41 12 0.02
42 14 0.03
43 4 0.01
44 1 0.00
45 2 0.00
46 2 0.00
47 427 0.87
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
ATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
Found at i:56525503 original size:141 final size:141
Alignment explanation
Indices: 56525249--56525856 Score: 857
Period size: 141 Copynumber: 4.4 Consensus size: 141
56525239 TTCGAGACTA
* * * * *
56525249 ATCACATTTATACACTTTCACATCCATCAGATTGGCCATTCGGCCTTATCACATATATACACCTT
1 ATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTT
* * * * *
56525314 CACATCCATCACATCGGCCATTAGGTCTTATCTCATATATACACTTTCACATCCATCACATTGGC
66 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
* *
56525379 CATTCGGGCTT
131 CATTAGGCCTT
56525390 ATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTT
1 ATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTT
* *
56525455 CACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCACATTGGC
66 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
*
56525520 CATTCGGCCTT
131 CATTAGGCCTT
* *
56525531 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTT
1 ATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTT
56525596 CACATTCATCACAT----C----GGCC-T-T---ATATATACACTTTCACATTCATCACATCGGC
66 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
*
56525648 CATTAGGCCGT
131 CATTAGGCCTT
* * * *
56525659 GTCACATATATACATTTTCACGTTCATCACATTGGCCATTCA-GCCTTATCACATATATGCACTT
1 ATCACATATATACACTTTCACATTCATCACATTGGCCATT-AGGCCTTATCACATATATACACTT
*
56525723 TCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
65 TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGG
56525788 CCATTAGGCCTT
130 CCATTAGGCCTT
* * ***
56525800 GTCACATATATACACTTTTACATTCATCACATTGGCCATTCCACCTTATCACATATA
1 ATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATA
56525857 CATATCTTGT
Statistics
Matches: 424, Mismatches: 28, Indels: 30
0.88 0.06 0.06
Matches are distributed among these distances:
128 110 0.26
129 1 0.00
131 1 0.00
132 2 0.00
133 4 0.01
136 4 0.01
137 2 0.00
138 1 0.00
141 299 0.71
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (141 bp):
ATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTT
CACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGC
CATTAGGCCTT
Found at i:56525622 original size:34 final size:34
Alignment explanation
Indices: 56525583--56525648 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
56525573 GCCTTGTCAC
56525583 ATATATACACTTTCACATTCATCACATCGGCCTT
1 ATATATACACTTTCACATTCATCACATCGGCCTT
56525617 ATATATACACTTTCACATTCATCACATCGGCC
1 ATATATACACTTTCACATTCATCACATCGGCC
56525649 ATTAGGCCGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.30, C:0.30, G:0.06, T:0.33
Consensus pattern (34 bp):
ATATATACACTTTCACATTCATCACATCGGCCTT
Found at i:56525629 original size:81 final size:81
Alignment explanation
Indices: 56525536--56525695 Score: 284
Period size: 81 Copynumber: 2.0 Consensus size: 81
56525526 GCCTTATCAC
*
56525536 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACAT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCGTGTCACATATATACACTTTCACAT
56525601 TCATCACATCGGCCTT
66 TCATCACATCGGCCTT
* *
56525617 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCGTGTCACATATATACATTTTCACGT
1 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCGTGTCACATATATACACTTTCACAT
*
56525682 TCATCACATTGGCC
66 TCATCACATCGGCC
56525696 ATTCAGCCTT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (81 bp):
ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCGTGTCACATATATACACTTTCACAT
TCATCACATCGGCCTT
Found at i:56525709 original size:22 final size:22
Alignment explanation
Indices: 56525684--56525759 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
56525674 TTTCACGTTC
56525684 ATCACATTGGCCATTCAGCCTT
1 ATCACATTGGCCATTCAGCCTT
* * *
56525706 ATCACATATATGCACTTTCA-CATT
1 ATCACAT-T-GGC-CATTCAGCCTT
56525730 CATCACATTGGCCATT-AGGCCTT
1 -ATCACATTGGCCATTCA-GCCTT
