Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 111 of 186
Found at i:36672502 original size:19 final size:18
Alignment explanation
Indices: 36672480--36672515 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
36672470 TTAATAATTA
*
36672480 TTTAATATTAAAATTTTAT
1 TTTAATAAT-AAATTTTAT
36672499 TTTAATAATAAATTTTA
1 TTTAATAATAAATTTTA
36672516 GAAATTATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAATAATAAATTTTAT
Found at i:36675279 original size:24 final size:24
Alignment explanation
Indices: 36675181--36675283 Score: 68
Period size: 24 Copynumber: 4.2 Consensus size: 24
36675171 TGGCTATCCG
* * *
36675181 GAGCTTCCTGA-TATGGTTCTTTGT
1 GAGCTTCCCGATTATGGCTC-TTAT
* *
36675205 GAGCTTCCTGATTAATGGCT-TTTT
1 GAGCTTCCCGATT-ATGGCTCTTAT
* ***
36675229 GGAGCTACCCG-TTATTGGCTAGCAT
1 -GAGCTTCCCGATTA-TGGCTCTTAT
36675254 GAGCTTCCCGATTATGGCTCTTAT
1 GAGCTTCCCGATTATGGCTCTTAT
36675278 GAGCTT
1 GAGCTT
36675284 TGTAACAGTC
Statistics
Matches: 62, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
23 1 0.02
24 43 0.69
25 13 0.21
26 5 0.08
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (24 bp):
GAGCTTCCCGATTATGGCTCTTAT
Found at i:36675574 original size:38 final size:38
Alignment explanation
Indices: 36675523--36675600 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
36675513 ATAATTGAAA
*
36675523 GGTCCTTATGTTGTTATTTGACCATTGAACTTATGAGT
1 GGTCCTTATGTTGTTATTTGACCATTGAACCTATGAGT
36675561 GGTCCTTATGTTGTTATTTGACCATTGAACCTATGAGT
1 GGTCCTTATGTTGTTATTTGACCATTGAACCTATGAGT
36675599 GG
1 GG
36675601 ACATTAATGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.21, C:0.14, G:0.23, T:0.42
Consensus pattern (38 bp):
GGTCCTTATGTTGTTATTTGACCATTGAACCTATGAGT
Found at i:36676653 original size:43 final size:42
Alignment explanation
Indices: 36676568--36676683 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 42
36676558 CATCGACTTA
36676568 TGATTTACGTGTAAGACCATGTCTAGGACATCGACATCATATT
1 TGATTT-CGTGTAAGACCATGTCTAGGACATCGACATCATATT
* * *
36676611 TGATTTCGTGTAAGACCCTGTCTGGGACAAT-GGCATCAATATT
1 TGATTTCGTGTAAGACCATGTCTAGGAC-ATCGACATC-ATATT
* * * *
36676654 TGATTACATGTAAGACCACGTCAAGGACAT
1 TGATTTCGTGTAAGACCATGTCTAGGACAT
36676684 TGGCATTGTA
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
42 27 0.44
43 35 0.56
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATGTCTAGGACATCGACATCATATT
Found at i:36676688 original size:43 final size:43
Alignment explanation
Indices: 36676531--36676689 Score: 128
Period size: 43 Copynumber: 3.7 Consensus size: 43
36676521 TATGTGTTCT
** * *
36676531 CATGTAAGACCACGTCTAA-GATGTTGGCATCGACT-TATGATTTA
1 CATGTAAGACCACGTC-AAGGACATTGGCATC-AATATTTGA-TTA
* * * * * *
36676575 CGTGTAAGACCATGTCTAGGACATCGACATC-ATATTTGATTT
1 CATGTAAGACCACGTCAAGGACATTGGCATCAATATTTGATTA
* ** *
36676617 CGTGTAAGACC-CTGTCTGGGACAATGGCATCAATATTTGATTA
1 CATGTAAGACCAC-GTCAAGGACATTGGCATCAATATTTGATTA
36676660 CATGTAAGACCACGTCAAGGACATTGGCAT
1 CATGTAAGACCACGTCAAGGACATTGGCAT
36676690 TGTACGAGCT
Statistics
Matches: 90, Mismatches: 20, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
42 28 0.31
43 39 0.43
44 23 0.26
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (43 bp):
CATGTAAGACCACGTCAAGGACATTGGCATCAATATTTGATTA
Found at i:36679595 original size:22 final size:22
Alignment explanation
Indices: 36679565--36679617 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
36679555 TGTATATAAG
*
36679565 AAAATTTTTGAAATTTTGTTAG
1 AAAATTTTTGAAATTTTGTTAA
*
36679587 ACAATTTTTGAAATTTTGTTAA
1 AAAATTTTTGAAATTTTGTTAA
36679609 AAAATTTTT
1 AAAATTTTT
36679618 AAGTTCCCGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.38, C:0.02, G:0.09, T:0.51
Consensus pattern (22 bp):
AAAATTTTTGAAATTTTGTTAA
Found at i:36680244 original size:5 final size:5
Alignment explanation
Indices: 36680234--36680271 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
36680224 CAAAAATAAA
36680234 TATTT TATTT TATTT TATTT TATTT TATTT TATTT TAT
1 TATTT TATTT TATTT TATTT TATTT TATTT TATTT TAT
36680272 GGTTGGTATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:36680534 original size:23 final size:24
Alignment explanation
Indices: 36680494--36680550 Score: 82
Period size: 23 Copynumber: 2.4 Consensus size: 24
36680484 TCCATGGAAA
36680494 AATTAGAAAAAATAATATGATAATT
1 AATTA-AAAAAATAATATGATAATT
36680519 AA-TAAAAATAAT-ATATGATAATT
1 AATTAAAAA-AATAATATGATAATT
36680542 AATTAAAAA
1 AATTAAAAA
36680551 GAAAAAAATC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
23 17 0.57
24 11 0.37
25 2 0.07
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (24 bp):
AATTAAAAAAATAATATGATAATT
Found at i:36685987 original size:14 final size:14
Alignment explanation
Indices: 36685968--36686000 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
36685958 AAAGTGGGAA
36685968 AAATAATGGATGAT
1 AAATAATGGATGAT
36685982 AAATAATGGATGAT
1 AAATAATGGATGAT
36685996 AAATA
1 AAATA
36686001 TTTAAATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (14 bp):
AAATAATGGATGAT
Found at i:36687194 original size:24 final size:24
Alignment explanation
Indices: 36687093--36687195 Score: 77
Period size: 24 Copynumber: 4.2 Consensus size: 24
36687083 GGCTATCCGA
* * *
36687093 AGCTTCCTGA-TATGGTTCTTCGTG
1 AGCTTCCCGATTATGGCTCTT-ATG
* *
36687117 AGATTCCTGATTAATGGCTCTT-TCG
1 AGCTTCCCGATT-ATGGCTCTTAT-G
* **
36687142 AGCTACCCG-TTATTGGCTCGCATG
1 AGCTTCCCGATTA-TGGCTCTTATG
36687166 AGCTTCCCGATTATGGCTCTTATG
1 AGCTTCCCGATTATGGCTCTTATG
36687190 AGCTTC
1 AGCTTC
36687196 TCATTATATA
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
23 1 0.02
24 42 0.67
25 12 0.19
26 8 0.13
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (24 bp):
AGCTTCCCGATTATGGCTCTTATG
Found at i:36691467 original size:26 final size:26
Alignment explanation
Indices: 36691437--36691544 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
36691427 TGAAATTCCC
36691437 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
36691463 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
36691489 ATCATTGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
36691515 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
36691541 ATCA
1 ATCA
36691545 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:36698041 original size:26 final size:26
Alignment explanation
Indices: 36698005--36698079 Score: 141
Period size: 26 Copynumber: 2.9 Consensus size: 26
36697995 NNNNNNNNNN
36698005 AACATTTACCTAACCCATTATCATGA
1 AACATTTACCTAACCCATTATCATGA
*
36698031 AACATTTACCTAACCCATTATCATGG
1 AACATTTACCTAACCCATTATCATGA
36698057 AACATTTACCTAACCCATTATCA
1 AACATTTACCTAACCCATTATCA
36698080 ATTTGTATCA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.37, C:0.28, G:0.04, T:0.31
Consensus pattern (26 bp):
AACATTTACCTAACCCATTATCATGA
Found at i:36703732 original size:34 final size:33
Alignment explanation
Indices: 36703689--36703753 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 33
36703679 ACTTATTATA
36703689 TATATATATA-TTATAATATATAATAAGAAATGTG
1 TATATATATAGTTATAATAT-TAATAA-AAATGTG
36703723 TATATATATATGTTATAATATTAATAAAAAT
1 TATATATATA-GTTATAATATTAATAAAAAT
36703754 AAAAGTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 14 0.48
35 6 0.21
36 9 0.31
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (33 bp):
TATATATATAGTTATAATATTAATAAAAATGTG
Found at i:36703739 original size:36 final size:34
Alignment explanation
Indices: 36703687--36703753 Score: 107
Period size: 36 Copynumber: 1.9 Consensus size: 34
36703677 TGACTTATTA
36703687 TATATATATATATTATAATATATAATAAGAAATGTG
1 TATATATATATATTATAATAT-TAATAA-AAATGTG
*
36703723 TATATATATATGTTATAATATTAATAAAAAT
1 TATATATATATATTATAATATTAATAAAAAT
36703754 AAAAGTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 4 0.13
35 6 0.20
36 20 0.67
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (34 bp):
TATATATATATATTATAATATTAATAAAAATGTG
Found at i:36705825 original size:90 final size:90
Alignment explanation
Indices: 36705672--36705843 Score: 335
Period size: 90 Copynumber: 1.9 Consensus size: 90
36705662 ATAATCATTT
*
36705672 GGTGTGGATATGCTTGACAAGGATTGGCCATGGGAATGGTTAATCACTTTCATAAATTGTGCTAT
1 GGTGTGGATATGCTTGACAAGGATTGGCCATGGGAATGGTTAATCACTATCATAAATTGTGCTAT
36705737 TTATGCAAAAAGGGCTAAATTGAGA
66 TTATGCAAAAAGGGCTAAATTGAGA
36705762 GGTGTGGATATGCTTGACAAGGATTGGCCATGGGAATGGTTAATCACTATCATAAATTGTGCTAT
1 GGTGTGGATATGCTTGACAAGGATTGGCCATGGGAATGGTTAATCACTATCATAAATTGTGCTAT
36705827 TTATGCAAAAAGGGCTA
66 TTATGCAAAAAGGGCTA
36705844 GTTGAATCAT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 81 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (90 bp):
GGTGTGGATATGCTTGACAAGGATTGGCCATGGGAATGGTTAATCACTATCATAAATTGTGCTAT
TTATGCAAAAAGGGCTAAATTGAGA
Found at i:36714009 original size:22 final size:22
Alignment explanation
Indices: 36713977--36714019 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
36713967 ATATACAATT
*
36713977 GGGCCTAAGCCCATTTCAGTAA
1 GGGCCTAAGCCCATTACAGTAA
*
36713999 GGGCCTTAGCCCATTACAGTA
1 GGGCCTAAGCCCATTACAGTA
36714020 TCAGTATCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (22 bp):
GGGCCTAAGCCCATTACAGTAA
Found at i:36715264 original size:27 final size:27
Alignment explanation
Indices: 36715234--36715411 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
36715224 ATATTGAGTC
* * * *
36715234 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
36715261 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
36715288 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
36715316 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
