Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 289 of 295
Found at i:91628910 original size:19 final size:18
Alignment explanation
Indices: 91628877--91628912 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
91628867 TTAAAAACTG
*
91628877 TTAAATTATAAAATATAA
1 TTAAATTAAAAAATATAA
91628895 TTAAATATAAAAAATATA
1 TTAAAT-TAAAAAATATA
91628913 TATATGTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TTAAATTAAAAAATATAA
Found at i:91633086 original size:12 final size:13
Alignment explanation
Indices: 91633054--91633086 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
91633044 TAAAAGAGAG
91633054 AGAGAGG-AGGAA
1 AGAGAGGAAGGAA
91633066 AGAGAGGAAGGAA
1 AGAGAGGAAGGAA
91633079 AG-GAGGAA
1 AGAGAGGAA
91633087 AGAGAAAGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 13 0.65
13 7 0.35
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (13 bp):
AGAGAGGAAGGAA
Found at i:91633787 original size:29 final size:31
Alignment explanation
Indices: 91633742--91633799 Score: 93
Period size: 29 Copynumber: 1.9 Consensus size: 31
91633732 TTTTGTATCT
*
91633742 GTATTTTCACAAAATGTTTAGTATGGTATTC
1 GTATTTTCACAAAATGTTTAATATGGTATTC
91633773 GTATTTT-A-AAAATGTTTAATATGGTAT
1 GTATTTTCACAAAATGTTTAATATGGTAT
91633800 ATAATATGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 18 0.69
30 1 0.04
31 7 0.27
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.47
Consensus pattern (31 bp):
GTATTTTCACAAAATGTTTAATATGGTATTC
Found at i:91634017 original size:21 final size:21
Alignment explanation
Indices: 91633992--91634033 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
91633982 ATATTTAGTT
91633992 ATTTATTTTTAATTTAATTTA
1 ATTTATTTTTAATTTAATTTA
* *
91634013 ATTTATTTTTTATTTTATTTA
1 ATTTATTTTTAATTTAATTTA
91634034 TTTTTCTACA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (21 bp):
ATTTATTTTTAATTTAATTTA
Found at i:91634027 original size:16 final size:16
Alignment explanation
Indices: 91634008--91634038 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
91633998 TTTTAATTTA
91634008 ATTTAATTTATTTTTT
1 ATTTAATTTATTTTTT
*
91634024 ATTTTATTTATTTTT
1 ATTTAATTTATTTTT
91634039 CTACATAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
ATTTAATTTATTTTTT
Found at i:91635774 original size:41 final size:41
Alignment explanation
Indices: 91635692--91635786 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
91635682 TAGTTTATCT
** * * *
91635692 GATGATGCACTTATGTGTTAGCATACTTGTTCGGTATATCC
1 GATGATGCACTTACATGCTAGCATACTTGTTCAGTACATCC
*
91635733 GATGATGCACTTACATGCTAGTATA-TTGCTTCAGTACATCC
1 GATGATGCACTTACATGCTAGCATACTTG-TTCAGTACATCC
*
91635774 GATGATACACTTA
1 GATGATGCACTTA
91635787 TGTGCCAACA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
40 3 0.07
41 43 0.93
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (41 bp):
GATGATGCACTTACATGCTAGCATACTTGTTCAGTACATCC
Found at i:91635896 original size:43 final size:43
Alignment explanation
Indices: 91635831--91635936 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 43
91635821 TGTATATCCA
** * * * *
91635831 ATGATGCACTATGCATGGCAATATAATTGATTCGGTTTGTTCG
1 ATGATGCACTATGTGTGCCAATATAATTGATTCAGCTTGTCCG
* *
91635874 ATGATGCACCT-TGTGTGCCAATATAATTGCTTTAGCTTGTCCG
1 ATGATGCA-CTATGTGTGCCAATATAATTGATTCAGCTTGTCCG
91635917 ATGATGCACTATGTGTGCCA
1 ATGATGCACTATGTGTGCCA
91635937 GTATGTTTCC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 2 0.04
43 49 0.92
44 2 0.04
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.36
Consensus pattern (43 bp):
ATGATGCACTATGTGTGCCAATATAATTGATTCAGCTTGTCCG
Found at i:91643544 original size:42 final size:42
Alignment explanation
Indices: 91643484--91643607 Score: 153
Period size: 42 Copynumber: 3.0 Consensus size: 42
91643474 CGTTTTCTCA
** * * *
91643484 ATGCCATAGTTCAACTATGGTCTTACATATCTTCACATAAT-G
1 ATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-ATCG
*
91643526 ATGCCATAGCCCAGCTATGGTCTTACACATATTCATATATCG
1 ATGCCATAGCCCAGCTATGGTCTTACACATATTCACATATCG
* *
91643568 ATGCCATAGCCCAGCTATGGTCTTACA-AGAATCACATATC
1 ATGCCATAGCCCAGCTATGGTCTTACACATATTCACATATC
91643608 TCACTGATTC
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
41 12 0.17
42 60 0.83
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31
Consensus pattern (42 bp):
ATGCCATAGCCCAGCTATGGTCTTACACATATTCACATATCG
Found at i:91643668 original size:47 final size:47
Alignment explanation
Indices: 91643566--91643688 Score: 149
Period size: 47 Copynumber: 2.6 Consensus size: 47
91643556 ATTCATATAT
* * * * *
91643566 CGATGCCATAGCCCAGCTATGGTCTTACA-AGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACAGAAGCACATATCACAC
* * * * *
91643612 TGATTCCATATCTCAGATATGGTCTTATACAGTAGCATATATCACAC
1 CGATGCCATATCCCAGATATGGTCTTATACAGAAGCACATATCACAC
91643659 CGATGCCATATCCCAGATATGGTCTTATAC
1 CGATGCCATATCCCAGATATGGTCTTATAC
91643689 GGAAATCACT
Statistics
Matches: 63, Mismatches: 13, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
46 23 0.37
47 40 0.63
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (47 bp):
CGATGCCATATCCCAGATATGGTCTTATACAGAAGCACATATCACAC
Found at i:91643749 original size:31 final size:31
Alignment explanation
Indices: 91643714--91643862 Score: 228
Period size: 31 Copynumber: 4.8 Consensus size: 31
91643704 CTTGTCACTT
*
91643714 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
91643745 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
91643776 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
91643807 GTAGCAGGAA-CTACCACTTTTCACTGATCAG
1 GTAGC-CGAAGCTACCACTTTTCACTGATCAG
*
91643838 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
91643863 TTTCACTTGT
Statistics
Matches: 109, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
30 3 0.03
31 104 0.95
32 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:91643938 original size:50 final size:50
Alignment explanation
Indices: 91643838--91643964 Score: 191
Period size: 50 Copynumber: 2.5 Consensus size: 50
91643828 CACTGATCAG
* *
91643838 GTAGCTGAAGCTACCACTTTTCACTTTTCACTTGTCATTGATCAGATAAGT
1 GTAGCTGAAGCTATCACTTATCAC-TTTCACTTGTCATTGATCAGATAAGT
* * *
91643889 GTAGCTGAAGCTATCACTTATCACTTTCACTTTTCCTTGATTAGATAAGT
1 GTAGCTGAAGCTATCACTTATCACTTTCACTTGTCATTGATCAGATAAGT
*
91643939 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCTGAAGCTATCACTTATCACTT
91643965 GTTGCCATGG
Statistics
Matches: 70, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 48 0.69
51 22 0.31
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (50 bp):
GTAGCTGAAGCTATCACTTATCACTTTCACTTGTCATTGATCAGATAAGT
Found at i:91647470 original size:27 final size:27
Alignment explanation
Indices: 91647420--91647471 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
91647410 TGCAAACTAA
* ***
91647420 CTCCCTATTTATAATAACTTAAAAAAC
1 CTCCCTAATTATAATAAAAAAAAAAAC
91647447 CTCCCTAATTATAATAAAAAAAAAA
1 CTCCCTAATTATAATAAAAAAAAAA
91647472 TCAAAAGTTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (27 bp):
CTCCCTAATTATAATAAAAAAAAAAAC
Found at i:91653343 original size:14 final size:14
Alignment explanation
Indices: 91653324--91653354 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
91653314 TTTTGTACAT
91653324 TAGATCATCCATTG
1 TAGATCATCCATTG
91653338 TAGATCATCCATTG
1 TAGATCATCCATTG
91653352 TAG
1 TAG
91653355 GATTAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (14 bp):
TAGATCATCCATTG
Found at i:91656267 original size:25 final size:25
Alignment explanation
Indices: 91656214--91656272 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
91656204 TAAAAATAGT
* * *
91656214 ATATGTTTTAAATTATTTTGAATGA
1 ATATGTTTTAAATTATATTAAAAGA
91656239 ATATGTTTTAAATTAATATTAAAAG-
1 ATATGTTTTAAATT-ATATTAAAAGA
*
91656264 ATATCTTTT
1 ATATGTTTT
91656273 TTTTTATTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 22 0.76
26 7 0.24
ACGTcount: A:0.39, C:0.02, G:0.08, T:0.51
Consensus pattern (25 bp):
ATATGTTTTAAATTATATTAAAAGA
Found at i:91661129 original size:20 final size:20
Alignment explanation
Indices: 91661095--91661163 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
91661085 GACATTAAAA
*
91661095 TAAATTAAAATGTTTCTTCAT
1 TAAA-TAAAAAGTTTCTTCAT
* *
91661116 TAAATAAAAAGTTTATCTTAAA
1 TAAATAAAAAG-TT-TCTTCAT
* * *
91661138 TAAATAACAAGTTTATACAT
1 TAAATAAAAAGTTTCTTCAT
91661158 TAAATA
1 TAAATA
91661164 TTTTTGTGGA
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
20 15 0.39
21 8 0.21
22 15 0.39
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.39
Consensus pattern (20 bp):
TAAATAAAAAGTTTCTTCAT
Found at i:91661141 original size:22 final size:24
Alignment explanation
Indices: 91661116--91661163 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 24
91661106 GTTTCTTCAT
91661116 TAAATAAAAAGTTTAT-C-TTAAA
1 TAAATAAAAAGTTTATACATTAAA
*
91661138 TAAATAACAAGTTTATACATTAAA
1 TAAATAAAAAGTTTATACATTAAA
91661162 TA
1 TA
91661164 TTTTTGTGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.65
23 1 0.04
24 7 0.30
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.35
Consensus pattern (24 bp):
TAAATAAAAAGTTTATACATTAAA
Found at i:91664152 original size:23 final size:23
Alignment explanation
Indices: 91664126--91664177 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
91664116 AGGATTAACA
91664126 AATGTTAAAAGAAA-AGTTAAACG
1 AATGTTAAAAGAAACA-TTAAACG
91664149 AATGTTAAAAGAAACATTAAACG
1 AATGTTAAAAGAAACATTAAACG
91664172 AATGTT
1 AATGTT
91664178 GCATGACATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 27 0.96
24 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.15, T:0.25
Consensus pattern (23 bp):
AATGTTAAAAGAAACATTAAACG
Found at i:91664157 original size:11 final size:12
Alignment explanation
Indices: 91664125--91664162 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
91664115 TAGGATTAAC
91664125 AAATGTTAAAAG
1 AAATGTTAAAAG
* *
91664137 AAAAGTTAAACG
1 AAATGTTAAAAG
91664149 -AATGTTAAAAG
1 AAATGTTAAAAG
91664160 AAA
1 AAA