56525753 ATCACAT
1 ATCACAT
56525760 ATATACACTT
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
21 1 0.02
22 17 0.40
23 6 0.14
24 6 0.14
25 12 0.29
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCAGCCTT
Found at i:56525734 original size:25 final size:25
Alignment explanation
Indices: 56525660--56525737 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
56525650 TTAGGCCGTG
* * *
56525660 TCACATATATACATTTTCACGTTCA
1 TCACATATATGCACTTTCACATTCA
* * *
56525685 TCACAT-T-GGC-CATTCAGCCTT-A
1 TCACATATATGCACTTTCA-CATTCA
56525707 TCACATATATGCACTTTCACATTCA
1 TCACATATATGCACTTTCACATTCA
56525732 TCACAT
1 TCACAT
56525738 TGGCCATTAG
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.12
24 6 0.15
25 18 0.45
ACGTcount: A:0.29, C:0.28, G:0.06, T:0.36
Consensus pattern (25 bp):
TCACATATATGCACTTTCACATTCA
Found at i:56525854 original size:269 final size:269
Alignment explanation
Indices: 56525348--56525856 Score: 822
Period size: 269 Copynumber: 1.9 Consensus size: 269
56525338 GTCTTATCTC
* * * *
56525348 ATATATACACTTTCACATCCATCACATTGGCCATTCGGGCTTATCACATATATACACTTTCACAT
1 ATATATACACTTTCACATCCATCACATCGGCCATTAGGCCGTATCACATATATACACTTTCACAT
56525413 TCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
66 TCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
* * *
56525478 GGCCTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATA
131 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
** *
56525543 CACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATACACTTTCACATTCATCAC
196 CACTTTCACATTCATCACATCGGCCATTACACCTTATCACATATATACACTTTCACATTCATCAC
56525608 ATCGGCCTT
261 ATCGGCCTT
* * * *
56525617 ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCGTGTCACATATATACATTTTCACGT
1 ATATATACACTTTCACATCCATCACATCGGCCATTAGGCCGTATCACATATATACACTTTCACAT
* *
56525682 TCATCACATTGGCCATTCA-GCCTTATCACATATATGCACTTTCACATTCATCACATTGGCCATT
66 TCATCACATTGGCCATT-AGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATT
*
56525746 AGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATAT
130 AGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
* * *
56525811 ACACTTTTACATTCATCACATTGGCCATTCCACCTTATCACATATA
195 ACACTTTCACATTCATCACATCGGCCATTACACCTTATCACATATA
56525857 CATATCTTGT
Statistics
Matches: 219, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
269 218 1.00
270 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (269 bp):
ATATATACACTTTCACATCCATCACATCGGCCATTAGGCCGTATCACATATATACACTTTCACAT
TCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
CACTTTCACATTCATCACATCGGCCATTACACCTTATCACATATATACACTTTCACATTCATCAC
ATCGGCCTT
Found at i:56528916 original size:28 final size:28
Alignment explanation
Indices: 56528876--56529029 Score: 123
Period size: 28 Copynumber: 5.5 Consensus size: 28
56528866 AAATGAAATC
*
56528876 CGCACACACAGTGCCCACTGACCGATCT
1 CGCACACATAGTGCCCACTGACCGATCT
* ** * **
56528904 CGCACACATAGTGCTCGGTTAAAGAAT-T
1 CGCACACATAGTGCCCACTGACCG-ATCT
* *
56528932 CGCACACACAGTGTCCACTGACCGATCT
1 CGCACACATAGTGCCCACTGACCGATCT
* ** * **
56528960 CGCACACATAGTGCTCGGTTAAAGAAT-T
1 CGCACACATAGTGCCCACTGACCG-ATCT
* *
56528988 CGCACACAAAGTGTCCACTGACCGATCT
1 CGCACACATAGTGCCCACTGACCGATCT
56529016 CGCACACATAGTGC
1 CGCACACATAGTGC
56529030 TCGGTTAAAG
Statistics
Matches: 89, Mismatches: 33, Indels: 8
0.68 0.25 0.06
Matches are distributed among these distances:
27 4 0.04
28 81 0.91
29 4 0.04
ACGTcount: A:0.29, C:0.32, G:0.19, T:0.19
Consensus pattern (28 bp):
CGCACACATAGTGCCCACTGACCGATCT
Found at i:56528937 original size:56 final size:56
Alignment explanation
Indices: 56528876--56529054 Score: 340
Period size: 56 Copynumber: 3.2 Consensus size: 56
56528866 AAATGAAATC
*
56528876 CGCACACACAGTGCCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
56528932 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
*
56528988 CGCACACAAAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