36715343 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
36715370 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
36715397 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36715412 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:36715373 original size:82 final size:81
Alignment explanation
Indices: 36715255--36715410 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
36715245 TGCTATATAA
* *
36715255 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
36715320 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
36715337 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
36715401 CACTTAGTGC
65 CACTTAGTGC
36715411 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:36723459 original size:27 final size:27
Alignment explanation
Indices: 36723429--36723606 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
36723419 ATATTGAGTC
* * * *
36723429 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
36723456 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
36723483 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
36723511 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
36723538 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
36723565 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
36723592 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36723607 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:36723568 original size:82 final size:81
Alignment explanation
Indices: 36723450--36723605 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
36723440 TGCTATATAA
* *
36723450 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
36723515 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
36723532 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
36723596 CACTTAGTGC
65 CACTTAGTGC
36723606 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:36727449 original size:27 final size:27
Alignment explanation
Indices: 36727419--36727596 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
36727409 ATATTGAGTC
* * * *
36727419 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
36727446 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
36727473 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
36727501 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
36727528 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
36727555 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
36727582 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
36727597 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:36727558 original size:82 final size:81
Alignment explanation
Indices: 36727440--36727595 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
36727430 TGCTATATAA
* *
36727440 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
36727505 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
36727522 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
36727586 CACTTAGTGC
65 CACTTAGTGC
36727596 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:36730260 original size:47 final size:48
Alignment explanation
Indices: 36730186--36730291 Score: 142
Period size: 47 Copynumber: 2.2 Consensus size: 48
36730176 ACTAAGAACA
* * * * *
36730186 GATTGACAGAGGGAAAAAGAACAAGAAGCAATTAGT-TAAGGGAAATC
1 GATTGAGAAAGGGAAAAAGAACAAGAAGCAATCAGTCAAAGGGAAACC
*
36730233 GATTGAGAAAGGGAAAAAGAACTAGAAGCAATCAGTCAAAGGGAAACC
1 GATTGAGAAAGGGAAAAAGAACAAGAAGCAATCAGTCAAAGGGAAACC
*
36730281 AATTGAGAAAG
1 GATTGAGAAAG
36730292 AGGGAAGAAG
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
47 32 0.63
48 19 0.37
ACGTcount: A:0.50, C:0.09, G:0.27, T:0.13
Consensus pattern (48 bp):
GATTGAGAAAGGGAAAAAGAACAAGAAGCAATCAGTCAAAGGGAAACC
Found at i:36738373 original size:27 final size:26
Alignment explanation
Indices: 36738327--36738386 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
36738317 GCGAGGCTGC
36738327 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGTCACCAGA-A
* * *
36738354 CAGATATTGTGGCTAGGTCACCAGAA
1 CAGATATTGTGACAAAGTCACCAGAA
*
36738380 TAGATAT
1 CAGATAT
36738387 ATATATGCGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (26 bp):
CAGATATTGTGACAAAGTCACCAGAA
Found at i:36739165 original size:27 final size:27
Alignment explanation
Indices: 36739128--36739245 Score: 139
Period size: 27 Copynumber: 4.4 Consensus size: 27
36739118 GGGGCAAAAT
* *
36739128 GGTAATT-TACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
36739154 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
36739181 GGTATTTATACACTACAATGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
36739208 GGTAAATCTACCTTACAATGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
36739235 GGTAATTCTAC
1 GGTAATTCTAC
36739246 AACTTATCCA
Statistics
Matches: 77, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 7 0.09
27 70 0.91
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:36744106 original size:26 final size:27
Alignment explanation
Indices: 36744077--36744130 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
36744067 TCACACAAGT
*
36744077 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
36744103 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
36744130 T
1 T
36744131 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:36744162 original size:27 final size:27
Alignment explanation
Indices: 36744132--36744275 Score: 157
Period size: 27 Copynumber: 5.3 Consensus size: 27
36744122 GGGCAAAATG
* * *
36744132 GTAATTTTACCCCACAAGGGTATCTCA
1 GTAATTTTACCCTACAGGGGTATTTCA
*
36744159 GTAATTTTATCCTACAGGGGTATTTC-
1 GTAATTTTACCCTACAGGGGTATTTCA
* *
36744185 G-ATATTTCTACCCTACAAGGGTATTTCG
1 GTA-ATTT-TACCCTACAGGGGTATTTCA
* *
36744213 GTAATTCTATCCTACAGGGGTATTTCA
1 GTAATTTTACCCTACAGGGGTATTTCA
* * *
36744240 GTAATTCTACCTTACAGGGGTATTTCG
1 GTAATTTTACCCTACAGGGGTATTTCA
36744267 GTAATTTTA
1 GTAATTTTA
36744276 TAACTTATCC
Statistics
Matches: 99, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
25 1 0.01
26 5 0.05
27 88 0.89
28 4 0.04
29 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.38
Consensus pattern (27 bp):
GTAATTTTACCCTACAGGGGTATTTCA
Found at i:36744204 original size:54 final size:54
Alignment explanation
Indices: 36744135--36744276 Score: 198
Period size: 54 Copynumber: 2.6 Consensus size: 54
36744125 CAAAATGGTA
* * *
36744135 ATTT-TACCCCACAAGGGTATCTCAGTAATTTTATCCTACAGGGGTATTTC-GAT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTTTATCCTACAGGGGTATTTCAG-T
*
36744188 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTATCCTACAGGGGTATTTCAGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTTTATCCTACAGGGGTATTTCAGT
* * *
36744242 AATTCTACCTTACAGGGGTATTTCGGTAATTTTAT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTTTAT
36744277 AACTTATCCA
Statistics
Matches: 79, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
53 4 0.05
54 74 0.94
55 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTTTATCCTACAGGGGTATTTCAGT
Found at i:36745460 original size:26 final size:26
Alignment explanation
Indices: 36745428--36745478 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
36745418 TACAACCTGA
36745428 GTAAGTTAAAGAATTTTTGATTTATT
1 GTAAGTTAAAGAATTTTTGATTTATT
*
36745454 GTAAGTTAAAGAATTTTTTATTTAT
1 GTAAGTTAAAGAATTTTTGATTTAT
36745479 AGTGATGCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (26 bp):
GTAAGTTAAAGAATTTTTGATTTATT
Found at i:36752767 original size:15 final size:15
Alignment explanation
Indices: 36752747--36752815 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
36752737 GTATCTTGGG
36752747 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
36752762 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
36752777 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
36752792 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
36752807 TTTCTTTAT
1 TTTCTTTAT
36752816 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:36752816 original size:30 final size:30
Alignment explanation
Indices: 36752738--36752825 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
36752728 CATAATATCG
* * * *
36752738 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
36752768 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
36752798 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
36752826 TATTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:36764743 original size:287 final size:287
Alignment explanation
Indices: 36764227--36764783 Score: 958
Period size: 287 Copynumber: 1.9 Consensus size: 287
36764217 ACTCCATGGA
36764227 TAGGGTTTTCAAGCTTCCCAAGCTCAATTGTAAGTCCGTTCTAACCTCGTTTTTCAAGTTCTTTA
1 TAGGGTTTTCAAGCTTCCCAAGCTCAATTGTAAGTCCGTTCTAACCTCGTTTTTCAAGTTCTTTA
* *
36764292 CGTTTTTGGAGTCCTGGTAACTTGATTTAGCTTATGCTAGCAACAATTCAACCTAGGGTTCATAT
66 CGTTTTTGGAGTCCCGGTAACTCGATTTAGCTTATGCTAGCAACAATTCAACCTAGGGTTCATAT
36764357 TTGGAAAAATACCCATAGGTAAAATTTGTGCATTCTGGTGTTTTATGATACAATATGAGGTTTTA
131 TTGGAAAAATACCCATAGGTAAAATTTGTGCATTCTGGTGTTTTATGATACAATATGAGGTTTTA
36764422 AATTATGTTAGACAACTTGTGCTACTCGGTTTTAAGTGAAAACGAGCAAAAGGGCTTAATCGGTA
196 AATTATGTTAGACAACTTGTGCTACTCGGTTTTAAGTGAAAACGAGCAAAAGGGCTTAATCGGTA
36764487 AAAATACCTATAAGGAGAAACCTTGGC
261 AAAATACCTATAAGGAGAAACCTTGGC
* *
36764514 TAGGGTTTTGCAAGCTT-CCAAGCTTAATTGTAAGTCCGTTCTAGCCTCGTTTTT-AATGATT-T
1 TAGGGTTTT-CAAGCTTCCCAAGCTCAATTGTAAGTCCGTTCTAACCTCGTTTTTCAA-G-TTCT
* * * *
36764576 TTACGTTTTTGGAGTCCCGGTAGCTCGATTTAGCTTATGCTAGCAATAATTTAACCTAGGGTTTA
63 TTACGTTTTTGGAGTCCCGGTAACTCGATTTAGCTTATGCTAGCAACAATTCAACCTAGGGTTCA
* * * *