91664163 CATTAAACGA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.61, C:0.03, G:0.16, T:0.21
Consensus pattern (12 bp):
AAATGTTAAAAG
Found at i:91665381 original size:53 final size:52
Alignment explanation
Indices: 91665323--91665455 Score: 153
Period size: 51 Copynumber: 2.6 Consensus size: 52
91665313 ATATCCTAAA
* *** *
91665323 TATGGTCTTATACGGAGTCATATTATCACAACACATTGATGCCATAGCCTAGC
1 TATGGTCTTATACGGAGTCACA-TATCACAACACACCAATGCCATAGCCCAGC
* **
91665376 TATGGTCTTATACGG-GTCACATATCATATTACACCAATGCCATAGCCCAGC
1 TATGGTCTTATACGGAGTCACATATCACAACACACCAATGCCATAGCCCAGC
*
91665427 TATGGTCTTATTCGGAAG-CACATATCACA
1 TATGGTCTTATACGG-AGTCACATATCACA
91665456 TCTTTTCCGT
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
51 37 0.54
52 15 0.22
53 16 0.24
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (52 bp):
TATGGTCTTATACGGAGTCACATATCACAACACACCAATGCCATAGCCCAGC
Found at i:91666942 original size:46 final size:44
Alignment explanation
Indices: 91666890--91666975 Score: 136
Period size: 46 Copynumber: 1.9 Consensus size: 44
91666880 AGAACAGAAA
*
91666890 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAGACAGGAT
*
91666936 TGAGCCATGTAAGTCCATATTATATATGGCATTGGAGACA
1 TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACA
91666976 AGAATAATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 17 0.45
46 21 0.55
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (44 bp):
TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGGAT
Found at i:91666989 original size:44 final size:45
Alignment explanation
Indices: 91666892--91667016 Score: 135
Period size: 44 Copynumber: 2.8 Consensus size: 45
91666882 AACAGAAATG
* * * *
91666892 AGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGATTG
1 AGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAAGAATA
*
91666938 AGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAAGAATA
1 AGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAAGAATA
** * * *
91666982 ATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
91667017 CAGGGTATTG
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
44 35 0.53
45 1 0.02
46 30 0.45
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (45 bp):
AGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAAGAATA
Found at i:91676475 original size:46 final size:44
Alignment explanation
Indices: 91676423--91676508 Score: 136
Period size: 46 Copynumber: 1.9 Consensus size: 44
91676413 AGAACAGAAA
*
91676423 TGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGAT
1 TGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAGACAGGAT
*
91676469 TGAGCCATGTAAGTCCATATTATATATGGCATTGGAGACA
1 TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACA
91676509 AGAATAATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
44 17 0.45
46 21 0.55
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (44 bp):
TGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGGAT
Found at i:91676522 original size:44 final size:45
Alignment explanation
Indices: 91676425--91676549 Score: 135
Period size: 44 Copynumber: 2.8 Consensus size: 45
91676415 AACAGAAATG
* * * *
91676425 AGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGGATTG
1 AGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAAGAATA
*
91676471 AGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAAGAATA
1 AGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAAGAATA
** * * *
91676515 ATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
91676550 CAGGGTATTG
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
44 35 0.53
45 1 0.02
46 30 0.45
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.28
Consensus pattern (45 bp):
AGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAAGAATA
Found at i:91683656 original size:16 final size:16
Alignment explanation
Indices: 91683637--91683673 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
91683627 CCTTTGTCGC
* *
91683637 CTTTTTATTTTATTTT
1 CTTTTAATTCTATTTT
91683653 CTTTTAATTCTATTTT
1 CTTTTAATTCTATTTT
91683669 CTTTT
1 CTTTT
91683674 CAAAAGCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.76
Consensus pattern (16 bp):
CTTTTAATTCTATTTT
Found at i:91692261 original size:10 final size:9
Alignment explanation
Indices: 91692250--91692308 Score: 55
Period size: 10 Copynumber: 6.1 Consensus size: 9
91692240 AAAAATAGAT
91692250 ATTGTAAAA
1 ATTGTAAAA
91692259 TATTGTAAAAA
1 -ATTGT-AAAA
*
91692270 ATTATAAAA
1 ATTGTAAAA
* *
91692279 ATTATTAGAA
1 ATT-GTAAAA
91692289 ATTGTAAAA
1 ATTGTAAAA
91692298 GATTGTAAAA
1 -ATTGTAAAA
91692308 A
1 A
91692309 AATTATTAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
9 12 0.29
10 25 0.61
11 4 0.10
ACGTcount: A:0.56, C:0.00, G:0.10, T:0.34
Consensus pattern (9 bp):
ATTGTAAAA
Found at i:91692270 original size:39 final size:39
Alignment explanation
Indices: 91692226--91692321 Score: 133
Period size: 39 Copynumber: 2.5 Consensus size: 39
91692216 TTAAAAACTA
* *
91692226 TAAAAAAATTATAAAAA-AATAGATATTGTAAAATATTG
1 TAAAAAAATTATAAAAATAATAGAAATTGTAAAAGATTG
*
91692264 T-AAAAAATTATAAAAATTATTAGAAATTGTAAAAGATTG
1 TAAAAAAATTATAAAAA-TAATAGAAATTGTAAAAGATTG
*
91692303 TAAAAAAATTATTAAAATA
1 TAAAAAAATTATAAAAATA
91692322 GTAAAAACTA
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
37 15 0.29
38 1 0.02
39 21 0.41
40 14 0.27
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.32
Consensus pattern (39 bp):
TAAAAAAATTATAAAAATAATAGAAATTGTAAAAGATTG
Found at i:91692292 original size:29 final size:29
Alignment explanation
Indices: 91692260--91692328 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 29
91692250 ATTGTAAAAT
*
91692260 ATTGTAAAAAAT-TATAAAAATTATTAGAA
1 ATTGTAAAAAATGTAAAAAAATTATTA-AA
*
91692289 ATTGTAAAAGATTGTAAAAAAATTATTAAA
1 ATTGTAAAA-AATGTAAAAAAATTATTAAA
*
91692319 ATAGTAAAAA
1 ATTGTAAAAA
91692329 CTATTTAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 10 0.29
30 12 0.34
31 13 0.37
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (29 bp):
ATTGTAAAAAATGTAAAAAAATTATTAAA
Found at i:91692296 original size:19 final size:20
Alignment explanation
Indices: 91692245--91692297 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 20
91692235 TATAAAAAAA
* *
91692245 TAGATATTGTAAAATATTGT
1 TAGAAATTGTAAAATATTAT
* * *
91692265 AAAAAATTATAAAA-ATTAT
1 TAGAAATTGTAAAATATTAT
91692284 TAGAAATTGTAAAA
1 TAGAAATTGTAAAA
91692298 GATTGTAAAA
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
19 15 0.60
20 10 0.40
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (20 bp):
TAGAAATTGTAAAATATTAT
Found at i:91693598 original size:17 final size:17
Alignment explanation
Indices: 91693576--91693615 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
91693566 TTTTATAATG
* *
91693576 TATAATATCAATATATT
1 TATAATATAAATAAATT
91693593 TATAATATAAATAAATT
1 TATAATATAAATAAATT
91693610 TATAAT
1 TATAAT
91693616 TTTTTCCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
TATAATATAAATAAATT
Found at i:91693627 original size:27 final size:30
Alignment explanation
Indices: 91693587--91693668 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 30
91693577 ATAATATCAA
**
91693587 TATATTTATAATATAAATAAATTTAT-AAT
1 TATATTTCCAATATAAATAAATTTATAAAT
* *
91693616 T-T-TTTCCAATAT-GAT-GATATTATAAAT
1 TATATTTCCAATATAAATAAAT-TTATAAAT
91693643 TATATTTCCAATATAAATAAATTTAT
1 TATATTTCCAATATAAATAAATTTAT
91693669 CATATAAATT
Statistics
Matches: 41, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
25 2 0.05
26 6 0.15
27 12 0.29
28 2 0.05
29 11 0.27
30 6 0.15
31 2 0.05
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (30 bp):
TATATTTCCAATATAAATAAATTTATAAAT
Found at i:91701486 original size:34 final size:34
Alignment explanation
Indices: 91701443--91701511 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
91701433 AATGGAACGA
91701443 TGATGATTGATCATTGATGGATACCGTTGCCATG
1 TGATGATTGATCATTGATGGATACCGTTGCCATG
91701477 TGATGATTGATCATTGATGGATACCGTTGCCATG
1 TGATGATTGATCATTGATGGATACCGTTGCCATG
91701511 T
1 T
91701512 TTTCTTTCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.23, C:0.14, G:0.26, T:0.36
Consensus pattern (34 bp):
TGATGATTGATCATTGATGGATACCGTTGCCATG
Found at i:91712476 original size:480 final size:480
Alignment explanation
Indices: 91709831--91716712 Score: 7902
Period size: 493 Copynumber: 14.1 Consensus size: 480
91709821 TTCGTCACCC
* *
91709831 AACAAACCCAACCATGTGTAATGCATAATTGAATATCAATCATGTAGCATATCATGCTAAACAGT
1 AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
* *
91709896 ACAATATCGGTAAGAAAATCATATCAATCATGTAGCATAGCAAGCTAAACAGTACAGTAACAGTA
66 ACAATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCTAAACAGTACAGTAACAGTA
** * *
91709961 ACAATTGTTTAATCAACATAATTTAGTATAATAGTTTTGGAGACACGATTTTTATGTAATCACTA
131 ACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTA
* * ** *
91710026 TTAACAATAGCAATCAAGACATGTTTTTATGCAACCAACTTCATATCAATCACGATCATATAATC
196 TTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCACGATCATATAATC
* * * * * * *
91710091 AATTAATCAGGAATAAAGACTTAATCATGACTTTAGGGCACTAACATGTAGGGAATTATTCATGG
261 AATTAATCAAGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGG
* * * *
91710156 ACTAAAATGAAACATATAGCAAAATAGTGGAGTAACAGTGGAATAGGGGCTCACACGACTGTGTG
326 ACTAAAATGAAACATATCGCAAAATAGTGAAGAAACAGTGGAATAGGGGCTCACACGGCTGTGTG
* *
91710221 GGGAGGTCGTGTGAGGCGGTTTAGACTATGTTACTAAGTTACACGGCTGTGTAACTCATAGTGAC
391 GGGAGGCCGTGTGAGG-GGTTTAGACCATGTTACT--G----A-----GT-T-A--CATA--G-C
* * * *
91710286 TGTGTAACTCACTATGACCATGTGCAAATAAAAAAAAAATTTCCAA
437 TGTGTAACTCACTGTGACCGTGTGCAAAT--CAAAAAAATTCCCAA
* * * *
91710332 AACAAACCCAACCACATGTAATGCATAATTGAATACCAATCATGTAGCATAACATGCTAAAAAAT
1 AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
* * *
91710397 ACAATATAGGTAAGAGAATCATATCAATCATGTAGCATAACAAGCTAAACAGTACAATAACAGTA
66 ACAATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCTAAACAG-----T-ACAGTA
*
91710462 ACAGTAATAGTAAAAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTTC
125 AC------AGTAACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTTC
* *
91710527 ATGTAATCACTATTAACAATAGCAATCAAGGCATGCTTACATGGAACCAATTTCATATCAATTAC
184 ATGTAATCACTATTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCAC
* ** *
91710592 GATCATATAATCAATTAATCAATAATGAAGTCTTAATCATGATTTTATAGCTCTAACATGTAAGG
249 GATCATATAATCAATTAATCAAGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGGG
* * * * * * *
91710657 AATTATTTAGGGATTAAAATGAAACATCTCGTAAAATAATGGAGAAACAGTGGAATA-GGGCTCA
314 AATTACTCAGGGACTAAAATGAAACATATCGCAAAATAGTGAAGAAACAGTGGAATAGGGGCTCA
* ** * * * **
91710721 CATGGCTGTGTGAAGAGGCCGTGTGAGGGGGTTTAGACCGTGTTACTGAGTTATATGGCCATGTA
379 CACGGCTGTGTGGGGAGGCCGTGTGA-GGGGTTTAGACCATGTTACTGAGTTACATAGCTGTGTA
* * * * *
91710786 ACTCATTGTGACCATATGCAAATAAAAAAAATTTCTCAA
443 ACTCACTGTGACCGTGTGCAAATCAAAAAAA-TTCCCAA
* * * * *
91710825 AACAAACCTAACTATGTGTAATGCATATTTGAATACCAATCATGTGGCATATCATGCTAAACAGT
1 AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
* * *
91710890 -CTAATATAGGTAAGAGATTCATATCAATCATGTAGCATAGCATGCTAACCAGTATAGCAACAGT
66 AC-AATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCTAAACAG--T----ACAGT
* * * *
91710954 AACAATAATAGTAACAATTTTTTAATCAACATGCTTTAGTATAAAAGTTTTGAAGACAGGATTTT
124 AAC------AGTAACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTT
* * * * *
91711019 CATGTAATTACTATTAACAATACCAATCAAGGCACGCTTACATGCGACTAATTTCATATCAATCA
183 CATGTAATCACTATTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCA
* * * * *
91711084 CGATCATATAATCAATTAATCATGAATGAAGTTTTAATTATGATTTTAGGGCTCAAACATATAGG
248 CGATCATATAATCAATTAATCAAGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGG
** ** *
91711149 GAATTACTCATTGACTAAAATGAAACATATCGCAAAATAGTGGAA-AAACAGTACAATAGGGGTT
313 GAATTACTCAGGGACTAAAATGAAACATATCGCAAAATAGT-GAAGAAACAGTGGAATAGGGGCT
* * * * *
91711213 CACACGGCAGTGTAGGGAGACCGTGTGGGGGGTTTAGACCGTGTTACTGAGTTACATGACCGAGT
377 CACACGGCTGTGTGGGGAGGCCGTGTGAGGGGTTTAGACCATGTTACTGAGTTACAT-----AG-
* * *
91711278 AACTCACTATGACCATGTAAATCATTGTGACCATGTGCAAATCGAAAAAAATTTCCCAA
436 ------C--TG----TGTAACTCACTGTGACCGTGTGCAAATC-AAAAAAA-TTCCCAA
* * * *
91711337 AACAAACTCAACCATGTGTAATGCGTAATTGAATACCAATCATGTAGCATATCATGCTAAACAAT
1 AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
* * *
91711402 ACAATATCGGTAAGAGAATCATATCAATTATGTAGCATAGCATGCTACATAGTACAGTAACAGTA
66 ACAATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCTAAACAGTACAGTAACAGTA
* * *
91711467 ATAATTGTTTAATTAACATG-TTTAGTATAACAGTTTTGGAGACACAATTTTCATGTAATCACTA
131 ACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTA
* * *
91711531 TTAACAATAACAATCAAGGCATGCTTATATGCAACCAATTTCATATCGATCACGATCATATAATC
196 TTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCACGATCATATAATC
* * * *
91711596 AATTAATC-AGTAATGAAATCTTAATCATAATTTTAGGACTCTAACATGTAGAGAATTACTCTA-
261 AATTAATCAAG-AATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGGGAATTACTC-AG
** * * * *
91711659 GGAAAAAAATCAAACATATCGCAAAATAATG--GAAAAAGTGGAATAGGGGCTCACACGGTTGTG
324 GGACTAAAATGAAACATATCGCAAAATAGTGAAGAAACAGTGGAATAGGGGCTCACACGGCTGTG
* * * *
91711722 TGGGGAGGCCGTGTGAGGGGATTTAGACCATGTTACTAAGTAACAT-GGTCGTGTAACTCACTTT
389 TGGGGAGGCCGTGTGAGGGG-TTTAGACCATGTTACTGAGTTACATAGCT-GTGTAACTCACTGT
*
91711786 GACCGTGTGCAAATCAAAAATAACTTTCCAA
452 GACCGTGTGCAAATCAAAAA-AA-TTCCCAA
* * * *
91711817 AACAAACCCAACTACGTGTAATGCATAATTGAATAACAATCATGTAGGATATCATGCTACACAGT
1 AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
* * * * *
91711882 AAAATATCGGTAAAAGAATCATATTAATCATATAGCATAGCACGCTAAACAGTACAGTAACAGTA
66 ACAATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCTAAACAGTACAGTAACAGTA
* * * *
91711947 ACGATTGTTTAATCAACATTCTTTAGTATAACTGTTTTGGATACACGATTTTCATGTAATCACTA
131 ACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTA
*
91712012 TTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCACGAACATATAATC
196 TTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCACGATCATATAATC
*
91712077 AATTAATCAGGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGG
261 AATTAATCAAGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGG
* * * *
91712142 GCTAAAATGATACATATAGTAAAATAGTGAAGAAACAGTGGAATAGGGGCTCACACGGCTGTGTG
326 ACTAAAATGAAACATATCGCAAAATAGTGAAGAAACAGTGGAATAGGGGCTCACACGGCTGTGTG
* *
91712207 GGGAGGCCGTGTGAGAGGGTTTAGACCATGTTACTCAGTTACATAGCTGTGTAACTCACCGTGAC
391 GGGAGGCCGTGTGAG-GGGTTTAGACCATGTTACTGAGTTACATAGCTGTGTAACTCACTGTGAC
*
91712272 TGTGTGCAAAT-AAAAAAATTCCCAA
455 CGTGTGCAAATCAAAAAAATTCCCAA
* * * * *
91712297 AATAAACCCAACCACGTGTAATGCATAACTGAATACCAAACATGTAGCATGTCATGCTAAATAGT
1 AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
*
91712362 ACAATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCAAGCTAAACAGTAC-GATAACAGT
66 ACAATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCTAAACAGTACAG-TAACAGT
* *
91712426 AACAATTATTTAATCAATATGCTTTAGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACT
130 AACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACT
* * * *
91712491 ATTAACAATAGCAATCAAAGTATACTTACATGCAACCAATTTCATATCAATCACAATCATATAAT
195 ATTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCACGATCATATAAT
* * *
91712556 CAATTAATCAAGAATGAAGACTTAATCA-CA----A------T--CA--TAGCGAATTACTCAGG
260 CAATTAATCAAGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGG
* * *
91712606 GACTAAAATGAAACATATCGCAAAATAGT-AGAGAAACAGTGGAATAAGGACTCACACGACTGTG
325 GACTAAAATGAAACATATCGCAAAATAGTGA-AGAAACAGTGGAATAGGGGCTCACACGGCTGTG
* * * *
91712670 -GCGGGAAGCCGTGAGAGGGGATTTAGACCATGATACTGAGTTACATAGCCGTGTAACTCACTGT
389 TG-GGGAGGCCGTGTGAGGGG-TTTAGACCATGTTACTGAGTTACATAGCTGTGTAACTCACTGT
* * *** *
91712734 GACCGTGTGTAACTCGAAAATTTTTTTCCAA
452 GACCGTGTGCAAATC-AAAA-AAATTCCCAA
91712765 AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
1 AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
* * * * *
91712830 AAAATATCAGTAAGAGAATCATATCAATCATGTAGCATAACGTGCTAAACTGTACAGTAACAGTA
66 ACAATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCTAAACAGTACAGTAACAGTA
* * * * *
91712895 GCAATTGTTTAATCAACATACTTTAGGATAACAG-TTTAGAGACATGATTTTCATGTAATCACTA
131 ACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTA
* * * * * * *
91712959 TTAACAATACCAATCAATGCATGCTTATAGGTAACCAATATCATGTCAATCACGATCATATAATC
196 TTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCACGATCATATAATC
* * * *
91713024 AATTAATCAAGATTGAAGTCTTAATCATGATTTTAGCGCTCTAACATGCAGGGAA-TATTCAGGG
261 AATTAATCAAGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGG
* * * * * * *
91713088 ACTAAAATGATACATATCACAAAATAATGGAGAAACAATGGAATAGGGGATCACACAGCTGTGTG
326 ACTAAAATGAAACATATCGCAAAATAGTGAAGAAACAGTGGAATAGGGGCTCACACGGCTGTGTG
* * ** ** * *
91713153 AGGAGGCCGTGTGAGAGGGTTTAGACCATGTTA-GGAGTTACACGGCTAAGTAACTCATTGTGAT
391 GGGAGGCCGTGTGAG-GGGTTTAGACCATGTTACTGAGTTACATAGCTGTGTAACTCACTGTGAC
* *
91713217 TGTGTGCAAATCGAAAAAAAATTCCTAA
455 CGTGTGCAAATC--AAAAAAATTCCCAA
* * * * *
91713245 AACGAACCTAACCACGTGTAATGCATAACTGAATACCAAACATGTACCATATCATGCTAAACAGT
1 AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
* * *
91713310 ACAATATCAGTAAGAGAATCATATCAATCATGGAGCATAGCATGCTAAATAGTATAGTAACAGTA
66 ACAATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCT--A-A--ACAGT-ACAGTA
* *
91713375 ACAGTAACAATTGTTTAATCAACATGATTTAGTATAACAGTTTTGGAGACACAATTTTCATGTAA
125 ACAGTAACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTTCATGTAA
* * *
91713440 TCACTATTAACAATAGCAATCAAGGCATACTTACATGCAACCAATTTCATATCAATTACGATTAT
190 TCACTATTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCACGATCAT
* *
91713505 ATAATCAATTAATCAATAATGAAGTCTTAATCATGATTTTAAGGCTCTAACATGTAGGGAATTAC
255 ATAATCAATTAATCAAGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGGGAATTAC
* * ** * * * *
91713570 TTAGGGACTAAAATGAAACATCTTACAAAATAATGGAGAAACAGTAGAATA-GGGCTCACACAGC
320 TCAGGGACTAAAATGAAACATATCGCAAAATAGTGAAGAAACAGTGGAATAGGGGCTCACACGGC
* * *
91713634 TGTGTGGGGAGGCCGTGTGAGGGGGTTTAGACCGTGTTACTGAGTTACAT-GGTCGTGTAACTTA
385 TGTGTGGGGAGGCCGTGTGA-GGGGTTTAGACCATGTTACTGAGTTACATAGCT-GTGTAACTCA
*
91713698 CTGTGACCATGTGCAAAT-AGAAAAAATTTCCCAA
448 CTGTGACCGTGTGCAAATCA-AAAAAA-TTCCCAA
* * **
91713732 AACAAACCCAACCACTTGTAATGTATTTTTGAATACCAATCATGTAGCATATCATGCTAAACAGT
1 AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
* *
91713797 ACAATATAGGTAAGAGATTCATATCAATCATGTAGCATAGCATGCTAAACAGTATAATAACAGTA
66 ACAATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCTAAACAG-----T-ACAGTA
* * * *
91713862 ACAGTAATAGTAACAATTGTTTAATCAACATGTTTTAGTATAACAGTTTTGAAGGCATGATTTTC
125 AC------AGTAACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTTC
* * * * * *
91713927 ATGTAATTACTATTAACAATAGCAACCAAGCCATGCTTATATGTAACCAATTTCATATCAATCAT
184 ATGTAATCACTATTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCAC
* * * **
91713992 GATCCTATAATCAATTAATCACA-AATGATGTTTTAATCATGATTTTAGGGCTCTAACATGTAAA
249 GATCATATAATCAATTAATCA-AGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGG
* * * * * * *
91714056 GAATTACTCATGAAATAAAATGAAACATATCACAAAATAGTGGAGAAACAGTGTAATAGGGGTTC
313 GAATTACTCAGGGACTAAAATGAAACATATCGCAAAATAGTGAAGAAACAGTGGAATAGGGGCTC
* * * *** * * *
91714121 ATACGGTTGTCTAAAGAGGCCGTGTGAAGGGGTTTAGACCGTGTTAC--A-TGAC----C-GAGT
378 ACACGGCTGTGTGGGGAGGCCGTGTG-AGGGGTTTAGACCATGTTACTGAGTTACATAGCTGTGT
* *
91714178 AACTCACTGCGACCGTGTGCAAATAAAAAAAATTTCCCAA
442 AACTCACTGTGACCGTGTGCAAATCAAAAAAA-TTCCCAA
* * * *
91714218 CACAAACCCAACCACGTGTAATGCATAACTGAATACCAATCATGTAGCATATCAAGCTAAATAGT
1 AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
** * *
91714283 ACAATATCGGTAAGAGAATCATATCAATCATACAGCATAGCATCCTAAACAGTACAGTAATAGTA
66 ACAATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCTAAACAGTACAGTAACAGTA
* * * *
91714348 ACAATTGTTTAATCAACATGCTTTAGTATAACTGATTTGGAGACACGATTTTCATGTAATTACTG
131 ACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTA
* *
91714413 TTAACAATAGCAATCAAGGCATGCTTACATGTAACCAATTTCATGTCAATCACGATCATATAATC
196 TTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCACGATCATATAATC
* *
91714478 AATTAATCAATAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGGGAATTACTTAGGG
261 AATTAATCAAGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGG
* * * * * **
91714543 ACAAAAATTATACATATCGTAAAATAGTGCAGAAACAGTATAATAGGGGCTCACACGGCTGTGTG
326 ACTAAAATGAAACATATCGCAAAATAGTGAAGAAACAGTGGAATAGGGGCTCACACGGCTGTGTG
* * * *
91714608 AGGAGGCCTTGTGAGGGGGTTTAGACCATGTTACTGAGTTACATGGCCGTGTAACTCACTGTGAC
391 GGGAGGCCGTGTGA-GGGGTTTAGACCATGTTACTGAGTTACATAGCTGTGTAACTCACTGTGAC
* *
91714673 CGTATGCAAATCGAAAATAACTTCCCAA
455 CGTGTGCAAATC-AAAA-AAATTCCCAA
* * * *
91714701 AACAAACCCAACTACGTGTAATGCATAATTGAATTA-CAAACATGTAGCATATCATGTTAAACAA
1 AACAAACCCAACCACGTGTAATGCATAATTGAA-TACCAATCATGTAGCATATCATGCTAAACAG
*
91714765 TACATTATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCTAAACAGTGTAGTAACAGT
65 TACAATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCTAAAC-----AGT-ACAGT
91714830 AACAGTAACGGTAACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTT
124 AAC----A--GTAACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTT
* * * * ** *
91714895 CATGTAATCACTATTGACAATACCAGTCAAAGCATGCTTACATATAGCCAATTTCATATCAATCA
183 CATGTAATCACTATTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCA
* ** *
91714960 CGATCATATAATCAATTAATCAAGAATGAAGACTTAATCATGATTTTAAAGCTCTAACATTTAGG
248 CGATCATATAATCAATTAATCAAGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGG
* * * ** * * ** *
91715025 GAATTACTCAGGGACTAAAATGATAGATATC-CTAAAATTGCAAAGAAACAATGGAACAAAGACT
313 GAATTACTCAGGGACTAAAATGAAACATATCGC-AAAATAGTGAAGAAACAGTGGAATAGGGGCT
* * * * * * * * *
91715089 CACACGGCTGCGTGCGGAGGCTGTGAGAGGGGCTTATACCGTATTACTAAGTTACATA-CTCGTG
377 CACACGGCTGTGTGGGGAGGCCGTGTGAGGGGTTTAGACCATGTTACTGAGTTACATAGCT-GTG
91715153 TAACTCACTGTGACCGTGTGCAAATCAAAAAAAATTCCCAA
441 TAACTCACTGTGACCGTGTGCAAATC-AAAAAAATTCCCAA
* * * * *
91715194 AACAAACCTAACAACGTGTAATGCATAATTTAATACCAGTCATATAGCATATCATGCTAAACAGT
1 AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
* * * *
91715259 ACAATATCAGTAAGAGAATCATATCAATCATGTAACATAACATGCTAAACAGTACAGTAATAGTA
66 ACAATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCTAAACAGTACAGTAACAGTA
* * * * * **
91715324 ATAATTGTTTAATCAACATGCTTTAGTATAACAGGTTTGGAGAGAAGATTTTTATGTAATCGTTA
131 ACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTA
* * * *
91715389 TTAACAATAGCAACCATGGCATGCTTACATGTAACCAATTTCATATCAATCACGATCATATAACC
196 TTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCACGATCATATAATC
* * * ** * * *
91715454 AATTAATCAATAATGAAGTCTGAATCATGATTTTAGGGCTCTAACATGCATAGAATGT-TTTAAG
261 AATTAATCAAGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGGGAAT-TACTCAGG
* * *
91715518 GACTAAAATGATACATATCGCAAAATAATGGAA-AAACAGTGGAATAGGGGCTCACACAGCTGTG
325 GACTAAAATGAAACATATCGCAAAATAGT-GAAGAAACAGTGGAATAGGGGCTCACACGGCTGTG
* * * ** * *
91715582 -GAGGAAGGCCGTGTGAGGGATTTAAACTGTGTTACTGAGTTATATGGCTGTGTAACTCACTGTG
389 TG-GGGAGGCCGTGTGAGGGGTTTAGACCATGTTACTGAGTTACATAGCTGTGTAACTCACTGTG
* * *
91715646 ACTGTGTGCAAATTGAAAAAAAATCCCAA
453 ACCGTGTGCAAA-TCAAAAAAATTCCCAA
* * * * *
91715675 AACAAACCTAGCCACATGTAAGGCATAATTAAATACCAATCATGTAGCATATCATGCTAAACAGT
1 AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
* *
91715740 ACAATATCAGTAAGAGAATCATATCAATCATGTAGCATAGCACGCTAAACAGTACAGTAACAGTA
66 ACAATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCT--A-A--ACAGT-ACAGTA
* *
91715805 ACAGTAACAATTGTGTAATCAACATGTTTTAGTATAACAGTTTTGGAGATC-CGATTTTCATGTA
125 ACAGTAACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGA-CACGATTTTCATGTA
* * *
91715869 ATCACTATTAACAATAGCAATCAAGGTATGCTTACATGCAACCAATTTCATACCAATCACAATCA
189 ATCACTATTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCACGATCA
* * *
91715934 TATAATCAATTAATCAGGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACAGGTAGGGAATTT
254 TATAATCAATTAATCAAGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGGGAATTA
* * * * * * * *
91715999 CTCTGGGACTAAAATGATACATATCCCAAAATAGTGGAGATACAGTGTAGTAGGGGCACACACGG
319 CTCAGGGACTAAAATGAAACATATCGCAAAATAGTGAAGAAACAGTGGAATAGGGGCTCACACGG
* * * * *
91716064 CTGTGTGGGGAGGCCGTGTGAGGGTGTTTAAACCGTGTTACTCAATTACATAGCTGTCTAACTCA
384 CTGTGTGGGGAGGCCGTGTGAGGG-GTTTAGACCATGTTACTGAGTTACATAGCTGTGTAACTCA
* * *
91716129 TTATGACC-TAGTGCAAATCAAAAAATATTTTCCAA
448 CTGTGACCGT-GTGCAAATCAAAAAA-A-TTCCCAA
* * *
91716164 AACAAACCCAACCACGTGTAATGCGTAATTGAATAACAATCATGTAGCATATCATGCTAAACTGT
1 AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
* * *
91716229 ACAATATCGGTAAGAG-A--A-ATCAATCATGTAACATAGCAAGGTAAACAGTACTA-TAACAGT
66 ACAATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCTAAACAGTAC-AGTAACAGT
* ** *
91716289 AACAATTGTTTAATCAACATGCTTTAATATAATTGTTTTAGAGACACGATTTTCATGTAATCACT
130 AACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACT
* * * * * *
91716354 ATTAACAATATCAATCAATGCATACTTACATGCAACAAATTTCATACCAATCAAGATCATATAAT
195 ATTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCACGATCATATAAT
* * * *
91716419 CAATTAATCAGGAGTGAAGTCTTAATCATGATTTTAGGGCTTTAACATGTAGGGAATTACTTAGG
260 CAATTAATCAAGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGG
* * * * * *
91716484 AACTAAAATGATACATAACCCAAAATAG-GAGAGAAACAGTGGAATAGGGGCTCACAAGCCTGTG
325 GACTAAAATGAAACATATCGCAAAATAGTGA-AGAAACAGTGGAATAGGGGCTCACACGGCTGTG
* * * * * * * * *
91716548 TGGGGAGACCTTGTAAGGGGTCTAAACCATGTTACTCAGTTACATAGCTATGTAACTTACTATGA
389 TGGGGAGGCCGTGTGAGGGGTTTAGACCATGTTACTGAGTTACATAGCTGTGTAACTCACTGTGA
* * *
91716613 CCGTATGCAGATCGAAAAACATTTCCCAA
454 CCGTGTGCAAATC-AAAAA-AATTCCCAA
* * *
91716642 AACAAAACCAACCACGTGTAAGGCATACTTGAATACCAATCATGTAGCATATCATGCTAAACAGT
1 AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
*
91716707 AAAATA
66 ACAATA
91716713 ATAGTAGCAG
Statistics
Matches: 5463, Mismatches: 756, Indels: 347
0.83 0.12 0.05
Matches are distributed among these distances:
464 5 0.00
465 133 0.02
467 114 0.02
468 153 0.03
469 2 0.00
472 1 0.00
473 2 0.00
474 258 0.05
475 1 0.00
476 1 0.00
477 3 0.00
478 121 0.02
479 265 0.05
480 583 0.11
481 658 0.12
482 52 0.01
483 211 0.04
484 12 0.00
485 26 0.00
486 199 0.04
487 555 0.10
488 131 0.02
489 84 0.02
490 2 0.00
491 3 0.00
492 13 0.00
493 682 0.12
494 152 0.03
495 241 0.04
497 44 0.01
498 25 0.00
499 174 0.03
500 23 0.00
501 110 0.02
505 1 0.00
506 10 0.00
507 8 0.00
510 2 0.00
511 25 0.00
512 160 0.03
513 218 0.04
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (480 bp):
AACAAACCCAACCACGTGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
ACAATATCGGTAAGAGAATCATATCAATCATGTAGCATAGCATGCTAAACAGTACAGTAACAGTA
ACAATTGTTTAATCAACATGCTTTAGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTA
TTAACAATAGCAATCAAGGCATGCTTACATGCAACCAATTTCATATCAATCACGATCATATAATC
AATTAATCAAGAATGAAGTCTTAATCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGG
ACTAAAATGAAACATATCGCAAAATAGTGAAGAAACAGTGGAATAGGGGCTCACACGGCTGTGTG
GGGAGGCCGTGTGAGGGGTTTAGACCATGTTACTGAGTTACATAGCTGTGTAACTCACTGTGACC
GTGTGCAAATCAAAAAAATTCCCAA
Found at i:91719228 original size:480 final size:479
Alignment explanation
Indices: 91716678--91720983 Score: 5175
Period size: 479 Copynumber: 9.0 Consensus size: 479
91716668 ACTTGAATAC
* * * * * * *
91716678 CAATCATGTAGCATATCATGCTAAACAGTAAAATAATAGTAGCAGTAACACTTGTGTAATAAAAA
1 CAATCATGTAGCATAGCATGCTAAACAG-----T-ACAGTAACAGTAACAATTGTTTAAT-CAAC
* * * *
91716743 ATGCTTTAGTACAACAATTTTGGAGACACGATTTTCATGTAATCACTATTAACAATATCGATCAA
59 ATGCTTTAGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTATTAACAATAGCAATCAA
* * * * * *
91716808 GGCGTGTTTACATGCAACCAATTTCATACCAATCATGATCATATAATAAATTAATCAGGAACGAA
124 GGCATGCTTACATGCAACCAATTTCATATCAATCACGATCATATAATCAATTAATCAGGAATGAA
** * * * * *
91716873 AACTTAATCATGATTTTAGAGCTCTAACATATAGAGAATTACTCAGGGACTAATATGATATATAT
189 GTCTTAATCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGGACTAAAATGATACATA-
* * * * * * * * *
91716938 TACAAAATAGTGGAGAAAAAATGAAATATTGG-CCCACACAGATGTGTGGGGAGGCCGTGTGAGG
253 TCCAAAATAGTGGAGAAACAGTGGAATA-AGGACTCACACGGCTGTGT-GGGAGGCCGTGAGA-G
* *
91717002 GGGTTTAAACCGTGTTACTCAGTTACATTGCTGTGTAACTCACTATGACCGTGTGCAAATCAAAA
315 GGGTTTAAACCGTGTTACTGAGTTACATAGCTGTGTAACTCACTATGACCGTGTGCAAATCAAAA
* * * *
91717067 AACATTTCCCAAAATAAACCCAACCACGTGTAATGCATAATTAAATACCAATCATGTAGCATATC
380 AA-AATTCCCAAAACAAACCCAACCACATGTAATGCATAATTGAATACCAATCATGTAGCATATC
* *
91717132 ATGCTAAACAGGACAATATCGGTAAGAGAATAATAT
444 ATGCTAAACAGTACAATATCGGTAAGAGAATCATAT
* * * * *
91717168 CAATAATGTAACATAGCAAGCTAAGCAGTACAGTAACAATAACAATTGTTTAATCAACATGCTTT
1 CAATCATGTAGCATAGCATGCTAAACAGTACAGTAACAGTAACAATTGTTTAATCAACATGCTTT
* * * *
91717233 AGTGTAACAGTTTTGGAGACACGATTTTCATGTAATCACTATTGACAATAGCAATTAAAGCATGC
66 AGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTATTAACAATAGCAATCAAGGCATGC
* * * *
91717298 TTACACGCAACCAATTTCATATCAATCCCGATCATATAACCAATTAATCAAGAATGAAGTCTTAA
131 TTACATGCAACCAATTTCATATCAATCACGATCATATAATCAATTAATCAGGAATGAAGTCTTAA
* * * * *
91717363 TCATAATTTTAGGACTTTAACATGTAGGGAATTACTCAGGGACTAAAATGAAACATATCGTAAAA
196 TCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGGACTAAAATGATACATATC-CAAAA
* * * *
91717428 TAGTGGTGAAATAGTGGAATCAGGACTCACACGGCTGTGTGGGGAGGCCGTGAGAGTGGGTTTAT
260 TAGTGGAGAAACAGTGGAATAAGGACTCACACGGCTGTGT-GGGAGGCCGTGAGAG-GGGTTTAA
*
91717493 ACCGTGTTACTGAGTTACAT-GCCCGTGTAACTCACTATGACCGTGTGCAAATCAAAAAAAATTC
323 ACCGTGTTACTGAGTTACATAG-CTGTGTAACTCACTATGACCGTGTGCAAATCAAAAAAAATTC
* *
91717557 CCAAAACAAACCCAA-CA-ATGTGAAATGCATAATTGAATATCAATCATGTATCATATCATGCTA
387 CCAAAACAAACCCAACCACATGT--AATGCATAATTGAATACCAATCATGTAGCATATCATGCTA
* *
91717620 AACAGTACAATATCAGTAAGCGAATCATAT
450 AACAGTACAATATCGGTAAGAGAATCATAT
* * *
91717650 CAATCATGTAGCATAACATGCTAACCAGTATAGTAACAGTAACAATTGTTTAATCAACATGCTTT
1 CAATCATGTAGCATAGCATGCTAAACAGTACAGTAACAGTAACAATTGTTTAATCAACATGCTTT
* * * *
91717715 AGTATAATAGGTTTGGAGACAAGATTTTCATGTAATCACTATTAACAATAGCAATCAATGCATGC
66 AGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTATTAACAATAGCAATCAAGGCATGC