1 CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
56529044 CGCACACACAG
1 CGCACACACAG
56529055 CGTCTCAATT
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 120 1.00
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.20
Consensus pattern (56 bp):
CGCACACACAGTGTCCACTGACCGATCTCGCACACATAGTGCTCGGTTAAAGAATT
Found at i:56529046 original size:28 final size:28
Alignment explanation
Indices: 56528903--56529051 Score: 126
Period size: 28 Copynumber: 5.3 Consensus size: 28
56528893 CTGACCGATC
56528903 TCGCACACATAGTGCTCGGTTAAAGAAT
1 TCGCACACATAGTGCTCGGTTAAAGAAT
* ** * **
56528931 TCGCACACACAGTG-TCCACTGACCG-AT
1 TCGCACACATAGTGCT-CGGTTAAAGAAT
56528958 CTCGCACACATAGTGCTCGGTTAAAGAAT
1 -TCGCACACATAGTGCTCGGTTAAAGAAT
* ** * **
56528987 TCGCACACAAAGTG-TCCACTGACCG-AT
1 TCGCACACATAGTGCT-CGGTTAAAGAAT
56529014 CTCGCACACATAGTGCTCGGTTAAAGAAT
1 -TCGCACACATAGTGCTCGGTTAAAGAAT
56529043 TCGCACACA
1 TCGCACACA
56529052 CAGCGTCTCA
Statistics
Matches: 89, Mismatches: 24, Indels: 16
0.69 0.19 0.12
Matches are distributed among these distances:
27 6 0.07
28 77 0.87
29 6 0.07
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGGTTAAAGAAT
Found at i:56529324 original size:40 final size:40
Alignment explanation
Indices: 56529268--56529494 Score: 382
Period size: 40 Copynumber: 5.7 Consensus size: 40
56529258 TCATCGGCAG
* *
56529268 GAATGCCCTTCAGGACTTAGCCCGGATGTAACACCAGCAC
1 GAATGCTCTTCGGGACTTAGCCCGGATGTAACACCAGCAC
*
56529308 GAATGCTCTTCGGGACTTAGCCCGAATGTAACACCAGCAC
1 GAATGCTCTTCGGGACTTAGCCCGGATGTAACACCAGCAC
* *
56529348 GAATGCTCTTCGAGACTTAGCCCGGATGTAACACCAGCAT
1 GAATGCTCTTCGGGACTTAGCCCGGATGTAACACCAGCAC
*
56529388 GAATGCTCTTCGGGACTTAGCCCGGATGTAAGACCAGCAC
1 GAATGCTCTTCGGGACTTAGCCCGGATGTAACACCAGCAC
*
56529428 GAATGCTCTTCGAGACTTAGCCCGGATGTAACACCAGCAC
1 GAATGCTCTTCGGGACTTAGCCCGGATGTAACACCAGCAC
*
56529468 GAATGCTCTTCGGGACTTAACCCGGAT
1 GAATGCTCTTCGGGACTTAGCCCGGAT
56529495 CATCGTCGAG
Statistics
Matches: 174, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 174 1.00
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (40 bp):
GAATGCTCTTCGGGACTTAGCCCGGATGTAACACCAGCAC
Found at i:56529650 original size:38 final size:38
Alignment explanation
Indices: 56529553--56529664 Score: 143
Period size: 38 Copynumber: 2.9 Consensus size: 38
56529543 AATTTTAATT
* * * *
56529553 CGGACATAATCTCTGCACATAGCCATCGGATCTTTACC
1 CGGACATAATCTCTACATATAGTCATCGGGTCTTTACC
* *
56529591 CGGGCATAATCTCCACATATAGTCATCGGGTCTTTACC
1 CGGACATAATCTCTACATATAGTCATCGGGTCTTTACC
* * *
56529629 CGGACACAATCTCTACTTATAGTCATCAGGTCTTTA
1 CGGACATAATCTCTACATATAGTCATCGGGTCTTTA
56529665 AGCCCGGATT
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 63 1.00
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (38 bp):
CGGACATAATCTCTACATATAGTCATCGGGTCTTTACC
Found at i:56531679 original size:47 final size:47
Alignment explanation
Indices: 56531616--56532238 Score: 951
Period size: 47 Copynumber: 13.3 Consensus size: 47
56531606 CCCTTCGGGA
* * * * *
56531616 CTTACCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
56531663 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
56531710 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
56531757 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
56531804 CTTGTCACATATATACACTTTCACATTCATCACATTTGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
56531851 CTTATCACATATATACACTTTCACATTCATCAAATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
56531898 CTTATCACATATATAAACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
56531945 CTTGTCACATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
56531992 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
56532039 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* **
56532086 CTTATCACATATATACACTTTCACATTCATCACATTAGCCATTAAAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
56532133 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