36764641 TATTTGGAAAAATACCCATAGGTGAAATTTGTGTATTTTGGTGTTTTATGATAGAATATGAGGTT
128 TATTTGGAAAAATACCCATAGGTAAAATTTGTGCATTCTGGTGTTTTATGATACAATATGAGGTT
36764706 TTAAATTATGTTAGACAACTTGTGCTACTCGGTTTTAAGTGAAAACGAGCAAAAGGGCTTAATCG
193 TTAAATTATGTTAGACAACTTGTGCTACTCGGTTTTAAGTGAAAACGAGCAAAAGGGCTTAATCG
36764771 GTAAAAATACCTA
258 GTAAAAATACCTA
36764784 ATAGTCATAA
Statistics
Matches: 255, Mismatches: 12, Indels: 6
0.93 0.04 0.02
Matches are distributed among these distances:
286 2 0.01
287 244 0.96
288 9 0.04
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (287 bp):
TAGGGTTTTCAAGCTTCCCAAGCTCAATTGTAAGTCCGTTCTAACCTCGTTTTTCAAGTTCTTTA
CGTTTTTGGAGTCCCGGTAACTCGATTTAGCTTATGCTAGCAACAATTCAACCTAGGGTTCATAT
TTGGAAAAATACCCATAGGTAAAATTTGTGCATTCTGGTGTTTTATGATACAATATGAGGTTTTA
AATTATGTTAGACAACTTGTGCTACTCGGTTTTAAGTGAAAACGAGCAAAAGGGCTTAATCGGTA
AAAATACCTATAAGGAGAAACCTTGGC
Found at i:36765760 original size:89 final size:89
Alignment explanation
Indices: 36765604--36765780 Score: 293
Period size: 89 Copynumber: 2.0 Consensus size: 89
36765594 CGGAAAGATT
* * *
36765604 GGATTATACAGATGGTATGTAGCTAGGTCACATGTATAGTGCTGAGTGCACATCAAGTGTACAAG
1 GGATGATACAGATAGTATGTACCTAGGTCACATGTATAGTGCTGAGTGCACATCAAGTGTACAAG
36765669 AGAGCTACAAGACATTATAATGTG
66 AGAGCTACAAGACATTATAATGTG
*
36765693 GGATGATACAGATAGTATGTACCTAGGTCACATGTATGGTGCTGAGTGCACATCATA-TGTACAA
1 GGATGATACAGATAGTATGTACCTAGGTCACATGTATAGTGCTGAGTGCACATCA-AGTGTACAA
*
36765757 GAGAGCTACAAGACATTATGATGT
65 GAGAGCTACAAGACATTATAATGT
36765781 AGCTAGGTCG
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
89 81 0.99
90 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.27
Consensus pattern (89 bp):
GGATGATACAGATAGTATGTACCTAGGTCACATGTATAGTGCTGAGTGCACATCAAGTGTACAAG
AGAGCTACAAGACATTATAATGTG
Found at i:36765826 original size:68 final size:67
Alignment explanation
Indices: 36765753--36765902 Score: 180
Period size: 67 Copynumber: 2.2 Consensus size: 67
36765743 CATCATATGT
* * * *
36765753 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
36765815 ATGTAG
62 ATGTAG
* * *
36765821 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
36765886 AG
66 AG
36765888 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
36765903 GATAAACTGG
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
64 20 0.28
65 7 0.10
66 5 0.07
67 27 0.38
68 13 0.18
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:36772009 original size:24 final size:24
Alignment explanation
Indices: 36771982--36772029 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
36771972 ATCTCAAAAA
36771982 GAGGTATCTTACAAATTCAACACT
1 GAGGTATCTTACAAATTCAACACT
36772006 GAGGTATCTTACAAATTCAACACT
1 GAGGTATCTTACAAATTCAACACT
36772030 CGGTTTGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (24 bp):
GAGGTATCTTACAAATTCAACACT
Found at i:36775043 original size:29 final size:29
Alignment explanation
Indices: 36775001--36775062 Score: 115
Period size: 29 Copynumber: 2.1 Consensus size: 29
36774991 TCACATTTTG
36775001 ACAAGGATCTCACAGTGAGAAAAAAGAGA
1 ACAAGGATCTCACAGTGAGAAAAAAGAGA
*
36775030 ACAAGGATCTCACAGTGAGAGAAAAGAGA
1 ACAAGGATCTCACAGTGAGAAAAAAGAGA
36775059 ACAA
1 ACAA
36775063 AGAAATATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.52, C:0.15, G:0.24, T:0.10
Consensus pattern (29 bp):
ACAAGGATCTCACAGTGAGAAAAAAGAGA
Found at i:36775957 original size:20 final size:20
Alignment explanation
Indices: 36775932--36775969 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
36775922 ATTTTAGGAG
*
36775932 TAAAATCATTAGTAAATTTA
1 TAAAATAATTAGTAAATTTA
*
36775952 TAAAATAATTATTAAATT
1 TAAAATAATTAGTAAATT
36775970 ATTTAAAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (20 bp):
TAAAATAATTAGTAAATTTA
Found at i:36787778 original size:20 final size:20
Alignment explanation
Indices: 36787739--36787780 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
36787729 CAGAAAATAA
*
36787739 TTTCTGAAAAATAATTTATT
1 TTTCTGAAAAATAATATATT
36787759 TTTCTGAAAAAATAA-ATATT
1 TTTCTG-AAAAATAATATATT
36787779 TT
1 TT
36787781 CTGGTGTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (20 bp):
TTTCTGAAAAATAATATATT
Found at i:36788180 original size:15 final size:15
Alignment explanation
Indices: 36788160--36788225 Score: 55
Period size: 15 Copynumber: 4.3 Consensus size: 15
36788150 ATTACAAAAC
36788160 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
36788175 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
36788194 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
*
36788209 ATTGA-TATTAA-AT
1 ATTTATTATTAATAT
36788222 ATTT
1 ATTT
36788226 TCAATAATAT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
13 5 0.12
14 6 0.14
15 13 0.31
16 1 0.02
17 7 0.17
18 1 0.02
19 9 0.21
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:36788275 original size:16 final size:16
Alignment explanation
Indices: 36788244--36788280 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
36788234 ATGTTAATAA
36788244 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
36788260 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
36788276 TATTA
1 TATTA
36788281 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:36788332 original size:22 final size:22
Alignment explanation
Indices: 36788292--36788347 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
36788282 AATAAAATTG
*
36788292 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
36788312 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
36788334 TATTAATAATTTAT
1 AAATAATAAATTAT
36788348 TATATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:36795510 original size:46 final size:46
Alignment explanation
Indices: 36795455--36795548 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
36795445 ACTCATAAGG
36795455 CTGGGTTTTTCTTTTTTCTTATCTTAGGCAATATTTTTCAGTTTTA
1 CTGGGTTTTTCTTTTTTCTTATCTTAGGCAATATTTTTCAGTTTTA
36795501 CTGGGTTTTTCTTTTTTCTTATCTTAGGCAATATTTTTCAGTTTTA
1 CTGGGTTTTTCTTTTTTCTTATCTTAGGCAATATTTTTCAGTTTTA
36795547 CT
1 CT
36795549 TTAGGTAACG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.15, C:0.14, G:0.13, T:0.59
Consensus pattern (46 bp):
CTGGGTTTTTCTTTTTTCTTATCTTAGGCAATATTTTTCAGTTTTA
Found at i:36795563 original size:46 final size:45
Alignment explanation
Indices: 36795467--36795563 Score: 124
Period size: 46 Copynumber: 2.1 Consensus size: 45
36795457 GGGTTTTTCT
* ** *
36795467 TTTTTCTTATCTTAGGCAATATTTTTCAGTTTTACTGGGTTTTTCT
1 TTTTTCTTATCTTAGGCAATATTTTTCAGTTTTACTAGG-TTAACG
36795513 TTTTTCTTATCTTAGGCAATATTTTTCAGTTTTACTTTAGG-TAACG
1 TTTTTCTTATCTTAGGCAATATTTTTCAGTTTTAC--TAGGTTAACG
36795559 TTTTT
1 TTTTT
36795564 TTAAACTTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
46 42 0.93
48 3 0.07
ACGTcount: A:0.18, C:0.12, G:0.12, T:0.58
Consensus pattern (45 bp):
TTTTTCTTATCTTAGGCAATATTTTTCAGTTTTACTAGGTTAACG
Found at i:36797680 original size:17 final size:17
Alignment explanation
Indices: 36797658--36797692 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
36797648 TTACGATTTA
36797658 TCTCTCAATACTTTTCG
1 TCTCTCAATACTTTTCG
36797675 TCTCTCAATACTTTTCG
1 TCTCTCAATACTTTTCG
36797692 T
1 T
36797693 TTGATGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.17, C:0.29, G:0.06, T:0.49
Consensus pattern (17 bp):
TCTCTCAATACTTTTCG
Found at i:36801748 original size:310 final size:310
Alignment explanation
Indices: 36801173--36801764 Score: 723
Period size: 311 Copynumber: 1.9 Consensus size: 310
36801163 GACAAGAAAA
36801173 AAAAAGCAACTACAATATTGAGGAAGAAAAGGGTTGCAAATTGGATTCAAAAGCTCTTAATGCAA
1 AAAAAGCAACTACAATATTGAGGAAGAAAAGGGTTGCAAATTGGATTCAAAAGCTCTTAATGCAA
* *
36801238 TATGCAATGATGTTGACATTGAACAATTCGAAATCATTTCCATATGTGAATCCATCAAAGATATT
66 TATGCAATGATGTTGACATTGAACAATTCAAAATCATTTCCATATGTGAATCCATCAAAGATAGT
* * * * * * *
36801303 TGGACAAATCTCTAAAATCAACATGAAGGGAATGCAATCAATCTATATGTCTAAACTCTAGATCT
131 CGGACAAATCTCTAAAATCAACATGAAAGGAATACAATCAATCTACATGTCCAAACTCTACATCC
* * * *
36801368 TTACTTTCAAATTTGAAAATTTAAGAATGAGTTAAGAAGAAACTATTTTTGGTTTTAAAGTTCAT
196 TTACTTCCAAATTTGAAAATTTAAGAATGAATGAAGAAGAAACTATTTTTAGTTTTAAAG-TCAT
*
36801433 TTATGTGAAATTTCTATTGAAGTAGCTACAACATTGTGAGTTCTAAGACAG
260 TTATGTGAAATTTCTAATGAAGTAGCTACAACATTGTGAGTTCTAAGACAG
* * * * *
36801484 AAAAA-CAACTACGATATTGTGGAAG-AAAGGGTTGCCAATTTGGAATTGAAAAGCTCTTAATGT
1 AAAAAGCAACTACAATATTGAGGAAGAAAAGGGTTG-CAAATTGG-ATTCAAAAGCTCTTAATGC
* * * * * * * *
36801547 AATATGCAGTTATGTTGTCATTGAATAATTCAAAATCTTTTCTATGTGTGAATTCA-CTAAAGAT
64 AATATGCAATGATGTTGACATTGAACAATTCAAAATCATTTCCATATGTGAATCCATC-AAAGAT
* * *
36801611 -GTCGGACAATTCTTTAAAATCAACACT-AAAGGAATAC-ATCAGTCTACATGTCCAAACT-TCA
128 AGTCGGACAAATCTCTAAAATCAACA-TGAAAGGAATACAATCAATCTACATGTCCAAACTCT-A
* ** * * *
36801672 CATCCTTACTTCCAAGTTTGAATTTTTAAGAATGAATGAAGAATAAACTTTTTTTTTATTTTTAC
191 CATCCTTACTTCCAAATTTGAAAATTTAAGAATGAATGAAGAAGAAAC--TATTTTTAGTTTTA-
36801737 AA-TCATTTATGTGAAATTTCTAATGAAG
253 AAGTCATTTATGTGAAATTTCTAATGAAG
36801765 CCCTTTGTCT
Statistics
Matches: 237, Mismatches: 36, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
308 1 0.00
309 67 0.28
310 80 0.34
311 87 0.37
312 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (310 bp):
AAAAAGCAACTACAATATTGAGGAAGAAAAGGGTTGCAAATTGGATTCAAAAGCTCTTAATGCAA
TATGCAATGATGTTGACATTGAACAATTCAAAATCATTTCCATATGTGAATCCATCAAAGATAGT
CGGACAAATCTCTAAAATCAACATGAAAGGAATACAATCAATCTACATGTCCAAACTCTACATCC
TTACTTCCAAATTTGAAAATTTAAGAATGAATGAAGAAGAAACTATTTTTAGTTTTAAAGTCATT
TATGTGAAATTTCTAATGAAGTAGCTACAACATTGTGAGTTCTAAGACAG
Found at i:36804041 original size:43 final size:44
Alignment explanation
Indices: 36803975--36804260 Score: 218