*
91717780 TTACATGCAACCAATTTCATGTCAATCACGATCATATAA-CTAATTAATCAGGAATGAAGTCTTA
131 TTACATGCAACCAATTTCATATCAATCACGATCATATAATC-AATTAATCAGGAATGAAGTCTTA
* * * * * * *
91717844 ATTATGATTTTAGGGCTCTAACATGCATGGAAATATTCAGGGAGTAAAATGATACATATCAAAAA
195 ATCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGGACTAAAATGATACATATC--CAA
* * * * * *
91717909 AATAATGGAGAAACAGTGGAATAAGGGCTCACACAGCTGTGTAGGAAGGCCGTGTGAAGGGTTTA
258 AATAGTGGAGAAACAGTGGAATAAGGACTCACACGGCTGTGT-GGGAGGCCGTGAGAGGGGTTTA
* * * *
91717974 AACTGTGTTACTGAGTTAC--A-C-G-GCTAACTCACTGTGACTGTGTGCAAACTGAAAAAAAAT
322 AACCGTGTTACTGAGTTACATAGCTGTG-TAACTCACTATGACCGTGTGCAAA-TCAAAAAAAAT
* * *
91718034 TCCCAAAACGAACCCAACCACATGTAATGCATAATTGAATACCAATCATATATCATATCATGCTA
385 TCCCAAAACAAACCCAACCACATGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTA
* *
91718099 AACAGTATAATATCGGTAAGGGAATCATAT
450 AACAGTACAATATCGGTAAGAGAATCATAT
** * * * *
91718129 CAAT-AGTGTTTCATAGTATGCTAAACAATACAGTAATAGTAATAGTAATAAT-TATGTAATCAA
1 CAATCA-TGTAGCATAGCATGCTAAACAGTACAGTAACAGT-A-A-CAAT--TGT-T-TAATCAA
*
91718192 CATGCTTTAGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTATTAACAATAGTAATCA
58 CATGCTTTAGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTATTAACAATAGCAATCA
* * *
91718257 AGGCATGCTTACTTGCAACCGATTTCATATCAATCACGATTATATAATCAATTAATCAGGAATGA
123 AGGCATGCTTACATGCAACCAATTTCATATCAATCACGATCATATAATCAATTAATCAGGAATGA
* * * *
91718322 AGTCTTAATCATAATTTTGGGGCTCTAATAGGTAGGGAATTACTCAGGGACTAAAATGATACATA
188 AGTCTTAATCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGGACTAAAATGATACATA
* * * ** * * * *
91718387 TCACAAAATAATGGAGAAACAGGGGAATAGGGGTTCACACGGTTGTATGGGGAGGCTGTGTGAGG
253 TC-CAAAATAGTGGAGAAACAGTGGAATAAGGACTCACACGGCTGTGT-GGGAGGCCGTGAGAGG
* * * *
91718452 GGATTTAGACCGTGTTACTCAGTTACATAGTTGTGTAACTCACTATGACCGTGTACAAATCGAAA
316 GG-TTTAAACCGTGTTACTGAGTTACATAGCTGTGTAACTCACTATGACCGTGTGCAAATC-AAA
***** * * * *
91718517 TTTTTTTTCCAAAACAAACCTAACCACATGTAATACATAATTAAATACCAATCATGTAGCATATC
379 AAAAATTCCCAAAACAAACCCAACCACATGTAATGCATAATTGAATACCAATCATGTAGCATATC
* *
91718582 ATGCTAAATAGTACAATATCGGT-A-A-AA-GATAT
444 ATGCTAAACAGTACAATATCGGTAAGAGAATCATAT
* * * *
91718614 CAATCATGTAACAAAGCAAGCTAAACAGTACAGTAACAGTAACAATTGTTTAATCAACGTGCTTT
1 CAATCATGTAGCATAGCATGCTAAACAGTACAGTAACAGTAACAATTGTTTAATCAACATGCTTT
* * * * * *
91718679 AGTATAACAGTTTTAGAGACACGATTTTCAAGTAATCACTACTGACAATAGCAATTAATGCATGC
66 AGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTATTAACAATAGCAATCAAGGCATGC
* * *
91718744 TTACATGCAACCAATTTCATAACAATCACGATCATATAACCAATTAATCAAGAATGAAGTCTTAA
131 TTACATGCAACCAATTTCATATCAATCACGATCATATAATCAATTAATCAGGAATGAAGTCTTAA
* *
91718809 TCATGATTTTAGAGCTCTAACATGTAGGGAATTACTCAGGGACTAAAATGATAGATATCCTAAAA
196 TCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGGACTAAAATGATACATATCC-AAAA
* * * * * *
91718874 TTGTGAAGAAACAATGGAATAAGGACTCACACGGCTATGTGCGGAGGTCGTGAGAGGGGTTTATA
260 TAGTGGAGAAACAGTGGAATAAGGACTCACACGGCTGTGTG-GGAGGCCGTGAGAGGGGTTTAAA
* * * *
91718939 CCGTGTTTCTAAGTTACATACCTGTGTAACTCACTGTGACCGTGTGCAAAT-AAAAAAAATTCCC
324 CCGTGTTACTGAGTTACATAGCTGTGTAACTCACTATGACCGTGTGCAAATCAAAAAAAATTCCC
* * * * *
91719003 AAAACAAACCCAACAACGTGTAATGCATAATTTAATACCAGTCATTTAGCATATCATGCTAAACA
389 AAAACAAACCCAACCACATGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACA
**
91719068 GTACAATATCAATAAGAGAATCATAT
454 GTACAATATCGGTAAGAGAATCATAT
*
91719094 CAATCATGTAGCATAACATGCTAAACAGTACAGTAACAGTAACAATTGTTTAATCAACATGCTTT
1 CAATCATGTAGCATAGCATGCTAAACAGTACAGTAACAGTAACAATTGTTTAATCAACATGCTTT
* * *
91719159 AGTATAACAGGTTTGGAGACACGATTTTCATGTAATCACTATTAATAATATCAATCAAGGCATGC
66 AGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTATTAACAATAGCAATCAAGGCATGC
* * *
91719224 TTACATGCAACCAATTTCATATCAATCACGATTATAT-AGCAATTAATCGGGAATGAAGTCTTAA
131 TTACATGCAACCAATTTCATATCAATCACGATCATATAATCAATTAATCAGGAATGAAGTCTTAA
* * * * *
91719288 TCATGATTTTAGGGCTCTAACATGCATGGAATTATTCAGGGTCTAAAATGATACATATTGCAAAA
196 TCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGGACTAAAATGATACATA-TCCAAAA
* * * * * *
91719353 TAATGGAGAAACAGTGGAATAGGGACTCACACAGCTTTGTAGGAAGGCCGTGTGAGGGGTTTAAA
260 TAGTGGAGAAACAGTGGAATAAGGACTCACACGGCTGTGT-GGGAGGCCGTGAGAGGGGTTTAAA
* ** * * *
91719418 CTGTGTTACTGAGTTACACGGCTTTGTAACTCACTGTGACTGTGTGCAAAT-AGAAAAAAATTCC
324 CCGTGTTACTGAGTTACATAGCTGTGTAACTCACTATGACCGTGTGCAAATCA-AAAAAAATTCC
** * * * *
91719482 CAAAACAAACTTAACCACGTGTAAGGCATAATTGTATACCAATCATTTAGCATATCATGCTAAAC
388 CAAAACAAACCCAACCACATGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAAC
91719547 AGTACAATATCGGTAAGAGAATCATAT
453 AGTACAATATCGGTAAGAGAATCATAT
* * * * * * *
91719574 GAATCATGTAGTATAGCATCCTAAATAGTATAGTAACAGTAACCATTGTGTAATCAACATGCTTT
1 CAATCATGTAGCATAGCATGCTAAACAGTACAGTAACAGTAACAATTGTTTAATCAACATGCTTT
*
91719639 AGTATAACAGTTTTGGAGACACGATTATCATGTAATCACTATTAACAATAGCAATCAAGGCATGC
66 AGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTATTAACAATAGCAATCAAGGCATGC
* * *
91719704 TTACATGCAATCAATTTCATACCAATCACGATCATATAATCAATTAATCAGGAATAAAGTCTTAA
131 TTACATGCAACCAATTTCATATCAATCACGATCATATAATCAATTAATCAGGAATGAAGTCTTAA
* * ** *
91719769 TCATGATTTTAGGGCTCTAACTTGTAGGAAATTACTCAATGACTAAAATGATACATATCGAAAAA
196 TCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGGACTAAAATGATACATATC-CAAAA
* * * * *
91719834 TAGTTGAGAAACAGTGGAATATGGGCTCACATGGC----T-----G-CGTGAG-GGGGTTTAGAC
260 TAGTGGAGAAACAGTGGAATAAGGACTCACACGGCTGTGTGGGAGGCCGTGAGAGGGGTTTAAAC
* * * * * * **
91719888 CATGTTACTTAGTTACTTAGTTGTGTAACTCACTATGACCGTGTGCAAATCGAAAGACGTTGCCC
325 CGTGTTACTGAGTTACATAGCTGTGTAACTCACTATGACCGTGTGCAAATCAAAAAAAATT-CCC
*
91719953 AAAACAAACCCAACCACATGTAATACATAATTGAATACCAATCATGTAGCATATCATGCTAAACA
389 AAAACAAACCCAACCACATGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACA
* *
91720018 GTATAATATCGGTAGGAG-A--A-AT
454 GTACAATATCGGTAAGAGAATCATAT
* *
91720040 CAATCATGTAACATAGCA-GACTAAACAGTACAGTAATAGTAACAATTGTTTAATCAACATGCTT
1 CAATCATGTAGCATAGCATG-CTAAACAGTACAGTAACAGTAACAATTGTTTAATCAACATGCTT
* * * * * * * * *
91720104 TAGTACAACAGTTTTCGTGACACAATTTTCATGTAATCATTATTGACAAAATCAATCAAAGCATG
65 TAGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTATTAACAATAGCAATCAAGGCATG
* * * *
91720169 CTTCCGTGCATCCAATTTCATATCAATCACGATCATATAATCAATTAATCAAGAATGAAGTCTTA
130 CTTACATGCAACCAATTTCATATCAATCACGATCATATAATCAATTAATCAGGAATGAAGTCTTA
* * * * * *
91720234 ATCATCATTTTAGGGTTCTAACATGTAAGGAATTACTCAGGTACTAAAATGAAACATATCATAAA
195 ATCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGGACTAAAATGATACATATC-CAAA
* * * * * *
91720299 ATAGTGGAGAAACAGTAGAACAAGAAGTCACATGGCTGTGTAAGGAGGCCGTGAGAGGGGGTTTA
259 ATAGTGGAGAAACAGTGGAATAAGGACTCACACGGCTGTGT-GGGAGGCCGTGAGA-GGGGTTTA
* * * ** * ***
91720364 TATCGTGTTATTGAGTTACAT-GCCCCTGTAACTCACTATGACTGTGTGCAAATCGAAAAACTTT
322 AACCGTGTTACTGAGTTACATAG-CTGTGTAACTCACTATGACCGTGTGCAAATC-AAAAAAAAT
* * *
91720428 TCCCAAAACAAACCGAACAACATGTAATTCATAATTGAATACCAATCATGTAGCATATCATGCTA
385 TCCCAAAACAAACCCAACCACATGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTA
*
91720493 AACAGTACAATATCAGTAAGAGAATCATAT
450 AACAGTACAATATCGGTAAGAGAATCATAT
* * * *
91720523 CAATCATGTAGCATAGCATGCTAAACAGTATAGTAATAGTTACAATTGTTTAATCAATATGCTTT
1 CAATCATGTAGCATAGCATGCTAAACAGTACAGTAACAGTAACAATTGTTTAATCAACATGCTTT
* * *
91720588 AGTATAACAGTTTTGGAGACACGATTTTCATGTAATCGCTGTTAACAATAGCAATCAATGCATGC
66 AGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTATTAACAATAGCAATCAAGGCATGC
* * * * *
91720653 TTACATGCAACCAATTTCATATCAATCATGATCATATAATTAATTAATTAAGAATGAAGTCATAA
131 TTACATGCAACCAATTTCATATCAATCACGATCATATAATCAATTAATCAGGAATGAAGTCTTAA
* * *
91720718 TCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGGACTAAAATGAAATATATTGCAAAA
196 TCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGGACTAAAATGATACATA-TCCAAAA
* *
91720783 TAGTGGAAAAATAGTGGAAT-AGTG-CTCACACGGCTGTGTGGGAGGCCGTGAG-GGGGAATTTA
260 TAGTGGAGAAACAGTGGAATAAG-GACTCACACGGCTGTGTGGGAGGCCGTGAGAGGGG--TTTA
* * * * * * *
91720845 AACCGTGGTACTGATTTACATGGCTGTGTAACTCACTGTGACTGTGTGCAAATC-GAAAAATTTC
322 AACCGTGTTACTGAGTTACATAGCTGTGTAACTCACTATGACCGTGTGCAAATCAAAAAAAATTC
* *
91720909 CCAAAACAAACCCAACCACATGCAATGCATAATTGAATACCAATCATGTACCATAGT-ATGCTAA
387 CCAAAACAAACCCAACCACATGTAATGCATAATTGAATACCAATCATGTAGCATA-TCATGCTAA
91720973 ACAGTACAATA
451 ACAGTACAATA
91720984 ACAGTAACAA
Statistics
Matches: 3268, Mismatches: 477, Indels: 153
0.84 0.12 0.04
Matches are distributed among these distances:
466 252 0.08
467 1 0.00
469 57 0.02
470 83 0.03
471 1 0.00
476 76 0.02
477 9 0.00
478 78 0.02
479 739 0.23
480 420 0.13
481 175 0.05
482 357 0.11
483 572 0.18
484 79 0.02
485 239 0.07
486 4 0.00
487 1 0.00
488 2 0.00
489 99 0.03
490 24 0.01
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (479 bp):
CAATCATGTAGCATAGCATGCTAAACAGTACAGTAACAGTAACAATTGTTTAATCAACATGCTTT
AGTATAACAGTTTTGGAGACACGATTTTCATGTAATCACTATTAACAATAGCAATCAAGGCATGC
TTACATGCAACCAATTTCATATCAATCACGATCATATAATCAATTAATCAGGAATGAAGTCTTAA
TCATGATTTTAGGGCTCTAACATGTAGGGAATTACTCAGGGACTAAAATGATACATATCCAAAAT
AGTGGAGAAACAGTGGAATAAGGACTCACACGGCTGTGTGGGAGGCCGTGAGAGGGGTTTAAACC
GTGTTACTGAGTTACATAGCTGTGTAACTCACTATGACCGTGTGCAAATCAAAAAAAATTCCCAA
AACAAACCCAACCACATGTAATGCATAATTGAATACCAATCATGTAGCATATCATGCTAAACAGT
ACAATATCGGTAAGAGAATCATAT
Found at i:91726407 original size:17 final size:17
Alignment explanation
Indices: 91726385--91726422 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
91726375 GTAACACCCC
91726385 AGTTCTGGCGGATATAA
1 AGTTCTGGCGGATATAA
91726402 AGTTCTGGCGGATATAA
1 AGTTCTGGCGGATATAA
91726419 AGTT
1 AGTT
91726423 TTGGGTGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.29, C:0.11, G:0.29, T:0.32
Consensus pattern (17 bp):
AGTTCTGGCGGATATAA
Found at i:91731616 original size:15 final size:14
Alignment explanation
Indices: 91731598--91731628 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
91731588 TTAATTTATT
91731598 TAATAATAATGCTAA
1 TAATAATAAT-CTAA
91731613 TAATAATAATCTAA
1 TAATAATAATCTAA