56532180 CTTGTCCCA-ATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
56532226 CATATCACATATA
1 CTTATCACATATA
56532239 CATATCTTGT
Statistics
Matches: 526, Mismatches: 49, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
46 40 0.08
47 486 0.92
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:56538112 original size:23 final size:23
Alignment explanation
Indices: 56538086--56538134 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
56538076 GATGTCGATT
*
56538086 AATGTATGAATTGCAGCCCTTTA
1 AATGTATGAATTACAGCCCTTTA
*
56538109 AATGTATGAATTATAGCCCTTTA
1 AATGTATGAATTACAGCCCTTTA
56538132 AAT
1 AAT
56538135 AAACTTGAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (23 bp):
AATGTATGAATTACAGCCCTTTA
Found at i:56538693 original size:241 final size:241
Alignment explanation
Indices: 56538268--56538945 Score: 1230
Period size: 241 Copynumber: 2.8 Consensus size: 241
56538258 ATGAATTAAT
* *
56538268 TTTATTACCATATAGCTTGCTTGTCCATTAAAATTACAACAATATATCTGACCTTCTCTCCAACC
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAAC-A-ATAGCTGACCTTCTCTCCAACC
56538333 TTTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCG
64 TTTTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCG
* *
56538398 AGCTATAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAGAAAAT
129 AGCTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAAT
56538463 TCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
194 TCAAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
56538511 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
* * *
56538576 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTAGAAACCTGACGAGTTGCTTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
*
56538641 TTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
* *
56538706 AAAAAGACTTGAAAAAAGTTCTATCGAGCTTATTTAGTATTGAATA
196 AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
*
56538752 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGTTGACCTTCTCTCCAACCTT
1 TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
56538817 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
66 TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
*
56538882 CTGTAAGATATAATGGATCCTCCTTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATT
131 CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATT
56538946 ACTATATTCA
Statistics
Matches: 419, Mismatches: 16, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
241 379 0.90
242 1 0.00
243 39 0.09
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.34
Consensus pattern (241 bp):
TTTATTACCATGTAGCTTGCTTGTCCATTAAAATTACAACAATAGCTGACCTTCTCTCCAACCTT
TTTTTAAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAG
CTGTAAGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTC
AAAAAGACTTGAAAAAAGTTCTATCGAGCTCATTTACTATTGAATA
Found at i:56539133 original size:9 final size:9
Alignment explanation
Indices: 56539065--56539192 Score: 85
Period size: 9 Copynumber: 13.6 Consensus size: 9
56539055 ATTGATCATT
*
56539065 ACTTAAATA
1 ACTTACATA
*
56539074 AATTACATA
1 ACTTACATA
*
56539083 ACTTTCATA
1 ACTTACATA
* *
56539092 ACTCATATA
1 ACTTACATA
56539101 ACTTACATA
1 ACTTACATA
*
56539110 ATTTACATAACA
1 ACTTACAT---A
56539122 ACTTACATA
1 ACTTACATA
* *
56539131 ACTCACATT
1 ACTTACATA
*
56539140 ACTTAGATA
1 ACTTACATA
*
56539149 ATTTACATA
1 ACTTACATA
*
56539158 ACTCACATA
1 ACTTACATA
* *
56539167 ACGTATATAACA
1 AC-T-TA-CATA
56539179 ACTTACATA
1 ACTTACATA
56539188 ACTTA
1 ACTTA
56539193 ACTAATACAT
Statistics
Matches: 88, Mismatches: 25, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
9 71 0.81
10 3 0.03
11 2 0.02
12 12 0.14
ACGTcount: A:0.45, C:0.20, G:0.02, T:0.34
Consensus pattern (9 bp):
ACTTACATA
Found at i:56539135 original size:39 final size:39
Alignment explanation
Indices: 56539082--56539159 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
56539072 TAAATTACAT
* *