Period size: 43 Copynumber: 6.7 Consensus size: 44
36803965 GGATTGTACA
* *
36803975 ATGCCAAC-ATCCTAGACATGGTCTTACATGTAATCAAATATCG
1 ATGCCAACTATCCCAGACAGGGTCTTACATGTAATCAAATATCG
* *
36804018 ATGCC-ACTATCCCAGACAGGGTCTTACACGAAATCAAATAT-G
1 ATGCCAACTATCCCAGACAGGGTCTTACATGTAATCAAATATCG
* * * * * * *
36804060 ATGCCGA-TGTCTCAGACATGATCTTACATATAAATCATAA-GTCG
1 ATGCCAACTATCCCAGACAGGGTCTTACATGT-AATCA-AATATCG
* *
36804104 AAGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACTATCCCAGACAG-GGTCTTACATGTAATCAAATATCG
* *
36804147 ATGCC-ACTATCCCAGACAGGGTCTTACACGAAATCAAATA-CG
1 ATGCCAACTATCCCAGACAGGGTCTTACATGTAATCAAATATCG
* * * * * * *
36804189 ATGCCGA-TGTCTCAGACATGATCTTACATATAAATCATAA-GTCG
1 ATGCCAACTATCCCAGACAGGGTCTTACATGT-AATCA-AATATCG
* * *
36804233 AAGCCAAC-ATCCCAGACATGGTTTTACA
1 ATGCCAACTATCCCAGACAGGGTCTTACA
36804261 CGAAAACCCA
Statistics
Matches: 191, Mismatches: 37, Indels: 29
0.74 0.14 0.11
Matches are distributed among these distances:
42 53 0.28
43 86 0.45
44 52 0.27
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (44 bp):
ATGCCAACTATCCCAGACAGGGTCTTACATGTAATCAAATATCG
Found at i:36804274 original size:129 final size:129
Alignment explanation
Indices: 36803977--36804260 Score: 523
Period size: 129 Copynumber: 2.2 Consensus size: 129
36803967 ATTGTACAAT
*
36803977 GCCAACATCCTAGACATGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGACAGGGTCT
1 GCCAACATCCCAGACATGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGACAGGGTCT
*
36804042 TACACGAAATCAAATATGATGCCGATGTCTCAGACATGATCTTACATATAAATCATAAGTCGAA
66 TACACGAAATCAAATACGATGCCGATGTCTCAGACATGATCTTACATATAAATCATAAGTCGAA
* *
36804106 GCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGACAGGGTCT
1 GCCAACATCCCAGACATGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGACAGGGTCT
36804171 TACACGAAATCAAATACGATGCCGATGTCTCAGACATGATCTTACATATAAATCATAAGTCGAA
66 TACACGAAATCAAATACGATGCCGATGTCTCAGACATGATCTTACATATAAATCATAAGTCGAA
*
36804235 GCCAACATCCCAGACATGGTTTTACA
1 GCCAACATCCCAGACATGGTCTTACA
36804261 CGAAAACCCA
Statistics
Matches: 148, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
129 148 1.00
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.25
Consensus pattern (129 bp):
GCCAACATCCCAGACATGGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGACAGGGTCT
TACACGAAATCAAATACGATGCCGATGTCTCAGACATGATCTTACATATAAATCATAAGTCGAA
Found at i:36805794 original size:90 final size:91
Alignment explanation
Indices: 36805639--36805819 Score: 251
Period size: 90 Copynumber: 2.0 Consensus size: 91
36805629 TATAGGCAAT
* * * *
36805639 TGGGTGGGCAATAATTGAAAAAAAAAAAGAGGTAACTGACGAATCTGAAATTATCTCGGGATTCT
1 TGGGTGGGCAAGAATT-AAAAAAAAAAAGAGGTAACAGACGAATCTAAAATTATCTCGAGATTCT
36805704 C-GAGATGTCT-AAAAACTTATCCTGGGA
65 CAG-GATGTCTGAAAAA-TTATCCTGGGA
* *
36805731 TGGGTGGGCAAGAATT-AAAAAAAAAAGATGTAACAGACGAATCTAAAATTATCTTGAGATTCTC
1 TGGGTGGGCAAGAATTAAAAAAAAAAAGAGGTAACAGACGAATCTAAAATTATCTCGAGATTCTC
*
36805795 AGGATGTTTGAAAAATTATCCTGGG
66 AGGATGTCTGAAAAATTATCCTGGG
36805820 GTTTTAGAAA
Statistics
Matches: 80, Mismatches: 7, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
90 59 0.74
91 6 0.08
92 15 0.19
ACGTcount: A:0.39, C:0.12, G:0.23, T:0.26
Consensus pattern (91 bp):
TGGGTGGGCAAGAATTAAAAAAAAAAAGAGGTAACAGACGAATCTAAAATTATCTCGAGATTCTC
AGGATGTCTGAAAAATTATCCTGGGA
Found at i:36807413 original size:6 final size:6
Alignment explanation
Indices: 36807381--36807424 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
36807371 ACAGTACCTA
* * *
36807381 AACAGT AATCAGT AACGGT AGCAGT AACAGT AATAGT AACAGT A
1 AACAGT AA-CAGT AACAGT AACAGT AACAGT AACAGT AACAGT A
36807425 TTCAACACAC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.20
Consensus pattern (6 bp):
AACAGT
Found at i:36807452 original size:45 final size:45
Alignment explanation
Indices: 36807402--36807514 Score: 145
Period size: 45 Copynumber: 2.5 Consensus size: 45
36807392 GTAACGGTAG
* **
36807402 CAGTAACAGTAATAGTAACAGTATTCAACACACAAAGTGTTTAAT
1 CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCAAAT
* * **
36807447 CAGTAACGGTAACAGTAATAGTATTTGACACACAAAGTGTCAAAT
1 CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCAAAT
* *
36807492 CGGTAACAGTAACGGTAACAGTA
1 CAGTAACAGTAACAGTAACAGTA
36807515 ATAGTAGCCG
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 57 1.00
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (45 bp):
CAGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCAAAT
Found at i:36808524 original size:17 final size:16
Alignment explanation
Indices: 36808502--36808535 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
36808492 AATCTCTAGT
36808502 TTTTCCTTTTTCTGTTC
1 TTTTCCTTTTTCT-TTC
36808519 TTTTCCTTTTTCTTTC
1 TTTTCCTTTTTCTTTC
36808535 T
1 T
36808536 ATTTTTCTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.00, C:0.24, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTTCCTTTTTCTTTC
Found at i:36809098 original size:20 final size:19
Alignment explanation
Indices: 36809071--36809112 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
36809061 ATATAAAACC
36809071 ATAACAATTA-ATAATTATA
1 ATAACAATTATATAA-TATA
36809090 ATAATCAATTATATAATATA
1 ATAA-CAATTATATAATATA
36809110 ATA
1 ATA
36809113 TATATAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 4 0.19
20 13 0.62
21 4 0.19
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAACAATTATATAATATA
Found at i:36810670 original size:12 final size:12
Alignment explanation
Indices: 36810653--36810736 Score: 54
Period size: 12 Copynumber: 7.1 Consensus size: 12
36810643 ATTATTTTAA
36810653 TAAATTTAATAT
1 TAAATTTAATAT
36810665 TAAATTTAAT-T
1 TAAATTTAATAT
* *
36810676 TAATACTT-ATCT
1 TAA-ATTTAATAT
36810688 TGATAGCA-TTA-TAT
1 T-A-A--ATTTAATAT
36810702 T-AATTTAATAT
1 TAAATTTAATAT
*
36810713 TAAGTTTAATAT
1 TAAATTTAATAT
36810725 TAAA-TTAATAT
1 TAAATTTAATAT
36810736 T
1 T
36810737 TATCTTATAG
Statistics
Matches: 58, Mismatches: 5, Indels: 19
0.71 0.06 0.23
Matches are distributed among these distances:
9 1 0.02
10 3 0.05
11 19 0.33
12 27 0.47
13 1 0.02
14 6 0.10
15 1 0.02
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (12 bp):
TAAATTTAATAT
Found at i:36810714 original size:11 final size:11
Alignment explanation
Indices: 36810698--36810736 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
36810688 TGATAGCATT
36810698 ATATTAATTTA
1 ATATTAATTTA
36810709 ATATTAAGTTTA
1 ATATTAA-TTTA
*
36810721 ATATTAAATTA
1 ATATTAATTTA
36810732 ATATT
1 ATATT
36810737 TATCTTATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (11 bp):
ATATTAATTTA
Found at i:36814721 original size:4 final size:4
Alignment explanation
Indices: 36814712--36814739 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
36814702 TTTGGTCTGA
36814712 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
36814740 TTAATAATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:36817466 original size:29 final size:30
Alignment explanation
Indices: 36817417--36817475 Score: 111
Period size: 29 Copynumber: 2.0 Consensus size: 30
36817407 GCTCTTGTTC
36817417 CCTACACTTATCCTTTTATTTGGCGTTCTG
1 CCTACACTTATCCTTTTATTTGGCGTTCTG
36817447 CCTACACTTA-CCTTTTATTTGGCGTTCTG
1 CCTACACTTATCCTTTTATTTGGCGTTCTG
36817476 GCTAAATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 19 0.66
30 10 0.34
ACGTcount: A:0.14, C:0.27, G:0.14, T:0.46
Consensus pattern (30 bp):
CCTACACTTATCCTTTTATTTGGCGTTCTG
Found at i:36824409 original size:33 final size:33
Alignment explanation
Indices: 36824371--36824438 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
36824361 ACATGCCAAG
36824371 ATGGTTTTTGAGCATTGAGGTTTAGCCATATAC
1 ATGGTTTTTGAGCATTGAGGTTTAGCCATATAC
36824404 ATGGTTTTTGAGCATTGAGGTTTAGCCATATAC
1 ATGGTTTTTGAGCATTGAGGTTTAGCCATATAC
36824437 AT
1 AT
36824439 TCTTTTCCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.40
Consensus pattern (33 bp):
ATGGTTTTTGAGCATTGAGGTTTAGCCATATAC
Found at i:36825180 original size:28 final size:28
Alignment explanation
Indices: 36825149--36825205 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
36825139 AAAAGAAAAG
*
36825149 TAGTGTTATGAATATGCAAACAGAATCA
1 TAGTGTTATGAATACGCAAACAGAATCA
*
36825177 TAGTGTTATGAATACGCGAACAGAATCA
1 TAGTGTTATGAATACGCAAACAGAATCA
36825205 T
1 T
36825206 GTCACAGGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.28
Consensus pattern (28 bp):
TAGTGTTATGAATACGCAAACAGAATCA
Found at i:36835742 original size:11 final size:11
Alignment explanation
Indices: 36835726--36835750 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
36835716 TATAGAAAGT
36835726 AAAAAAAAAAC
1 AAAAAAAAAAC
36835737 AAAAAAAAAAC
1 AAAAAAAAAAC
36835748 AAA
1 AAA
36835751 GACTCACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:36844930 original size:3 final size:3
Alignment explanation
Indices: 36844924--36844954 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
36844914 CATCATCAAC
*
36844924 AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
36844955 CTATTCTCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:36847858 original size:24 final size:24
Alignment explanation
Indices: 36847830--36847879 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
36847820 TGCTGAGCTT
36847830 CTCTTTGGATCTTGTATATTAATG
1 CTCTTTGGATCTTGTATATTAATG
36847854 CTCTTTGGATCTTGTATATTAATG
1 CTCTTTGGATCTTGTATATTAATG
36847878 CT
1 CT
36847880 ATGTAGTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.14, G:0.16, T:0.50
Consensus pattern (24 bp):
CTCTTTGGATCTTGTATATTAATG
Found at i:36849572 original size:12 final size:11