91731627 TA
1 TA
91731629 TAAAACCATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.35
Consensus pattern (14 bp):
TAATAATAATCTAA
Found at i:91731639 original size:21 final size:20
Alignment explanation
Indices: 91731615--91731683 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 20
91731605 AATGCTAATA
91731615 ATAATAATCTAATATAAAACC
1 ATAATAAT-TAATATAAAACC
* **
91731636 ATAAT-GTTAAT-TAATAATT
1 ATAATAATTAATATAA-AACC
91731655 ATAATAATTTAATATAAAACC
1 ATAATAA-TTAATATAAAACC
91731676 ATAATAAT
1 ATAATAAT
91731684 AATCATTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
18 3 0.08
19 11 0.29
20 2 0.05
21 19 0.50
22 3 0.08
ACGTcount: A:0.55, C:0.07, G:0.01, T:0.36
Consensus pattern (20 bp):
ATAATAATTAATATAAAACC
Found at i:91736681 original size:20 final size:19
Alignment explanation
Indices: 91736651--91736700 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
91736641 TATTAATCAT
*
91736651 ATTTTATTAAATAAAAATA
1 ATTTTAATAAATAAAAATA
*
91736670 ATATTTAATAAATAAAATTA
1 AT-TTTAATAAATAAAAATA
91736690 ATTTT-ATAAAT
1 ATTTTAATAAAT
91736701 TTTATTAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 6 0.21
19 5 0.18
20 17 0.61
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATTTTAATAAATAAAAATA
Found at i:91737970 original size:26 final size:26
Alignment explanation
Indices: 91737934--91737985 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
91737924 TAAATAAAGA
91737934 TATGCATGAAGATCGAAACAAGTTTG
1 TATGCATGAAGATCGAAACAAGTTTG
91737960 TATGCATGAAGATCGAAACAAGTTTG
1 TATGCATGAAGATCGAAACAAGTTTG
91737986 ATCTACCTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (26 bp):
TATGCATGAAGATCGAAACAAGTTTG
Found at i:91750553 original size:33 final size:33
Alignment explanation
Indices: 91750480--91750553 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
91750470 CTTATATGGG
* * *
91750480 GGAGTTGGTGCTTTAGTTGGTGGTGCTGGTGCT
1 GGAGTTGGTGCTTTAGTTGGGGGTGCTGGAGCA
*
91750513 GGAGTTGGTGCTTTGGTTGGGGGTGCTGGAGCA
1 GGAGTTGGTGCTTTAGTTGGGGGTGCTGGAGCA
*
91750546 GGTGTTGG
1 GGAGTTGG
91750554 GGGCTTATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.07, C:0.08, G:0.50, T:0.35
Consensus pattern (33 bp):
GGAGTTGGTGCTTTAGTTGGGGGTGCTGGAGCA
Found at i:91750665 original size:48 final size:48
Alignment explanation
Indices: 91750543--91750790 Score: 262
Period size: 48 Copynumber: 5.0 Consensus size: 48
91750533 GGGTGCTGGA
* * * * ** *
91750543 GCAGGTGTTGGGGGCTTATATGGGGGTGTAGGGGCCTTGACTGGAGGT
1 GCAGGTGCTGGGGGCTTATATGGTGGAGTAGGAGCCTTGGTTGGTGGT
* * *
91750591 GCCGGTGCGGGAGTAGGGGGTTTATATGGGGGAGTAGGAGCCTTGGTTGGTGGT
1 GCAGGTGC-----T-GGGGGCTTATATGGTGGAGTAGGAGCCTTGGTTGGTGGT
* *
91750645 GCTGGTGCTGGGGGCTTATATGGTGGAGTAGGAGCCTTGGTTGGTGGC
1 GCAGGTGCTGGGGGCTTATATGGTGGAGTAGGAGCCTTGGTTGGTGGT
* *
91750693 GCAGGAGCTGGGGGCTTATATGGTGGAGTAGGAGCCTTGGTTGGTGGC
1 GCAGGTGCTGGGGGCTTATATGGTGGAGTAGGAGCCTTGGTTGGTGGT
* * * * * *
91750741 GCAGGAGCTGGTGGTTTATATGGTGGAGTGGGGGCCTTGGTTGGGGGT
1 GCAGGTGCTGGGGGCTTATATGGTGGAGTAGGAGCCTTGGTTGGTGGT
91750789 GC
1 GC
91750791 TGGAGTTGGG
Statistics
Matches: 174, Mismatches: 20, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
48 132 0.76
49 1 0.01
53 1 0.01
54 40 0.23
ACGTcount: A:0.12, C:0.11, G:0.50, T:0.27
Consensus pattern (48 bp):
GCAGGTGCTGGGGGCTTATATGGTGGAGTAGGAGCCTTGGTTGGTGGT
Found at i:91750764 original size:27 final size:26
Alignment explanation
Indices: 91750686--91750766 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 26
91750676 GAGCCTTGGT
*
91750686 TGGTGGCGCAGGAGCTGGGGGCTTATA
1 TGGTGGCGCAGGAGCTGGTGG-TTATA
* *
91750713 TGGTGGAGTAGGAGCCT--TGG---T-
1 TGGTGGCGCAGGAG-CTGGTGGTTATA
91750734 TGGTGGCGCAGGAGCTGGTGGTTTATA
1 TGGTGGCGCAGGAGCTGGTGG-TTATA
91750761 TGGTGG
1 TGGTGG
91750767 AGTGGGGGCC
Statistics
Matches: 41, Mismatches: 5, Indels: 16
0.66 0.08 0.26
Matches are distributed among these distances:
20 2 0.05
21 12 0.29
22 4 0.10
26 3 0.07
27 18 0.44
28 2 0.05
ACGTcount: A:0.14, C:0.11, G:0.48, T:0.27
Consensus pattern (26 bp):
TGGTGGCGCAGGAGCTGGTGGTTATA
Found at i:91750816 original size:27 final size:27
Alignment explanation
Indices: 91750764--91750825 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
91750754 GTTTATATGG
* *
91750764 TGGAGTGGGGGCCTTGGTTGGGGGTGC
1 TGGAGTGGGGGCCTTGGTCGGCGGTGC
*
91750791 TGGAGTTGGGGCCTT-GTACGGCGGTGC
1 TGGAGTGGGGGCCTTGGT-CGGCGGTGC
*
91750818 CGGAGTGG
1 TGGAGTGG
91750826 TGGGAGGCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 2 0.07
27 27 0.93
ACGTcount: A:0.06, C:0.15, G:0.55, T:0.24
Consensus pattern (27 bp):
TGGAGTGGGGGCCTTGGTCGGCGGTGC
Found at i:91752606 original size:22 final size:23
Alignment explanation
Indices: 91752572--91752614 Score: 79
Period size: 22 Copynumber: 1.9 Consensus size: 23
91752562 TAATAAAAAA
91752572 GCTAATTTTTTTCAATTTCATTT
1 GCTAATTTTTTTCAATTTCATTT
91752595 GCTAA-TTTTTTCAATTTCAT
1 GCTAATTTTTTTCAATTTCAT
91752615 ACTTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.23, C:0.14, G:0.05, T:0.58
Consensus pattern (23 bp):
GCTAATTTTTTTCAATTTCATTT
Found at i:91756367 original size:14 final size:14
Alignment explanation
Indices: 91756344--91756376 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
91756334 TTATATTAGT
91756344 ATAA-TAAAATAAA
1 ATAATTAAAATAAA
*
91756357 ATAATTAAAATATA
1 ATAATTAAAATAAA
91756371 ATAATT
1 ATAATT
91756377 CTATTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAATTAAAATAAA
Found at i:91756451 original size:16 final size:16
Alignment explanation
Indices: 91756430--91756461 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
91756420 AATAAAAAAG
91756430 TTTATATAATTAATAA
1 TTTATATAATTAATAA
91756446 TTTATATAATTAATAA
1 TTTATATAATTAATAA
91756462 ACAGTAATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTATATAATTAATAA
Found at i:91769708 original size:43 final size:43
Alignment explanation
Indices: 91769658--91769739 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 43
91769648 ATTTCATTTC
**
91769658 TCATCTCATAATCATTTCTCATATTTGTCATTTCAATATTTTT
1 TCATCTCATAATCATTTCTCATATTTCCCATTTCAATATTTTT
* *
91769701 TCATCTCATATTCATTTCTCATCTTTCCCATTTCAATAT
1 TCATCTCATAATCATTTCTCATATTTCCCATTTCAATAT
91769740 CAATCACATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.24, C:0.23, G:0.01, T:0.51
Consensus pattern (43 bp):
TCATCTCATAATCATTTCTCATATTTCCCATTTCAATATTTTT
Found at i:91775137 original size:21 final size:22
Alignment explanation
Indices: 91775108--91775154 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
91775098 CAGAAGGAGT
*
91775108 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
91775130 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
91775151 GAGT
1 GAGT
91775155 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:91779199 original size:15 final size:15
Alignment explanation
Indices: 91779179--91779209 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
91779169 TCTTAGTAAA
91779179 TTTAAAATTTAGTTT
1 TTTAAAATTTAGTTT
91779194 TTTAAAATTTAGTTT
1 TTTAAAATTTAGTTT
91779209 T
1 T
91779210 ATACTTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (15 bp):
TTTAAAATTTAGTTT
Found at i:91786266 original size:43 final size:44
Alignment explanation
Indices: 91786207--91786289 Score: 132
Period size: 43 Copynumber: 1.9 Consensus size: 44
91786197 ATGTCATTCT
*
91786207 ACACACTTAAAGCCCCAAACACTATTAATAACCAAGGCCTAAAA
1 ACACACTTAAAGCCCCAAACACTATTAAAAACCAAGGCCTAAAA
* *
91786251 ACACATTTAAA-CCCCAAACACTATTAAAAACGAAGGCCT
1 ACACACTTAAAGCCCCAAACACTATTAAAAACCAAGGCCT
91786290 TATGCAATTG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
43 26 0.72
44 10 0.28
ACGTcount: A:0.47, C:0.29, G:0.07, T:0.17
Consensus pattern (44 bp):
ACACACTTAAAGCCCCAAACACTATTAAAAACCAAGGCCTAAAA
Found at i:91788883 original size:13 final size:13
Alignment explanation
Indices: 91788862--91788891 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
91788852 CTTAAACTAA
*
91788862 ACTTTTCAAAAAC
1 ACTTCTCAAAAAC
91788875 ACTTCTCAAAAAC
1 ACTTCTCAAAAAC
91788888 ACTT
1 ACTT
91788892 TTTCACAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.27, G:0.00, T:0.30
Consensus pattern (13 bp):
ACTTCTCAAAAAC
Found at i:91804130 original size:131 final size:130
Alignment explanation
Indices: 91803872--91804204 Score: 451
Period size: 131 Copynumber: 2.6 Consensus size: 130
91803862 GAAAAATCGA
* * ** * * *
91803872 AACCCAGCACGATAGAGCACGATTCCCTGAATTTTCAAACTTTGAACATTGCCTT-ATTTT--AG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAG
** * * *
91803934 AATTTAGAAAACATGAGTGAAATTCTAAAGGAATATTCGATTGTTTTGAACAAATGAGGAATTGC
66 AATTTTTAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGAGGAATTGC
* *
91803999 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCGAACATCAAACATTGCCTTCGTTTTAAAG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAG
91804064 AATTTTTAAAGACATGAGTGAAATTCCAAAGGAATACTT-GATTATTTTGAACAAACG-GGAAAT
66 AATTTTTAAA-ACATGAGTGAAATTCCAAAGGAATA-TTCGATTATTTTGAACAAACGAGG-AAT
91804127 TGC
128 TGC
* * *
91804130 AACCTAGCACGATAGGGCACGATTCCCCGAATTGCCTAATATCGAACATTGCCTTCGTTTTAAAG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAG
91804195 AATTTTTAAA
66 AATTTTTAAA
91804205 TGAATAATTA
Statistics
Matches: 182, Mismatches: 18, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
127 47 0.26
128 4 0.02
130 12 0.07
131 117 0.64
132 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (130 bp):
AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAG
AATTTTTAAAACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGAGGAATTGC
Found at i:91804549 original size:53 final size:53
Alignment explanation
Indices: 91804487--91804590 Score: 208
Period size: 53 Copynumber: 2.0 Consensus size: 53
91804477 GATATACAAT
91804487 AATGTATGGCACCATATAAATCAATCCACAAAACATGTACAAAACAAAATAAC
1 AATGTATGGCACCATATAAATCAATCCACAAAACATGTACAAAACAAAATAAC
91804540 AATGTATGGCACCATATAAATCAATCCACAAAACATGTACAAAACAAAATA
1 AATGTATGGCACCATATAAATCAATCCACAAAACATGTACAAAACAAAATA