56539082 AACTTTCATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
* *
56539121 AACTTACATAACTCACATTACTTAGATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
56539160 TCACATAACG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.44, C:0.21, G:0.01, T:0.35
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:56540307 original size:27 final size:27
Alignment explanation
Indices: 56540268--56540370 Score: 161
Period size: 27 Copynumber: 3.8 Consensus size: 27
56540258 GACTTCAAAG
*
56540268 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTTTGTAAATCGAGGGTAAAACA
*
56540295 GTAATTTTATAAATCGAGGGTAAAACA
1 GTAATTTTGTAAATCGAGGGTAAAACA
* *
56540322 GTAATTTTGTAAATCAAGGATAAAACA
1 GTAATTTTGTAAATCGAGGGTAAAACA
*
56540349 GTAATTTTGTAATTCGAGGGTA
1 GTAATTTTGTAAATCGAGGGTA
56540371 CTTTGATAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.32
Consensus pattern (27 bp):
GTAATTTTGTAAATCGAGGGTAAAACA
Found at i:56540405 original size:54 final size:54
Alignment explanation
Indices: 56540347--56540523 Score: 182
Period size: 54 Copynumber: 3.3 Consensus size: 54
56540337 AAGGATAAAA
* *
56540347 CAGTAATTTTGT-AATTCGAGGGTACTTTGATAATTTTACAAGTCGAGGGTATTT
1 CAGTAATTTTGTAAACT-GAGGGTACTTTGATAATTTTACAAATCGAGGGTATTT
* * * *
56540401 CAGTAATTTTGCAAACTGAGGGT-GTTTCAGTAATTTTACAAATCGAGGATATTT
1 CAGTAATTTTGTAAACTGAGGGTACTTTGA-TAATTTTACAAATCGAGGGTATTT
** * * * * *
56540455 TGGTAA-TTTATAAACTGGGGGTACTTTGGTAATTTTACAACTAG-GGGTATTT
1 CAGTAATTTTGTAAACTGAGGGTACTTTGATAATTTTACAAATCGAGGGTATTT
*
56540507 CAGTAATTTGGTAAACT
1 CAGTAATTTTGTAAACT
56540524 AAAGTATTCT
Statistics
Matches: 98, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
52 11 0.11
53 38 0.39
54 46 0.47
55 3 0.03
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (54 bp):
CAGTAATTTTGTAAACTGAGGGTACTTTGATAATTTTACAAATCGAGGGTATTT
Found at i:56540501 original size:27 final size:26
Alignment explanation
Indices: 56540430--56540501 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 26
56540420 GGGTGTTTCA
* * *
56540430 GTAATTTTACAAATCGAGGATATTTTG
1 GTAATTTTACAACT-GGGGATACTTTG
*
56540457 GTAATTTATA-AACTGGGGGTACTTTG
1 GTAATTT-TACAACTGGGGATACTTTG
56540483 GTAATTTTACAACTAGGGG
1 GTAATTTTACAACT-GGGG
56540502 TATTTCAGTA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
25 2 0.05
26 20 0.53
27 14 0.37
28 2 0.05
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.38
Consensus pattern (26 bp):
GTAATTTTACAACTGGGGATACTTTG
Found at i:56540512 original size:26 final size:27
Alignment explanation
Indices: 56540347--56540515 Score: 134
Period size: 27 Copynumber: 6.3 Consensus size: 27
56540337 AAGGATAAAA
** *
56540347 CAGTAATTTTGTAATTCGAGGGTACTTT
1 CAGTAATTTTACAACTCGAGGGTA-TTT
* *
56540375 GA-TAATTTTACAAGTCGAGGGTATTT
1 CAGTAATTTTACAACTCGAGGGTATTT
* *
56540401 CAGTAATTTTGCAAACT-GAGGGTGTTT
1 CAGTAATTTTAC-AACTCGAGGGTATTT
* *
56540428 CAGTAATTTTACAAATCGAGGATATTT
1 CAGTAATTTTACAACTCGAGGGTATTT
** *
56540455 TGGTAATTTATA-AACT-GGGGGTACTTT
1 CAGTAATTT-TACAACTCGAGGGTA-TTT
* *
56540482 -GGTAATTTTACAACTAG-GGGTATTT
1 CAGTAATTTTACAACTCGAGGGTATTT
56540507 CAGTAATTT
1 CAGTAATTT
56540516 GGTAAACTAA
Statistics
Matches: 115, Mismatches: 18, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
25 5 0.04
26 36 0.31
27 68 0.59
28 6 0.05
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (27 bp):
CAGTAATTTTACAACTCGAGGGTATTT
Found at i:56542514 original size:6 final size:6
Alignment explanation
Indices: 56542484--56542626 Score: 114
Period size: 6 Copynumber: 23.3 Consensus size: 6
56542474 AAGAAATATT
* * *
56542484 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGGTG AT-AGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * *
56542533 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATTAGGTG AT-AGA ATTAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * *
56542582 ATCAGA ATCAGT ATCAGT ATCAAGTA A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATC-AG-A ATCAGA ATCAGA ATCAGA AT