Alignment explanation
Indices: 36849557--36849594 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
36849547 TTATCATTGT
36849557 TATTATTATTA
1 TATTATTATTA
36849568 GTATTATTATTA
1 -TATTATTATTA
36849580 TCATTATTATT-
1 T-ATTATTATTA
36849591 TATT
1 TATT
36849595 TTTCCTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 3 0.12
11 2 0.08
12 20 0.80
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (11 bp):
TATTATTATTA
Found at i:36849608 original size:3 final size:3
Alignment explanation
Indices: 36849540--36849590 Score: 59
Period size: 3 Copynumber: 17.3 Consensus size: 3
36849530 TGTACTTTTA
* * * *
36849540 TAT T-T TAT TAT CAT TGT TAT TAT TAT TAG TAT TAT TAT TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
36849587 TAT T
1 TAT T
36849591 TATTTTTCCT
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:36854486 original size:19 final size:19
Alignment explanation
Indices: 36854462--36854502 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
36854452 AGAGAAGGAG
36854462 ACAACAATGCTTTTCATAA
1 ACAACAATGCTTTTCATAA
36854481 ACAACAATGCTTTTCATAA
1 ACAACAATGCTTTTCATAA
36854500 ACA
1 ACA
36854503 CTCTAAAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.44, C:0.22, G:0.05, T:0.29
Consensus pattern (19 bp):
ACAACAATGCTTTTCATAA
Found at i:36857906 original size:28 final size:28
Alignment explanation
Indices: 36857874--36857933 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 28
36857864 CTAAAGATAT
* *
36857874 GGAAAAAACCACATTCGTAACTGTGTAG
1 GGAAAAAACAACATTCGTAACCGTGTAG
*
36857902 GGAAAAGACAACATTCGTAACCGTGTAG
1 GGAAAAAACAACATTCGTAACCGTGTAG
36857930 GGAA
1 GGAA
36857934 TATTTTGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (28 bp):
GGAAAAAACAACATTCGTAACCGTGTAG
Found at i:36861646 original size:44 final size:45
Alignment explanation
Indices: 36861577--36861676 Score: 132
Period size: 44 Copynumber: 2.2 Consensus size: 45
36861567 CACTGTGGTG
* * *
36861577 AATCTTATCTTCTTGAAGTCACAGTGGAGTAGATTGAAG-TCA-CA
1 AATCTTATCTCCCTGAAGTCACAGTGGAGCAGATTGAAGAT-AGCA
**
36861621 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTCACAGTGGAGCAGATTGAAGATAGCA
36861666 AATCTTATCTC
1 AATCTTATCTC
36861677 TTTAAAGTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
44 35 0.71
45 14 0.29
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTCACAGTGGAGCAGATTGAAGATAGCA
Found at i:36861685 original size:45 final size:45
Alignment explanation
Indices: 36861577--36861799 Score: 141
Period size: 45 Copynumber: 4.8 Consensus size: 45
36861567 CACTGTGGTG
* * * * *
36861577 AATCTTATCTTCTTGAAGTCACAGTGGAGTAGATTGAAG-TCA-CA
1 AATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTGAAGAT-AGCA
* *
36861621 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCA
1 AATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTGAAGATAGCA
** * * *
36861666 AATCTTATCTCTTTAAAGTTACAGTAGAACAGATT-AAAACTAG-A
1 AATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTGAAGA-TAGCA
* * * * *
36861710 AATCTTATTTCCCTAAAAGTTATAGTAGAACAGATTAAAGCTACAAATTA-CA
1 AATCTTATCTCCCT-AAAGTTACAGTGGAGCAGATT---G--A-AGA-TAGCA
* * *
36861762 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAA
1 AATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTGAA
36861800 ACGATAAGTT
Statistics
Matches: 143, Mismatches: 24, Indels: 23
0.75 0.13 0.12
Matches are distributed among these distances:
44 50 0.35
45 56 0.39
46 1 0.01
48 1 0.01
51 17 0.12
52 18 0.13
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.30
Consensus pattern (45 bp):
AATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTGAAGATAGCA
Found at i:36879908 original size:29 final size:29
Alignment explanation
Indices: 36879845--36879918 Score: 71
Period size: 29 Copynumber: 2.5 Consensus size: 29
36879835 CAAAAATAAT
36879845 AAAAGAAATAATAAAATAACAAGAACATAC
1 AAAA-AAATAATAAAATAACAAGAACATAC
* *
36879875 CAAAAAATAATAATAATAATAATG-ACA-AC
1 AAAAAAATAATAA-AATAACAA-GAACATAC
* *
36879904 AAAAAATTAAAAAAA
1 AAAAAAATAATAAAA
36879919 AAGTACCAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
28 2 0.05
29 21 0.57
30 13 0.35
31 1 0.03
ACGTcount: A:0.72, C:0.08, G:0.04, T:0.16
Consensus pattern (29 bp):
AAAAAAATAATAAAATAACAAGAACATAC
Found at i:36879998 original size:12 final size:11
Alignment explanation
Indices: 36879963--36880022 Score: 52
Period size: 11 Copynumber: 5.5 Consensus size: 11
36879953 TTAAGTATGT
*
36879963 ATAAAAAATAA
1 ATAAATAATAA
* *
36879974 AGAAGTAATAA
1 ATAAATAATAA
36879985 ATAAATAGATAA
1 ATAAATA-ATAA
*
36879997 ATAGATAATAA
1 ATAAATAATAA
36880008 A-ATAATAAT-A
1 ATA-AATAATAA
36880018 ATAAA
1 ATAAA
36880023 GGCGCAAAAG
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
10 5 0.13
11 24 0.62
12 10 0.26
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (11 bp):
ATAAATAATAA
Found at i:36884157 original size:30 final size:30
Alignment explanation
Indices: 36884097--36884157 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
36884087 GAGTTCTCAG
* * *
36884097 GATCCACACGGGCAGGCCACACGGCTATGT
1 GATCCACACGAGCAGGCCACACGCCCATGT
*
36884127 GATCCACACGAGCATGCCACACGCCCATGT
1 GATCCACACGAGCAGGCCACACGCCCATGT
36884157 G
1 G
36884158 CCAGCCCGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.36, G:0.26, T:0.13
Consensus pattern (30 bp):
GATCCACACGAGCAGGCCACACGCCCATGT
Found at i:36891304 original size:27 final size:27
Alignment explanation
Indices: 36891274--36891403 Score: 102
Period size: 27 Copynumber: 4.8 Consensus size: 27
36891264 GGCTATTCCT
* *
36891274 TGTTTAATGT-CTCGTTAGACTATCTCG
1 TGTTTAACGTCCT-GTTAGACTACCTCG
*
36891301 TGTTTAACGTCCTGTTGGACTACCTCG
1 TGTTTAACGTCCTGTTAGACTACCTCG
* * * * *
36891328 TGTTTAACATCATATCAGACTACCTCA
1 TGTTTAACGTCCTGTTAGACTACCTCG
** * *
36891355 TGTTTAACGT-CTCGTCGGACTACTTCC
1 TGTTTAACGTCCT-GTTAGACTACCTCG
* *
36891382 TGTTTAACGTCCTATCAGACTA
1 TGTTTAACGTCCTGTTAGACTA
36891404 TCTATGATAA
Statistics
Matches: 83, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
26 1 0.01
27 78 0.94
28 4 0.05
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.38
Consensus pattern (27 bp):
TGTTTAACGTCCTGTTAGACTACCTCG
Found at i:36891348 original size:54 final size:54
Alignment explanation
Indices: 36891290--36891406 Score: 155
Period size: 54 Copynumber: 2.2 Consensus size: 54
36891280 ATGTCTCGTT
* * *
36891290 AGACTATCTCGTGTTTAACGTC-CTGTTGGACTACCTCGTGTTTAACATCATATC
1 AGACTATCTCATGTTTAACGTCTC-GTCGGACTACCTCCTGTTTAACATCATATC
* * * *
36891344 AGACTACCTCATGTTTAACGTCTCGTCGGACTACTTCCTGTTTAACGTCCTATC
1 AGACTATCTCATGTTTAACGTCTCGTCGGACTACCTCCTGTTTAACATCATATC
36891398 AGACTATCT
1 AGACTATCT
36891407 ATGATAACAT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
54 53 0.98
55 1 0.02
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.36
Consensus pattern (54 bp):
AGACTATCTCATGTTTAACGTCTCGTCGGACTACCTCCTGTTTAACATCATATC
Found at i:36891527 original size:45 final size:45
Alignment explanation
Indices: 36891476--36891601 Score: 128
Period size: 45 Copynumber: 2.8 Consensus size: 45
36891466 GGATTACTAG
* * *
36891476 GATGTCAAACCGTTTTTCAGCCATGATTTTACTCAT-TTATATCAT
1 GATGTCAAACCATCTTTCAGCCATGATCTTACTCATCTTA-ATCAT
* * * *
36891521 GATGTCATAGCATCTTTCAGCTATGGTCTTACTCATCTTAATCAT
1 GATGTCAAACCATCTTTCAGCCATGATCTTACTCATCTTAATCAT
* * * * *
36891566 GATGTCATAGCACCTTTCAGCTATGGTCTTACTCAT
1 GATGTCAAACCATCTTTCAGCCATGATCTTACTCAT
36891602 TTTAGGCGTA
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
45 69 0.96
46 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.40
Consensus pattern (45 bp):
GATGTCAAACCATCTTTCAGCCATGATCTTACTCATCTTAATCAT
Found at i:36907835 original size:205 final size:205
Alignment explanation
Indices: 36907477--36907852 Score: 592
Period size: 205 Copynumber: 1.8 Consensus size: 205
36907467 ATCTGCTTCC
*
36907477 TCGATTTGTTCTCTGACAATACAGAGATACCAAATCATCTTAGATTTGCTTCAACGTAAGCACGT
1 TCGATTTGTTCTCTGACAATACAGAGATACCAAATCATCTTAGATTTGCTTCAACGTAAACACGT
* *
36907542 GAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGG
66 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGG
* * **
36907607 ATCTACTTCAGTGAGATCATCTGAAGGTGAGATCTGCTATGTATCTACTCTCCGTCGAAATGGAG
131 ATCTACTTCAGTGAAAGCATCTGAAGGCCAGATCTGCTATGTATCTACTCTCCGTCGAAATGGAG
36907672 ATGCCAGACT
196 ATGCCAGACT
* *
36907682 TCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAATACGT
1 TCGATTTGTTCTCTGACAATACAGAGATACCAAATCATCTTAGATTTGCTTCAACGTAAACACGT
* * * *
36907747 GAAAGTCAAATCAGCTATGTCTTCGATTTTTTCCTTGTAAGTATAAGGATGCCAAACCATCTTGG
66 GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGG
** *
36907812 ATCTGTTTCAGT-ACAAGCATCTGAAGGCCAGATCTGTTATG
131 ATCTACTTCAGTGA-AAGCATCTGAAGGCCAGATCTGCTATG
36907853 CTGCGGCCTA
Statistics
Matches: 154, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
204 1 0.01
205 153 0.99
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (205 bp):
TCGATTTGTTCTCTGACAATACAGAGATACCAAATCATCTTAGATTTGCTTCAACGTAAACACGT
GAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTTGG
ATCTACTTCAGTGAAAGCATCTGAAGGCCAGATCTGCTATGTATCTACTCTCCGTCGAAATGGAG
ATGCCAGACT
Found at i:36925723 original size:23 final size:22
Alignment explanation
Indices: 36925651--36925738 Score: 92
Period size: 21 Copynumber: 4.1 Consensus size: 22
36925641 TACTTGATCA
*
36925651 GAATACGACACATAA-GTGCCT
1 GAATACGACACACAAGGTGCCT
*
36925672 GAA-ACGACACACGAGGTGCCT
1 GAATACGACACACAAGGTGCCT
* *
36925693 -ATTGCGACACACAAGGTGCCT
1 GAATACGACACACAAGGTGCCT
* *
36925714 GAAATACGACACATAAAGTGCCT
1 G-AATACGACACACAAGGTGCCT
36925737 GA
1 GA
36925739 TCAGTAAAGC