91804591 GAATTTAGAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.53, C:0.20, G:0.08, T:0.19
Consensus pattern (53 bp):
AATGTATGGCACCATATAAATCAATCCACAAAACATGTACAAAACAAAATAAC
Found at i:91808205 original size:18 final size:18
Alignment explanation
Indices: 91808171--91808205 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
91808161 AACAGAGCAG
91808171 ATACAAAACATATATCAC
1 ATACAAAACATATATCAC
91808189 ATACAGAAACATA-ATCA
1 ATACA-AAACATATATCA
91808206 AATGCAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.57, C:0.20, G:0.03, T:0.20
Consensus pattern (18 bp):
ATACAAAACATATATCAC
Found at i:91817721 original size:33 final size:32
Alignment explanation
Indices: 91817680--91817747 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 32
91817670 AATAAAAGAA
91817680 GAAAGCCTCCAATAATCCACTTAGATTGCTCT
1 GAAAGCCTCCAATAATCCACTTAGATTGCTCT
*
91817712 GAAAGGCCTCCAATAATCCACTTAGATTGCTTT
1 GAAA-GCCTCCAATAATCCACTTAGATTGCTCT
91817745 GAA
1 GAA
91817748 TCAAAAGGGT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 4 0.12
33 30 0.88
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (32 bp):
GAAAGCCTCCAATAATCCACTTAGATTGCTCT
Found at i:91822686 original size:28 final size:26
Alignment explanation
Indices: 91822655--91822725 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 26
91822645 ATTAAATTAC
*
91822655 TAAAATATTATTTATTATATTTAAAAGT
1 TAAAA-ATTATTTATTATAATT-AAAGT
*
91822683 TAAAAA-TATTTCATGTATAATTAAATT
1 TAAAAATTATTT-AT-TATAATTAAAGT
*
91822710 TAAAAATAATTTATTA
1 TAAAAATTATTTATTA
91822726 GTTATAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
26 7 0.19
27 15 0.41
28 15 0.41
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (26 bp):
TAAAAATTATTTATTATAATTAAAGT
Found at i:91830493 original size:242 final size:242
Alignment explanation
Indices: 91830068--91830556 Score: 942
Period size: 242 Copynumber: 2.0 Consensus size: 242
91830058 GGCTCATTCA
91830068 CAGTACATGGCTTCCGGGGTCTATCTAAATTTTCACAAGACTTATTCTGCCAATTAACAGCATCC
1 CAGTACATGGCTTCCGGGGTCTATCTAAATTTTCACAAGACTTATTCTGCCAATTAACAGCATCC
* *
91830133 CCTGGAAAACTACTTGCACCTGTATCACCTTTCTCGTGCAGAGATCCAAAATCTTCATCCAAGTT
66 CCCGGAAAACTACTTGCACCTGTATCACCTTTCTCATGCAGAGATCCAAAATCTTCATCCAAGTT
91830198 TTCTCCTAAGTTTTTTGATTCAATAACATCAGAAGGAAAAGAATTAGATTTTTCAACACCTACAT
131 TTCTCCTAAGTTTTTTGATTCAATAACATCAGAAGGAAAAGAATTAGATTTTTCAACACCTACAT
91830263 CTGTTAGACTTCTCCTTATTGCCTCCTGTAGATCAGACTCCTCTTCC
196 CTGTTAGACTTCTCCTTATTGCCTCCTGTAGATCAGACTCCTCTTCC
*
91830310 CAGTACATGGCTTCTGGGGTCTATCTAAATTTTCACAAGACTTATTCTGCCAATTAACAGCATCC
1 CAGTACATGGCTTCCGGGGTCTATCTAAATTTTCACAAGACTTATTCTGCCAATTAACAGCATCC
*
91830375 CCCGGAAAACTACTTGCACCTGTATCACCTTTCTCATGCAGAGATTCAAAATCTTCATCCAAGTT
66 CCCGGAAAACTACTTGCACCTGTATCACCTTTCTCATGCAGAGATCCAAAATCTTCATCCAAGTT
91830440 TTCTCCTAAGTTTTTTGATTCAATAACATCAGAAGGAAAAGAATTAGATTTTTCAACACCTACAT
131 TTCTCCTAAGTTTTTTGATTCAATAACATCAGAAGGAAAAGAATTAGATTTTTCAACACCTACAT
91830505 CTGTTAGACTTCTCCTTATTGCCTCCTGTAGATCAGACTCCTCTTCC
196 CTGTTAGACTTCTCCTTATTGCCTCCTGTAGATCAGACTCCTCTTCC
91830552 CAGTA
1 CAGTA
91830557 ACCTTTAGAG
Statistics
Matches: 243, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
242 243 1.00
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (242 bp):
CAGTACATGGCTTCCGGGGTCTATCTAAATTTTCACAAGACTTATTCTGCCAATTAACAGCATCC
CCCGGAAAACTACTTGCACCTGTATCACCTTTCTCATGCAGAGATCCAAAATCTTCATCCAAGTT
TTCTCCTAAGTTTTTTGATTCAATAACATCAGAAGGAAAAGAATTAGATTTTTCAACACCTACAT
CTGTTAGACTTCTCCTTATTGCCTCCTGTAGATCAGACTCCTCTTCC
Found at i:91835080 original size:24 final size:26
Alignment explanation
Indices: 91835044--91835094 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
91835034 TTTTAATGTA
91835044 TTAGAAAACTTTA-TT-TTAGTATTTT
1 TTAGAAAACTTTAGTTATTA-TATTTT
*
91835069 TTAGTAAA-TTTAGTTATTATATTTT
1 TTAGAAAACTTTAGTTATTATATTTT
91835094 T
1 T
91835095 AAAATAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 4 0.17
25 16 0.70
26 3 0.13
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (26 bp):
TTAGAAAACTTTAGTTATTATATTTT
Found at i:91837086 original size:39 final size:39
Alignment explanation
Indices: 91837037--91837112 Score: 152
Period size: 39 Copynumber: 1.9 Consensus size: 39
91837027 CATTAAAAGT
91837037 AGTGATTAATTGTCCTTAGTTGCTCACCTTCGAAATTAA
1 AGTGATTAATTGTCCTTAGTTGCTCACCTTCGAAATTAA
91837076 AGTGATTAATTGTCCTTAGTTGCTCACCTTCGAAATT
1 AGTGATTAATTGTCCTTAGTTGCTCACCTTCGAAATT
91837113 GACACAGATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.39
Consensus pattern (39 bp):
AGTGATTAATTGTCCTTAGTTGCTCACCTTCGAAATTAA
Found at i:91844031 original size:17 final size:18
Alignment explanation
Indices: 91844010--91844049 Score: 73
Period size: 17 Copynumber: 2.3 Consensus size: 18
91844000 ATAATATATA
91844010 TACATATATATATAATGC
1 TACATATATATATAATGC
91844028 -ACATATATATATAATGC
1 TACATATATATATAATGC
91844045 TACAT
1 TACAT
91844050 TGTATTGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (18 bp):
TACATATATATATAATGC
Found at i:91845879 original size:23 final size:23
Alignment explanation
Indices: 91845853--91845898 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
91845843 GGTTAAGCTA
91845853 TAATTGAACCAGATAAATTGTTG
1 TAATTGAACCAGATAAATTGTTG
91845876 TAATTGAACCAGATAAATTGTTG
1 TAATTGAACCAGATAAATTGTTG
91845899 AGTAAAAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (23 bp):
TAATTGAACCAGATAAATTGTTG
Found at i:91848375 original size:21 final size:21
Alignment explanation
Indices: 91848347--91848432 Score: 109
Period size: 21 Copynumber: 4.1 Consensus size: 21
91848337 CCTGATCAGT
* *
91848347 ATACGACACATAAAGTGCCTA
1 ATACGACACACAAAGTGCCTG
* *
91848368 AAACGACACACAAGGTGCCTG
1 ATACGACACACAAAGTGCCTG
* *
91848389 ATACGACACACGAGGTGCCTG
1 ATACGACACACAAAGTGCCTG
*
91848410 ATACGACACATAAAGTGCCTG
1 ATACGACACACAAAGTGCCTG
91848431 AT
1 AT
91848433 CGATAAAGCC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.37, C:0.26, G:0.21, T:0.16
Consensus pattern (21 bp):
ATACGACACACAAAGTGCCTG
Found at i:91848744 original size:21 final size:22
Alignment explanation
Indices: 91848705--91848746 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
91848695 ATATCACAAT
91848705 CTCATATATTCATATCAATTTC
1 CTCATATATTCATATCAATTTC
91848727 CTCATAT-TTCCA-ATCAATTT
1 CTCATATATT-CATATCAATTT
91848747 ATTTTTCAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.31, C:0.24, G:0.00, T:0.45
Consensus pattern (22 bp):
CTCATATATTCATATCAATTTC
Found at i:91848827 original size:15 final size:15
Alignment explanation
Indices: 91848802--91848855 Score: 81
Period size: 15 Copynumber: 3.5 Consensus size: 15
91848792 TCATATATAT
91848802 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
91848818 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
91848833 AATAATTTCAATCAA
1 TATAAATTCAATCAA
91848848 TATAAATT
1 TATAAATT
91848856 TAATAAATTC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 30 0.88
16 4 0.12
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:91850307 original size:21 final size:20
Alignment explanation
Indices: 91850271--91850328 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 20
91850261 CATACAATTG
91850271 TTAAAATAATATTATAATATCA
1 TTAAAATAA-ATTATAATAT-A
*
91850293 TTAATATAAATTATAATATA
1 TTAAAATAAATTATAATATA
*
91850313 ATAAAATAAATATATA
1 TTAAAATAAAT-TATA
91850329 GTCTTATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 10 0.31
21 14 0.44
22 8 0.25
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
TTAAAATAAATTATAATATA
Found at i:91850511 original size:19 final size:22
Alignment explanation
Indices: 91850487--91850533 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 22
91850477 ATCCTTTCCA
91850487 CTAATTACT-CTTAATT-AAG-
1 CTAATTACTACTTAATTAAAGT
*
91850506 CTAATT-TTACTTAATTAAAGT
1 CTAATTACTACTTAATTAAAGT
91850527 CTAATTA
1 CTAATTA
91850534 ACCACTCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 13 0.57
20 3 0.13
21 6 0.26
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.45
Consensus pattern (22 bp):
CTAATTACTACTTAATTAAAGT
Found at i:91851344 original size:13 final size:13
Alignment explanation
Indices: 91851326--91851350 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91851316 TTTTAAATGA
91851326 ACATATACAATAT
1 ACATATACAATAT
91851339 ACATATACAATA
1 ACATATACAATA
91851351 AAATACATGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (13 bp):
ACATATACAATAT
Found at i:91851718 original size:17 final size:19
Alignment explanation
Indices: 91851696--91851734 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
91851686 TATATAAAAC
91851696 ATAATA-CTAA-AATATAT
1 ATAATATCTAAGAATATAT
*
91851713 ATAATATGTAAGAATATAT
1 ATAATATCTAAGAATATAT
91851732 ATA
1 ATA
91851735 TGCAATAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 3 0.16
19 10 0.53
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (19 bp):
ATAATATCTAAGAATATAT
Found at i:91851851 original size:20 final size:20
Alignment explanation
Indices: 91851811--91851851 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
91851801 TATGATATTA
* *
91851811 AAAGTATGTATACGTAGTAT
1 AAAGAATGTATACGTAATAT
*
91851831 AAAGAATGTATATGTAATAT
1 AAAGAATGTATACGTAATAT
91851851 A
1 A
91851852 GTATTAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.02, G:0.17, T:0.34
Consensus pattern (20 bp):
AAAGAATGTATACGTAATAT
Found at i:91852025 original size:16 final size:18
Alignment explanation
Indices: 91851985--91852031 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
91851975 AATATTTAAA
* *
91851985 AATAATAATAGTAAATAT
1 AATATTAATATTAAATAT
91852003 AATATTAATATTAAATA-
1 AATATTAATATTAAATAT
91852020 AA-ATTAATATTA
1 AATATTAATATTA
91852032 CAAATTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 10 0.37
17 2 0.07
18 15 0.56
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
AATATTAATATTAAATAT
Found at i:91857485 original size:46 final size:46
Alignment explanation