56542627 GTGAATGGAA
Statistics
Matches: 112, Mismatches: 14, Indels: 22
0.76 0.09 0.15
Matches are distributed among these distances:
5 7 0.06
6 92 0.82
7 8 0.07
8 5 0.04
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:56542541 original size:43 final size:43
Alignment explanation
Indices: 56542493--56542603 Score: 168
Period size: 43 Copynumber: 2.6 Consensus size: 43
56542483 TATCAGAACT
* *
56542493 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTGATAGAATC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGATAGAATC
* *
56542536 AGAATCAGAATCAGAATCAGAATCAGAATTAGGTGATAGAATT
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGATAGAATC
* *
56542579 AGAATCAGAATCAGTATCAGTATCA
1 AGAATCAGAATCAGAATCAGAATCA
56542604 AGTAACAGAA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.22
Consensus pattern (43 bp):
AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGATAGAATC
Found at i:56542546 original size:37 final size:37
Alignment explanation
Indices: 56542492--56542626 Score: 135
Period size: 37 Copynumber: 3.5 Consensus size: 37
56542482 TTATCAGAAC
*
56542492 TAGAATCAAAATGAGAATCAGAATCAGAATCAGGTGA
1 TAGAATCAAAATCAGAATCAGAATCAGAATCAGGTGA
*
56542529 TAGAATCAGAATCAGAATCAGAATCAGAATCAGAATTAGGTGA
1 TAGAATC---A--A-AATCAGAATCAGAATCAGAATCAGGTGA
* * * * * *
56542572 TAGAATTAGAATCAGAATCAGTATCAGTATCAAGTAA
1 TAGAATCAAAATCAGAATCAGAATCAGAATCAGGTGA
*
56542609 CAGAATCAAAATCAGAAT
1 TAGAATCAAAATCAGAAT
56542627 GTGAATGGAA
Statistics
Matches: 80, Mismatches: 12, Indels: 12
0.77 0.12 0.12
Matches are distributed among these distances:
37 45 0.56
40 2 0.03
42 1 0.01
43 32 0.40
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (37 bp):
TAGAATCAAAATCAGAATCAGAATCAGAATCAGGTGA
Found at i:56542626 original size:43 final size:41
Alignment explanation
Indices: 56542493--56542626 Score: 132
Period size: 43 Copynumber: 3.3 Consensus size: 41
56542483 TATCAGAACT
* *
56542493 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTGATAGAATC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGT-A-AGAATC
*
56542536 AGAATCAGAATCAGAATCAGAATCAGAATTAGGT--G-AT-
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTAAGAATC
* * * *
56542573 AGAATTAGAATCAGAATCAGTATCAGTATCAAGTAACAGAATC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGT-A-AGAATC
*
56542616 AAAATCAGAAT
1 AGAATCAGAAT
56542627 GTGAATGGAA
Statistics
Matches: 75, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
37 29 0.39
38 2 0.03
39 1 0.01
41 1 0.01
42 2 0.03
43 40 0.53
ACGTcount: A:0.49, C:0.12, G:0.19, T:0.21
Consensus pattern (41 bp):
AGAATCAGAATCAGAATCAGAATCAGAATCAGGTAAGAATC
Found at i:56543160 original size:27 final size:27
Alignment explanation
Indices: 56543130--56543404 Score: 289
Period size: 27 Copynumber: 10.2 Consensus size: 27
56543120 AACATCCTAG
*
56543130 GGGTAAAATGGTACTTTTATAAATCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
* *
56543157 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
*** *
56543184 GGGTAAAACAATAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
* *
56543211 GGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
* * *
56543238 GGGTAAAATAGTAATTCTATCAATCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
* * *
56543265 GGATAAAACGGTAATTCTATAAATCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
** * * *
56543292 ACGTAAAATAGTAATTCTATCAATCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
* *
56543319 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
* *
56543346 GGGTAAAACGGTAATTTTCTAAATCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
*** * *
56543373 GGGTAAAACAATAATTTTGTAATTCGA
1 GGGTAAAATGGTAATTTTATAAATCGA
56543400 GGGTA
1 GGGTA
56543405 CTTTGATAGT
Statistics
Matches: 214, Mismatches: 34, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 214 1.00
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (27 bp):
GGGTAAAATGGTAATTTTATAAATCGA
Done.