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
20 10 0.19
21 25 0.46
22 1 0.02
23 18 0.33
ACGTcount: A:0.36, C:0.25, G:0.23, T:0.16
Consensus pattern (22 bp):
GAATACGACACACAAGGTGCCT
Found at i:36925735 original size:44 final size:41
Alignment explanation
Indices: 36925656--36925736 Score: 99
Period size: 44 Copynumber: 1.9 Consensus size: 41
36925646 GATCAGAATA
* * *
36925656 CGACACATAAGTGCCTGAAACGACACACGAGGTGCCTATTG
1 CGACACACAAGTGCCTGAAACGACACACAAAGTGCCTATTG
*
36925697 CGACACACAAGGTGCCTGAAATACGACACATAAAGTGCCT
1 CGACACACAA-GTGCCTG-AA-ACGACACACAAAGTGCCT
36925737 GATCAGTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
41 9 0.27
42 7 0.21
43 2 0.06
44 15 0.45
ACGTcount: A:0.35, C:0.27, G:0.22, T:0.16
Consensus pattern (41 bp):
CGACACACAAGTGCCTGAAACGACACACAAAGTGCCTATTG
Found at i:36925955 original size:23 final size:24
Alignment explanation
Indices: 36925929--36926023 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 24
36925919 AAATGTCCAA
36925929 CCAAAACACACCAG-TATAATCCT
1 CCAAAACACACCAGATATAATCCT
36925952 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----ATATAATCCT
*
36925980 CCCAAACACACCAGAATAATATAATCCAT
1 CCAAAACACACCAG----ATATAATCC-T
36926009 CCAAAACACACCAGA
1 CCAAAACACACCAGA
36926024 ATAGCACAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
23 14 0.23
25 1 0.02
28 33 0.53
29 14 0.23
ACGTcount: A:0.46, C:0.34, G:0.04, T:0.16
Consensus pattern (24 bp):
CCAAAACACACCAGATATAATCCT
Found at i:36926025 original size:29 final size:28
Alignment explanation
Indices: 36925943--36926026 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
36925933 AACACACCAG
* *
36925943 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
36925971 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
36925999 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
36926027 GCACAAAGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:36928641 original size:7 final size:7
Alignment explanation
Indices: 36928602--36928664 Score: 58
Period size: 7 Copynumber: 8.9 Consensus size: 7
36928592 TGTGAAAAAC
*
36928602 AATATAC
1 AATATAT
*
36928609 AATAGAT
1 AATATAT
36928616 AATA-AT
1 AATATAT
36928622 AATATAAAT
1 AATAT--AT
36928631 AATATAT
1 AATATAT
*
36928638 AATAAAAT
1 AAT-ATAT
36928646 AAT-TAT
1 AATATAT
36928652 AATATAT
1 AATATAT
36928659 AATATA
1 AATATA
36928665 AAAATAAGGT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
6 11 0.23
7 23 0.49
8 6 0.13
9 7 0.15
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (7 bp):
AATATAT
Found at i:36928653 original size:21 final size:19
Alignment explanation
Indices: 36928617--36928671 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 19
36928607 ACAATAGATA
*
36928617 ATAATAATATAAATAATAT
1 ATAATAAAATAAATAATAT
36928636 ATAATAAAATAATTATAATAT
1 ATAATAAAATAA--ATAATAT
*
36928657 ATAATATAA-AAATAA
1 ATAATAAAATAAATAA
36928672 GGTTAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 4 0.12
19 11 0.34
20 2 0.06
21 15 0.47
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
ATAATAAAATAAATAATAT
Found at i:36939010 original size:12 final size:12
Alignment explanation
Indices: 36938993--36939018 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
36938983 AAAATAGGGC
36938993 TTTAGCGGCGTT
1 TTTAGCGGCGTT
36939005 TTTAGCGGCGTT
1 TTTAGCGGCGTT
36939017 TT
1 TT
36939019 ATGAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:36939131 original size:41 final size:41
Alignment explanation
Indices: 36939067--36939302 Score: 386
Period size: 41 Copynumber: 5.8 Consensus size: 41
36939057 TTACCAAAAA
36939067 CGCCGCT-AAAAACAGAGCAATAGCGGCATTTTTGGCAAAG
1 CGCCGCTAAAAAACAGAGCAATAGCGGCATTTTTGGCAAAG
**
36939107 CGCCGCTAAAAAACAGAGCAATAGCGGTGTTTTTGGCAAAG
1 CGCCGCTAAAAAACAGAGCAATAGCGGCATTTTTGGCAAAG
* *
36939148 CTCCGCT-AAAAATAGAGCAATAGCGGCATTTTTGGCAAAG
1 CGCCGCTAAAAAACAGAGCAATAGCGGCATTTTTGGCAAAG
*
36939188 CGCCGCTAAAAAACAGAGCAATAGCGGCATTTTTGTCAAAG
1 CGCCGCTAAAAAACAGAGCAATAGCGGCATTTTTGGCAAAG
* *
36939229 CGCCGCTAAAAAACAGAGCAATAGCGGCGTTTTTGGTAAAG
1 CGCCGCTAAAAAACAGAGCAATAGCGGCATTTTTGGCAAAG
*
36939270 CGCCGCTAAAAAACAGAGCAATAGCGGCGTTTT
1 CGCCGCTAAAAAACAGAGCAATAGCGGCATTTT
36939303 ACCAAAAACG
Statistics
Matches: 182, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
40 43 0.24
41 139 0.76
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (41 bp):
CGCCGCTAAAAAACAGAGCAATAGCGGCATTTTTGGCAAAG
Found at i:36939154 original size:81 final size:81
Alignment explanation
Indices: 36939067--36939302 Score: 400
Period size: 81 Copynumber: 2.9 Consensus size: 81
36939057 TTACCAAAAA
36939067 CGCCGCTAAAAACAGAGCAATAGCGGCATTTTTGGCAAAGCGCCGCTAAAAAACAGAGCAATAGC
1 CGCCGCTAAAAACAGAGCAATAGCGGCATTTTTGGCAAAGCGCCGCTAAAAAACAGAGCAATAGC
*
36939132 GGTGTTTTTGGCAAAG
66 GGCGTTTTTGGCAAAG
* *
36939148 CTCCGCTAAAAATAGAGCAATAGCGGCATTTTTGGCAAAGCGCCGCTAAAAAACAGAGCAATAGC
1 CGCCGCTAAAAACAGAGCAATAGCGGCATTTTTGGCAAAGCGCCGCTAAAAAACAGAGCAATAGC
* *
36939213 GGCATTTTTGTCAAAG
66 GGCGTTTTTGGCAAAG
* *
36939229 CGCCGCTAAAAAACAGAGCAATAGCGGCGTTTTTGGTAAAGCGCCGCTAAAAAACAGAGCAATAG
1 CGCCGCT-AAAAACAGAGCAATAGCGGCATTTTTGGCAAAGCGCCGCTAAAAAACAGAGCAATAG
36939294 CGGCGTTTT
65 CGGCGTTTT
36939303 ACCAAAAACG
Statistics
Matches: 144, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
81 82 0.57
82 62 0.43
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (81 bp):
CGCCGCTAAAAACAGAGCAATAGCGGCATTTTTGGCAAAGCGCCGCTAAAAAACAGAGCAATAGC
GGCGTTTTTGGCAAAG
Found at i:36939232 original size:122 final size:122
Alignment explanation
Indices: 36939067--36939302 Score: 402
Period size: 122 Copynumber: 1.9 Consensus size: 122
36939057 TTACCAAAAA
36939067 CGCCGCTAAAAACAGAGCAATAGCGGCATTTTTGGCAAAGCGCCGCTAAAAAACAGAGCAATAGC
1 CGCCGCTAAAAACAGAGCAATAGCGGCATTTTTGGCAAAGCGCCGCTAAAAAACAGAGCAATAGC
* * *
36939132 GGTGTTTTTGGCAAAGCTCCGCT-AAAAATAGAGCAATAGCGGCATTTTTGGCAAAG
66 GGCGTTTTTGGCAAAGCGCCGCTAAAAAACAGAGCAATAGCGGCATTTTTGGCAAAG
*
36939188 CGCCGCTAAAAAACAGAGCAATAGCGGCATTTTTGTCAAAGCGCCGCTAAAAAACAGAGCAATAG
1 CGCCGCT-AAAAACAGAGCAATAGCGGCATTTTTGGCAAAGCGCCGCTAAAAAACAGAGCAATAG
* *
36939253 CGGCGTTTTTGGTAAAGCGCCGCTAAAAAACAGAGCAATAGCGGCGTTTT
65 CGGCGTTTTTGGCAAAGCGCCGCTAAAAAACAGAGCAATAGCGGCATTTT
36939303 ACCAAAAACG
Statistics
Matches: 107, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
121 7 0.07
122 77 0.72
123 23 0.21
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (122 bp):
CGCCGCTAAAAACAGAGCAATAGCGGCATTTTTGGCAAAGCGCCGCTAAAAAACAGAGCAATAGC
GGCGTTTTTGGCAAAGCGCCGCTAAAAAACAGAGCAATAGCGGCATTTTTGGCAAAG
Found at i:36939315 original size:41 final size:40
Alignment explanation
Indices: 36939047--36939321 Score: 347
Period size: 41 Copynumber: 6.8 Consensus size: 40
36939037 AATTATACAT
** *
36939047 TAGCGGCGTTTTACCAAAAACGCCGCT-AAAAACAGAGCAA
1 TAGCGGCGTTTTGGC-AAAGCGCCGCTAAAAAACAGAGCAA
*
36939087 TAGCGGCATTTTTGGCAAAGCGCCGCTAAAAAACAGAGCAA
1 TAGCGGC-GTTTTGGCAAAGCGCCGCTAAAAAACAGAGCAA
* * *
36939128 TAGCGGTGTTTTTGGCAAAGCTCCGCT-AAAAATAGAGCAA
1 TAGCGGCG-TTTTGGCAAAGCGCCGCTAAAAAACAGAGCAA
*
36939168 TAGCGGCATTTTTGGCAAAGCGCCGCTAAAAAACAGAGCAA
1 TAGCGGC-GTTTTGGCAAAGCGCCGCTAAAAAACAGAGCAA
* *
36939209 TAGCGGCATTTTTGTCAAAGCGCCGCTAAAAAACAGAGCAA
1 TAGCGGC-GTTTTGGCAAAGCGCCGCTAAAAAACAGAGCAA
*
36939250 TAGCGGCGTTTTTGGTAAAGCGCCGCTAAAAAACAGAGCAA
1 TAGCGGCG-TTTTGGCAAAGCGCCGCTAAAAAACAGAGCAA
** *
36939291 TAGCGGCGTTTTACCAAAAACGCCGCTAAAA
1 TAGCGGCGTTTTGGC-AAAGCGCCGCTAAAA
36939322 GTCATATAAC
Statistics
Matches: 208, Mismatches: 20, Indels: 13
0.86 0.08 0.05
Matches are distributed among these distances:
40 56 0.27
41 152 0.73
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (40 bp):
TAGCGGCGTTTTGGCAAAGCGCCGCTAAAAAACAGAGCAA
Found at i:36940094 original size:19 final size:20
Alignment explanation
Indices: 36940065--36940102 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
36940055 TAAAAAATAT
36940065 ATTGATAAATAAATAAAAAC
1 ATTGATAAATAAATAAAAAC
36940085 ATTGAT-AATAAATAAAAA
1 ATTGATAAATAAATAAAAA
36940103 TGAAATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (20 bp):
ATTGATAAATAAATAAAAAC
Found at i:36940315 original size:6 final size:6
Alignment explanation
Indices: 36940299--36940335 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
36940289 ACCCATATGA
*
36940299 TCCCTT CCCCTT TCCCTT TCCCTT TCCCTT TCCCTT T
1 TCCCTT TCCCTT TCCCTT TCCCTT TCCCTT TCCCTT T
36940336 GGTTTTGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (6 bp):
TCCCTT
Found at i:36940992 original size:7 final size:7
Alignment explanation
Indices: 36940980--36941032 Score: 106
Period size: 7 Copynumber: 7.6 Consensus size: 7
36940970 AATCTTCAAA
36940980 AAAATTG
1 AAAATTG
36940987 AAAATTG
1 AAAATTG
36940994 AAAATTG
1 AAAATTG
36941001 AAAATTG
1 AAAATTG
36941008 AAAATTG
1 AAAATTG
36941015 AAAATTG
1 AAAATTG
36941022 AAAATTG
1 AAAATTG
36941029 AAAA
1 AAAA
36941033 ATAAAAAAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.60, C:0.00, G:0.13, T:0.26
Consensus pattern (7 bp):
AAAATTG
Found at i:36941039 original size:14 final size:14
Alignment explanation
Indices: 36940979--36941039 Score: 86
Period size: 14 Copynumber: 4.4 Consensus size: 14
36940969 AAATCTTCAA
36940979 AAAAATTGAAAATT
1 AAAAATTGAAAATT
*
36940993 GAAAATTGAAAATT
1 AAAAATTGAAAATT
*
36941007 GAAAATTGAAAATT
1 AAAAATTGAAAATT
* *
36941021 GAAAATTGAAAAAT
1 AAAAATTGAAAATT
36941035 AAAAA
1 AAAAA
36941040 AATAAAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 44 1.00
ACGTcount: A:0.64, C:0.00, G:0.11, T:0.25
Consensus pattern (14 bp):
AAAAATTGAAAATT
Found at i:36941283 original size:17 final size:17
Alignment explanation
Indices: 36941261--36941294 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
36941251 GAAAACGCCG
* *
36941261 CAAAAATTTGAGCTACA
1 CAAAAAATTGAGATACA
36941278 CAAAAAATTGAGATACA
1 CAAAAAATTGAGATACA
36941295 GTGGCATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.15, G:0.12, T:0.21
Consensus pattern (17 bp):
CAAAAAATTGAGATACA
Found at i:36952596 original size:29 final size:29
Alignment explanation
Indices: 36952562--36952617 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
36952552 TTGATTTTCT
36952562 TTTAATAGTACAAG-GACTAAATTGATCTA
1 TTTAATAGTA-AAGAGACTAAATTGATCTA
* *
36952591 TTTAATAGTAGAGAGACTAATTTGATC
1 TTTAATAGTAAAGAGACTAAATTGATC
36952618 AAGTCCCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (29 bp):
TTTAATAGTAAAGAGACTAAATTGATCTA
Found at i:36955008 original size:31 final size:31
Alignment explanation
Indices: 36954973--36955071 Score: 74
Period size: 41 Copynumber: 2.9 Consensus size: 31
36954963 ACAACTCAGT
36954973 GACTTAAATAAAAGCTTTCAAATAGTTTAGC
1 GACTTAAATAAAAGCTTTCAAATAGTTTAGC
36955004 GACTTCAATGAAAACAAATAAAAGCTTTCAAATAGTTTAGC
1 GAC-T---T------AAATAAAAGCTTTCAAATAGTTTAGC
**
36955045 GACTTAAATGAAAA-CTTTTGAATAGTT
1 GACTTAAAT-AAAAGCTTTCAAATAGTT
36955072 CAATGATCAT
Statistics
Matches: 55, Mismatches: 2, Indels: 22
0.70 0.03 0.28
Matches are distributed among these distances:
31 18 0.33
32 5 0.09
35 1 0.02
37 1 0.02
40 1 0.02
41 29 0.53
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.31
Consensus pattern (31 bp):
GACTTAAATAAAAGCTTTCAAATAGTTTAGC
Found at i:36955035 original size:41 final size:41
Alignment explanation
Indices: 36954978--36955059 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
36954968 TCAGTGACTT
*
36954978 AAATAAAAGCTTTCAAATAGTTTAGCGACTTCAATGAAAAC
1 AAATAAAAGCTTTCAAATAGTTTAGCGACTTAAATGAAAAC
36955019 AAATAAAAGCTTTCAAATAGTTTAGCGACTTAAATGAAAAC
1 AAATAAAAGCTTTCAAATAGTTTAGCGACTTAAATGAAAAC
36955060 TTTTGAATAG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.27
Consensus pattern (41 bp):
AAATAAAAGCTTTCAAATAGTTTAGCGACTTAAATGAAAAC
Found at i:36961982 original size:6 final size:7
Alignment explanation
Indices: 36961965--36961991 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
36961955 CTCATTGCGC
36961965 AAAAAAT
1 AAAAAAT
36961972 AAAAAAT
1 AAAAAAT
36961979 AAAAAAT
1 AAAAAAT
36961986 AAAAAA
1 AAAAAA
36961992 AATTAAATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:36962165 original size:6 final size:6
Alignment explanation
Indices: 36962149--36962181 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
36962139 TCCTCCCTTC
36962149 AAAAT- AAAATA AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
36962182 ACATTCCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:36966177 original size:30 final size:28
Alignment explanation
Indices: 36966138--36966199 Score: 97
Period size: 28 Copynumber: 2.1 Consensus size: 28
36966128 ATGGATTTAA
36966138 ATTACTTATTATTTAAGTAAATAGATATTT
1 ATTACTTATTA-TTAAGTAAA-AGATATTT
*
36966168 ATTATTTATTATTAAGTAAAAGATATTT
1 ATTACTTATTATTAAGTAAAAGATATTT
36966196 ATTA
1 ATTA
36966200 ATTAAATAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 12 0.39
29 9 0.29
30 10 0.32
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (28 bp):
ATTACTTATTATTAAGTAAAAGATATTT
Found at i:36966860 original size:17 final size:18
Alignment explanation
Indices: 36966838--36966873 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
36966828 TAAATGAGTT
36966838 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
36966855 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
36966873 A
1 A
36966874 TGGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:36966892 original size:3 final size:3
Alignment explanation
Indices: 36966884--36966908 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
36966874 TGGAAATTCA
36966884 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
36966909 ATTAGTGCCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:36967430 original size:42 final size:42
Alignment explanation
Indices: 36967331--36967435 Score: 147
Period size: 42 Copynumber: 2.5 Consensus size: 42
36967321 CTTTGCCGAT
* *
36967331 CAGGCACTTTATGTGTCGTATCAGGTACCTCGTGTGTCGTAA
1 CAGGCACTTTATGTGTCGTATCAAGAACCTCGTGTGTCGTAA
* * * **
36967373 CGGGAACCTCGTGTGTCGTATCAAGAACCTCGTGTGTCGTAA
1 CAGGCACTTTATGTGTCGTATCAAGAACCTCGTGTGTCGTAA
36967415 CAGGCACTTTATGTGTCGTAT
1 CAGGCACTTTATGTGTCGTAT
36967436 ACTGCTTCTC
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (42 bp):
CAGGCACTTTATGTGTCGTATCAAGAACCTCGTGTGTCGTAA
Found at i:36967434 original size:21 final size:21
Alignment explanation
Indices: 36967342--36967418 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
36967332 AGGCACTTTA
* *
36967342 TGTGTCGTATCAGGTACCTCG
1 TGTGTCGTAACAGGAACCTCG
*
36967363 TGTGTCGTAACGGGAACCTCG
1 TGTGTCGTAACAGGAACCTCG
* *
36967384 TGTGTCGTATCAAGAACCTCG
1 TGTGTCGTAACAGGAACCTCG
36967405 TGTGTCGTAACAGG
1 TGTGTCGTAACAGG
36967419 CACTTTATGT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.29
Consensus pattern (21 bp):
TGTGTCGTAACAGGAACCTCG
Found at i:36968235 original size:3 final size:3
Alignment explanation
Indices: 36968227--36968256 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
36968217 ATTCGCACAA
36968227 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
36968257 TTCTAGATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:36969168 original size:27 final size:27
Alignment explanation
Indices: 36969138--36969195 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
36969128 ATCCTAGCAA
36969138 ACTAC-CCTATGTTTAATATCCCGACAG
1 ACTACTCCT-TGTTTAATATCCCGACAG
* *
36969165 ACTACTCCTTGTTTAATGTCCCGGCAG
1 ACTACTCCTTGTTTAATATCCCGACAG
36969192 ACTA
1 ACTA
36969196 TGTATGATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.89
28 3 0.11
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (27 bp):
ACTACTCCTTGTTTAATATCCCGACAG
Found at i:36969410 original size:45 final size:45
Alignment explanation
Indices: 36969361--36969446 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 45
36969351 TCTTGTTTAC
* **
36969361 CATGATGCCATAGTGTCTTTCAACCATGGTCTTACACATTTCCAT
1 CATGATGACATAGCATCTTTCAACCATGGTCTTACACATTTCCAT
* * *
36969406 CATGATGACATAGCATCTTTCAGCTATGGTCTTACTCATTT
1 CATGATGACATAGCATCTTTCAACCATGGTCTTACACATTT
36969447 TTGGTGTATA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (45 bp):
CATGATGACATAGCATCTTTCAACCATGGTCTTACACATTTCCAT
Found at i:36969692 original size:27 final size:27
Alignment explanation
Indices: 36969662--36969719 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
36969652 ATCCTAGCAA
36969662 ACTAC-CCTATGTTTAATATCCCGACAG
1 ACTACTCCT-TGTTTAATATCCCGACAG
* *
36969689 ACTACTCCTTGTTTAATGTCCCGGCAG
1 ACTACTCCTTGTTTAATATCCCGACAG
36969716 ACTA
1 ACTA
36969720 TGTATGATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.89
28 3 0.11
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (27 bp):
ACTACTCCTTGTTTAATATCCCGACAG
Found at i:36969934 original size:45 final size:45
Alignment explanation
Indices: 36969885--36969970 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 45
36969875 TCTTGTTTAC
* **
36969885 CATGATGCCATAGTGTCTTTCAACCATGGTCTTACACATTTCCAT
1 CATGATGACATAGCATCTTTCAACCATGGTCTTACACATTTCCAT
* * *
36969930 CATGATGACATAGCATCTTTCAGCTATGGTCTTACTCATTT
1 CATGATGACATAGCATCTTTCAACCATGGTCTTACACATTT
36969971 TTGGTGTATA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (45 bp):
CATGATGACATAGCATCTTTCAACCATGGTCTTACACATTTCCAT
Found at i:36969964 original size:524 final size:524
Alignment explanation
Indices: 36968969--36970016 Score: 2087
Period size: 524 Copynumber: 2.0 Consensus size: 524
36968959 ACCTAGTTTC
*
36968969 CAAGCATACCATTTTCTCCCACCCCATTACTCTCTACTTGAGTTATGCCTAAATTTTATTTTCCT
1 CAAGCACACCATTTTCTCCCACCCCATTACTCTCTACTTGAGTTATGCCTAAATTTTATTTTCCT
36969034 CATGCTGATAGCTTCCGGGTTCCTCACCCTAACGAACCTTTACTCGTTGCCATAGCCAAACTTGA
66 CATGCTGATAGCTTCCGGGTTCCTCACCCTAACGAACCTTTACTCGTTGCCATAGCCAAACTTGA
36969099 CCTTACACACCTTAGCTCCCATATTCAACATCCTAGCAAACTACCCTATGTTTAATATCCCGACA
131 CCTTACACACCTTAGCTCCCATATTCAACATCCTAGCAAACTACCCTATGTTTAATATCCCGACA
36969164 GACTACTCCTTGTTTAATGTCCCGGCAGACTATGTATGATGTTATAACGTCTCTCAACTAAAGTC
196 GACTACTCCTTGTTTAATGTCCCGGCAGACTATGTATGATGTTATAACGTCTCTCAACTAAAGTC
36969229 TTACTTAATCTATCATTAAATCCTCGTTTGAGCTCGTCTAATGCTATAGCATCTTCCAACTATGT
261 TTACTTAATCTATCATTAAATCCTCGTTTGAGCTCGTCTAATGCTATAGCATCTTCCAACTATGT
36969294 TTATCGTCTCGGCATACTATCAAAGGATGTCATAGCATCTTTCAGTTATGGTCTTATTCTTGTTT
326 TTATCGTCTCGGCATACTATCAAAGGATGTCATAGCATCTTTCAGTTATGGTCTTATTCTTGTTT
36969359 ACCATGATGCCATAGTGTCTTTCAACCATGGTCTTACACATTTCCATCATGATGACATAGCATCT
391 ACCATGATGCCATAGTGTCTTTCAACCATGGTCTTACACATTTCCATCATGATGACATAGCATCT
36969424 TTCAGCTATGGTCTTACTCATTTTTGGTGTATAGCTTTCATTCAGACTTGAAGCCTAGCCATTAT
456 TTCAGCTATGGTCTTACTCATTTTTGGTGTATAGCTTTCATTCAGACTTGAAGCCTAGCCATTAT
36969489 CTTT
521 CTTT
36969493 CAAGCACACCATTTTCTCCCACCCCATTACTCTCTACTTGAGTTATGCCTAAATTTTATTTTCCT
1 CAAGCACACCATTTTCTCCCACCCCATTACTCTCTACTTGAGTTATGCCTAAATTTTATTTTCCT
36969558 CATGCTGATAGCTTCCGGGTTCCTCACCCTAACGAACCTTTACTCGTTGCCATAGCCAAACTTGA
66 CATGCTGATAGCTTCCGGGTTCCTCACCCTAACGAACCTTTACTCGTTGCCATAGCCAAACTTGA
36969623 CCTTACACACCTTAGCTCCCATATTCAACATCCTAGCAAACTACCCTATGTTTAATATCCCGACA
131 CCTTACACACCTTAGCTCCCATATTCAACATCCTAGCAAACTACCCTATGTTTAATATCCCGACA
36969688 GACTACTCCTTGTTTAATGTCCCGGCAGACTATGTATGATGTTATAACGTCTCTCAACTAAAGTC
196 GACTACTCCTTGTTTAATGTCCCGGCAGACTATGTATGATGTTATAACGTCTCTCAACTAAAGTC
36969753 TTACTTAATCTATCATTAAATCCTCGTTTGAGCTCGTCTAATGCTATAGCATCTTCCAACTATGT
261 TTACTTAATCTATCATTAAATCCTCGTTTGAGCTCGTCTAATGCTATAGCATCTTCCAACTATGT
36969818 TTATCGTCTCGGCATACTATCAAAGGATGTCATAGCATCTTTCAGTTATGGTCTTATTCTTGTTT
326 TTATCGTCTCGGCATACTATCAAAGGATGTCATAGCATCTTTCAGTTATGGTCTTATTCTTGTTT
36969883 ACCATGATGCCATAGTGTCTTTCAACCATGGTCTTACACATTTCCATCATGATGACATAGCATCT
391 ACCATGATGCCATAGTGTCTTTCAACCATGGTCTTACACATTTCCATCATGATGACATAGCATCT
36969948 TTCAGCTATGGTCTTACTCATTTTTGGTGTATAGCTTTCATTCAGACTTGAAGCCTAGCCATTAT
456 TTCAGCTATGGTCTTACTCATTTTTGGTGTATAGCTTTCATTCAGACTTGAAGCCTAGCCATTAT
36970013 CTTT
521 CTTT
36970017 ACTCTTCCCT
Statistics
Matches: 523, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
524 523 1.00
ACGTcount: A:0.25, C:0.26, G:0.13, T:0.36
Consensus pattern (524 bp):
CAAGCACACCATTTTCTCCCACCCCATTACTCTCTACTTGAGTTATGCCTAAATTTTATTTTCCT
CATGCTGATAGCTTCCGGGTTCCTCACCCTAACGAACCTTTACTCGTTGCCATAGCCAAACTTGA
CCTTACACACCTTAGCTCCCATATTCAACATCCTAGCAAACTACCCTATGTTTAATATCCCGACA
GACTACTCCTTGTTTAATGTCCCGGCAGACTATGTATGATGTTATAACGTCTCTCAACTAAAGTC
TTACTTAATCTATCATTAAATCCTCGTTTGAGCTCGTCTAATGCTATAGCATCTTCCAACTATGT
TTATCGTCTCGGCATACTATCAAAGGATGTCATAGCATCTTTCAGTTATGGTCTTATTCTTGTTT
ACCATGATGCCATAGTGTCTTTCAACCATGGTCTTACACATTTCCATCATGATGACATAGCATCT
TTCAGCTATGGTCTTACTCATTTTTGGTGTATAGCTTTCATTCAGACTTGAAGCCTAGCCATTAT
CTTT
Found at i:36980448 original size:21 final size:21
Alignment explanation
Indices: 36980422--36980481 Score: 102
Period size: 21 Copynumber: 2.9 Consensus size: 21
36980412 GGTAGATCAA
36980422 CTCTTATGAGCTTCTGTTCAC
1 CTCTTATGAGCTTCTGTTCAC
* *
36980443 CTCTTATGAGCTTCTGTTTAG
1 CTCTTATGAGCTTCTGTTCAC
36980464 CTCTTATGAGCTTCTGTT
1 CTCTTATGAGCTTCTGTT
36980482 GACAATGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.47
Consensus pattern (21 bp):
CTCTTATGAGCTTCTGTTCAC
Found at i:36984797 original size:18 final size:18
Alignment explanation
Indices: 36984774--36984868 Score: 66
Period size: 18 Copynumber: 5.2 Consensus size: 18
36984764 CAGTCATCAA
36984774 TAATAATCAATTATTCAG
1 TAATAATCAATTATTCAG
36984792 TAATAATC-ATCTATTCAG
1 TAATAATCAAT-TATTCAG
* * **
36984810 TAACAGTCGTTTATTCAG
1 TAATAATCAATTATTCAG
* * * *
36984828 TAATGATCATTTTTTTTAAG
1 TAATAATCA--ATTATTCAG
* *
36984848 TAACAATAAATTATTCAG
1 TAATAATCAATTATTCAG
36984866 TAA
1 TAA
36984869 CAGTCGGTTA
Statistics
Matches: 58, Mismatches: 15, Indels: 8
0.72 0.19 0.10
Matches are distributed among these distances:
17 2 0.03
18 42 0.72
19 1 0.02
20 13 0.22
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (18 bp):
TAATAATCAATTATTCAG
Found at i:36985010 original size:6 final size:6
Alignment explanation
Indices: 36984999--36985049 Score: 75
Period size: 6 Copynumber: 8.5 Consensus size: 6
36984989 CATTGTATCG
* * *
36984999 GTAACA GTAACA GTAGCA GTAACA GTAACA GTAGCA ATAACA GTAACA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA
36985047 GTA
1 GTA
36985050 GCGGTACACA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.18
Consensus pattern (6 bp):
GTAACA
Found at i:36985022 original size:18 final size:18
Alignment explanation
Indices: 36984999--36985051 Score: 97
Period size: 18 Copynumber: 2.9 Consensus size: 18
36984989 CATTGTATCG
36984999 GTAACAGTAACAGTAGCA
1 GTAACAGTAACAGTAGCA
36985017 GTAACAGTAACAGTAGCA
1 GTAACAGTAACAGTAGCA
*
36985035 ATAACAGTAACAGTAGC
1 GTAACAGTAACAGTAGC
36985052 GGTACACAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (18 bp):
GTAACAGTAACAGTAGCA
Found at i:36986570 original size:129 final size:128
Alignment explanation
Indices: 36986321--36986572 Score: 278
Period size: 129 Copynumber: 2.0 Consensus size: 128
36986311 ACCTTTATGT
** * * * *
36986321 TTTAATTATATTATAATATAATATAATGTAATATTATTCTTAAATAATAAGTAAGTATATATGTA
1 TTTAATTATATTATAATATAATATAAAATAATAATATTCTTAAATAATAAGTAAATATACACGTA
* * * *
36986386 TATTATAAATGTATGTATATCTTTGGTACACATATAAATTATTATTACCATACACTTGTTTTTA
66 TA-TACAAATGTATGTATATATTTAGTACACATATAAATTATTATTACCACACACTTGTTTTTA
36986450 TTTAATT-TATT-TAAT-TAATATAAAATAATAATATTTACTTAAATAATAAGTAAATACATACA
1 TTTAATTATATTATAATATAATATAAAATAATAATA-TT-CTTAAATAATAAGTAAAT--ATACA
* * ** * *
36986512 CGTATA-ACAAATGTATGTATAATATTTATTACACATGTATTTTATTTTTATCACACACTTG
62 CGTATATACAAATGTATGTAT-ATATTTAGTACACATATAAATTATTATTACCACACACTTG
36986573 GCATTCCCTT
Statistics
Matches: 102, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
126 15 0.15
127 6 0.06
128 34 0.33
129 38 0.37
130 9 0.09
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.45
Consensus pattern (128 bp):
TTTAATTATATTATAATATAATATAAAATAATAATATTCTTAAATAATAAGTAAATATACACGTA
TATACAAATGTATGTATATATTTAGTACACATATAAATTATTATTACCACACACTTGTTTTTA
Found at i:36987551 original size:17 final size:15
Alignment explanation
Indices: 36987526--36987564 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
36987516 GAGAGAAGAA
36987526 AGAATGATGAATGATG
1 AGAATGATGAATGA-G
36987542 AGAGATGATGAATGAG
1 AGA-ATGATGAATGAG
36987558 AGAATGA
1 AGAATGA
36987565 AGGGTTCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.18
16 7 0.32
17 11 0.50
ACGTcount: A:0.46, C:0.00, G:0.33, T:0.21
Consensus pattern (15 bp):
AGAATGATGAATGAG
Found at i:36989148 original size:26 final size:26
Alignment explanation
Indices: 36989119--36989278 Score: 266
Period size: 26 Copynumber: 6.2 Consensus size: 26
36989109 TGGTACAAAT
* *
36989119 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATATTCCA
36989145 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATATTCCA
* *
36989171 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATATTCCA
36989197 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATATTCCA
* *
36989223 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATATTCCA
36989249 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATATTCCA
36989275 TGAT
1 TGAT
36989279 GGGCATTTCA
Statistics
Matches: 124, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 124 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATATTCCA
Found at i:36989181 original size:52 final size:52
Alignment explanation
Indices: 36989119--36989278 Score: 320
Period size: 52 Copynumber: 3.1 Consensus size: 52
36989109 TGGTACAAAT
36989119 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
36989171 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
36989223 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
36989275 TGAT
1 TGAT
36989279 GGGCATTTCA
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 108 1.00
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.35
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:36990917 original size:27 final size:27
Alignment explanation
Indices: 36990876--36990964 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 27
36990866 GAGGAAGCGT
*
36990876 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
36990903 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
36990930 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
36990958 TCTGGTG
1 TCTGGTG
36990965 NCTCATCCCT
Statistics
Matches: 54, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 47 0.87
28 7 0.13
ACGTcount: A:0.17, C:0.24, G:0.25, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:36993641 original size:43 final size:42
Alignment explanation
Indices: 36993594--36993689 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
36993584 TCCTAGACGT
* *
36993594 GGTCTTACATGTAA-TCAAACATCGATGCCACTGTCCCAGACAG
1 GGTCTTACACG-AAGTCAAACA-CGATGCCAATGTCCCAGACAG
* * *
36993637 GGTCTTACACGAAGTCAGATACGATGCCAATGTCCCAGACAT
1 GGTCTTACACGAAGTCAAACACGATGCCAATGTCCCAGACAG
36993679 GGTCTTACACG
1 GGTCTTACACG
36993690 CAAAACAGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
42 32 0.68
43 15 0.32
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (42 bp):
GGTCTTACACGAAGTCAAACACGATGCCAATGTCCCAGACAG
Found at i:36994964 original size:20 final size:20
Alignment explanation
Indices: 36994941--36994988 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
36994931 TAAATTCTAA
*
36994941 AAAGATAAATACAA-TTAATT
1 AAAGATAAATA-AAGATAATT
36994961 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
36994981 AAA-ATAAA
1 AAAGATAAA
36994989 ATCCTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:36995013 original size:27 final size:26
Alignment explanation
Indices: 36994983--36995044 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
36994973 AGATAATTAA
36994983 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
36995010 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
36995037 AATAAAAT
1 AATAAAAT
36995045 GGAGTCTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 18 0.62
28 9 0.31
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:37002615 original size:20 final size:20
Alignment explanation
Indices: 37002577--37002624 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
37002567 TAAATTCTAA
* **
37002577 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
37002597 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
37002617 AAA-ATAAA
1 AAAGATAAA
37002625 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:37002649 original size:27 final size:26
Alignment explanation
Indices: 37002619--37002680 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
37002609 AGATAATTAA
37002619 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
37002646 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
37002673 AATAAAAT
1 AATAAAAT
37002681 AGAGTCTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 18 0.62
28 9 0.31
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Done.