Indices: 91857430--91857657 Score: 305
Period size: 46 Copynumber: 5.0 Consensus size: 46
91857420 AGTGTGCTCT
91857430 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
91857476 CTAATATGAAATGTGTAAGACCATGGTTGAAAGATACGATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
91857522 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * ** *
91857568 GTGACATGAAAAGAATAAGACCATGGTTGAAAAATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
91857614 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
91857658 TCACGTCAAA
Statistics
Matches: 162, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.01
46 161 0.99
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:91857963 original size:23 final size:25
Alignment explanation
Indices: 91857918--91857964 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
91857908 AATAAATATA
*
91857918 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
91857943 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
91857965 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:91873253 original size:14 final size:13
Alignment explanation
Indices: 91873229--91873262 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
91873219 AATTAATTAT
*
91873229 TAATTTAATTAGA
1 TAATTTAATTAAA
91873242 TAATTCTAATTAAA
1 TAATT-TAATTAAA
91873256 TAATTTA
1 TAATTTA
91873263 TATAACTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (13 bp):
TAATTTAATTAAA
Found at i:91882515 original size:28 final size:29
Alignment explanation
Indices: 91882463--91882533 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 29
91882453 CAATGTTAAC
* *
91882463 TATTTTTGAATTTTTATTAACTTTTTATA
1 TATTTTTGAATTTTAAATAACTTTTTATA
*
91882492 T-TTTTTGAATTTTAAATATA-TTTTTTTA
1 TATTTTTGAATTTTAAATA-ACTTTTTATA
*
91882520 TATTTTTAAATTTT
1 TATTTTTGAATTTT
91882534 TTTGTTGACA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 23 0.64
29 13 0.36
ACGTcount: A:0.28, C:0.01, G:0.03, T:0.68
Consensus pattern (29 bp):
TATTTTTGAATTTTAAATAACTTTTTATA
Found at i:91888385 original size:19 final size:19
Alignment explanation
Indices: 91888361--91888408 Score: 80
Period size: 19 Copynumber: 2.5 Consensus size: 19
91888351 TTTTGTCACT
91888361 GTATTTCATTGTTTTGATA
1 GTATTTCATTGTTTTGATA
91888380 GTATTTCATTGTTTTGATA
1 GTATTTCATTGTTTTGATA
91888399 -TCATTTCATT
1 GT-ATTTCATT
91888409 ATTATATTGC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 1 0.04
19 27 0.96
ACGTcount: A:0.21, C:0.08, G:0.12, T:0.58
Consensus pattern (19 bp):
GTATTTCATTGTTTTGATA
Found at i:91888870 original size:19 final size:19
Alignment explanation
Indices: 91888846--91888883 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
91888836 TTTTAAAAAG
*
91888846 TTTTTTTAAATTATTTTAA
1 TTTTTTAAAATTATTTTAA
91888865 TTTTTTAAAATTATTTTAA
1 TTTTTTAAAATTATTTTAA
91888884 AAAATTGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTTTAAAATTATTTTAA
Found at i:91893064 original size:103 final size:105
Alignment explanation
Indices: 91892933--91893224 Score: 286
Period size: 103 Copynumber: 2.8 Consensus size: 105
91892923 TATAGTTATT
* *
91892933 TATTTTGTTAATAATTTATGGGATTAGGTTACAAATTGTTAGTGTTTAGTAGTTTAG-GATTTTG
1 TATTTTGTTAGTAATTTAT--GATTAGGTTATAAATTGTTAGTGTTTAGTAGTTTAGTG-TTTTG
*****
91892997 TGATTTTTTAGTAATGTAATTTTTTTTTTTAA-AA-TTATAGC
63 TGATTTTTTAGTAATGTAATTTTTAAAAATAATAATTTATAGC
* * * *
91893038 TATTTTGTTAGTAATTTATAATTAGGTTATATAAATTTTTAATGTTTAGT--TAT-GTGTTTTGT
1 TATTTTGTTAGTAATTTATGATTAGG-T-TATAAATTGTTAGTGTTTAGTAGTTTAGTGTTTTGT
* *
91893100 GATTTTTTAGTAATGT-A-TTTAAAAAATAATAATTTTATAGT
64 GATTTTTTAGTAATGTAATTTTTAAAAATAATAA-TTTATAGC
* *
91893141 TATTTTGTTAGTAACTTATGATTAGGTTATATAATTTGTTAGT-CTT--TAGTTTAGTGTTTTGT
1 TATTTTGTTAGTAATTTATGATTAGGTTATA-AA-TTGTTAGTGTTTAGTAGTTTAGTGTTTTGT
91893203 GATTTTTT--TAATGTAATTTTTA
64 GATTTTTTAGTAATGTAATTTTTA
91893225 TATAATGTTT
Statistics
Matches: 154, Mismatches: 20, Indels: 28
0.76 0.10 0.14
Matches are distributed among these distances:
100 7 0.05
101 13 0.08
102 31 0.20
103 66 0.43
104 1 0.01
105 36 0.23
ACGTcount: A:0.28, C:0.01, G:0.15, T:0.55
Consensus pattern (105 bp):
TATTTTGTTAGTAATTTATGATTAGGTTATAAATTGTTAGTGTTTAGTAGTTTAGTGTTTTGTGA
TTTTTTAGTAATGTAATTTTTAAAAATAATAATTTATAGC
Found at i:91893317 original size:27 final size:27
Alignment explanation
Indices: 91893294--91893348 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
91893284 GACAGGCCCC
**
91893294 ACCAGTCGCGCCTGTCAGATAGGCACA
1 ACCAGTCGCGCCTACCAGATAGGCACA
*
91893321 ACCAGTCGCGCCTACCAGATAGACACA
1 ACCAGTCGCGCCTACCAGATAGGCACA
91893348 A
1 A
91893349 TCTAGCCGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.31, C:0.35, G:0.22, T:0.13
Consensus pattern (27 bp):
ACCAGTCGCGCCTACCAGATAGGCACA
Found at i:91893427 original size:26 final size:26
Alignment explanation
Indices: 91893398--91893457 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
91893388 TATATTGATC
*
91893398 TAAAAAATAAAGTAATAATATTTT-AT-
1 TAAAAAATAAA--AAAAATATTTTAATA
*
91893424 TAAAAAACAAAAAAAATATTTTAATA
1 TAAAAAATAAAAAAAATATTTTAATA
91893450 TAAAAAAT
1 TAAAAAAT
91893458 GGAGTCGCGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 10 0.34
25 2 0.07
26 17 0.59
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (26 bp):
TAAAAAATAAAAAAAATATTTTAATA
Found at i:91896798 original size:13 final size:14
Alignment explanation
Indices: 91896780--91896809 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
91896770 AAGTGAATGC
91896780 TTTACT-TTTTTTT
1 TTTACTCTTTTTTT
91896793 TTTACTCTTTTTTT
1 TTTACTCTTTTTTT
91896807 TTT
1 TTT
91896810 TTTTGGTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTACTCTTTTTTT
Found at i:91902491 original size:20 final size:21
Alignment explanation
Indices: 91902454--91902493 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
91902444 AAAATGTGTT
91902454 TAATCAATTAATACTAAAATA
1 TAATCAATTAATACTAAAATA
91902475 TAAT-AATTAATTA-TAAAAT
1 TAATCAATTAA-TACTAAAAT
91902494 GCTTAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATCAATTAATACTAAAATA
Found at i:91911160 original size:62 final size:62
Alignment explanation
Indices: 91911073--91911191 Score: 220
Period size: 62 Copynumber: 1.9 Consensus size: 62
91911063 AACCAGTACT
*
91911073 ATTAAAAATTTCATCTATTAAAAACTAGTGTTGTTTCTCTGGTTATTCCGTCAACCACGCGA
1 ATTAAAAATTTCATCTATTAAAAACTAGTGTTGTTTCTCTCGTTATTCCGTCAACCACGCGA
*
91911135 ATTAAAAATTTCATCTATTAAAAACTAGTGTTGTTTCTCTCGTTATTCCTTCAACCA
1 ATTAAAAATTTCATCTATTAAAAACTAGTGTTGTTTCTCTCGTTATTCCGTCAACCA
91911192 TGCCAATTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.39
Consensus pattern (62 bp):
ATTAAAAATTTCATCTATTAAAAACTAGTGTTGTTTCTCTCGTTATTCCGTCAACCACGCGA
Found at i:91912832 original size:14 final size:14
Alignment explanation
Indices: 91912813--91912843 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
91912803 GTTCAAGTTC
*
91912813 GTTCGAGATTTAGG
1 GTTCGAAATTTAGG
91912827 GTTCGAAATTTAGG
1 GTTCGAAATTTAGG
91912841 GTT
1 GTT
91912844 TGGGTTCAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.06, G:0.32, T:0.39
Consensus pattern (14 bp):
GTTCGAAATTTAGG
Found at i:91916300 original size:35 final size:36
Alignment explanation
Indices: 91916251--91916329 Score: 133
Period size: 35 Copynumber: 2.2 Consensus size: 36
91916241 ATGTTTTGGA
*
91916251 TACTCCAAGACCTGAAGAGAATGAAAACGAATCTAT
1 TACTGCAAGACCTGAAGAGAATGAAAACGAATCTAT
91916287 TACTGCAA-ACCTGAAGAGAATGAAAACGAATCTAT
1 TACTGCAAGACCTGAAGAGAATGAAAACGAATCTAT
*
91916322 TGCTGCAA
1 TACTGCAA
91916330 CCCGAGAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
35 34 0.83
36 7 0.17
ACGTcount: A:0.43, C:0.19, G:0.18, T:0.20
Consensus pattern (36 bp):
TACTGCAAGACCTGAAGAGAATGAAAACGAATCTAT
Found at i:91916469 original size:78 final size:77
Alignment explanation
Indices: 91916362--91916515 Score: 272
Period size: 78 Copynumber: 2.0 Consensus size: 77
91916352 CAATGCTGAT
* *
91916362 TACATGTGCATGGCCACATATTGAATGGTTTATCTGATGGTTTGTTTGACACTTACCAAAACGAG
1 TACATGTGCATGGCCACATATTGAATGGTTTATCTGATAGTTTGTTCGACACTTACCAAAACGAG
91916427 GTCACCGCTAAC
66 GTCACCGCTAAC
*
91916439 TACATGTGCATGGGCCACATATTGTATGGTTTATCTGATAGTTTGTTCGACACTTACCAAAACGA
1 TACATGTGCAT-GGCCACATATTGAATGGTTTATCTGATAGTTTGTTCGACACTTACCAAAACGA
91916504 GGTCACCGCTAA
65 GGTCACCGCTAA
91916516 AGAATTATGG
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
77 11 0.15
78 62 0.85
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (77 bp):
TACATGTGCATGGCCACATATTGAATGGTTTATCTGATAGTTTGTTCGACACTTACCAAAACGAG
GTCACCGCTAAC
Found at i:91919185 original size:125 final size:125
Alignment explanation
Indices: 91918958--91919189 Score: 333
Period size: 125 Copynumber: 1.9 Consensus size: 125
91918948 AAAACCTCTC
*
91918958 AAAATAAGGAAATACTTCGTGTTTGGAAATTCGAGAAATTATGCCCTAACGTGCTGGGTTTCGAT
1 AAAATAAGGAAATACTTCGTGTTTGGAAATTCGAGAAATCATGCCCTAACGTGCTGGGTTTCGAT
* * *
91919023 TTTCCGTTTGACCGAATAACTAAATATCCTTTCGAAATTTCATGCATATTTTCTTAAATT
66 TTACCGTTCGACCGAATAACCAAATATCCTTTCGAAATTTCATGCATATTTTCTTAAATT
* * * * *
91919083 AAAATGAGGCAATATTTTGTGTTTGGAAATTCGAGAAATCGTGCCC-AATCGTGCTGGGTTTCGA
1 AAAATAAGGAAATACTTCGTGTTTGGAAATTCGAGAAATCATGCCCTAA-CGTGCTGGGTTTCGA
* *
91919147 TTTACCGTTCGACC-AGATAGCCAAATATCCTTTTGAAATTTCA
65 TTTACCGTTCGACCGA-ATAACCAAATATCCTTTCGAAATTTCA
91919190 AATGCATGAG
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
124 3 0.03
125 91 0.97
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (125 bp):
AAAATAAGGAAATACTTCGTGTTTGGAAATTCGAGAAATCATGCCCTAACGTGCTGGGTTTCGAT
TTACCGTTCGACCGAATAACCAAATATCCTTTCGAAATTTCATGCATATTTTCTTAAATT
Found at i:91925647 original size:27 final size:28
Alignment explanation
Indices: 91925570--91925675 Score: 80
Period size: 28 Copynumber: 3.8 Consensus size: 28
91925560 AAATGATAAA
*
91925570 AAAAATTAATATTAAATAT-TAAAA-ATAT
1 AAAAATTAATA--AAATATATAAAACTTAT
* *
91925598 AAAAAGT-A-AAAATTTATATAAACTTAT
1 AAAAATTAATAAAATATATA-AAACTTAT
91925625 AAAAATTAATAAAATAT-TAAAACTT-T
1 AAAAATTAATAAAATATATAAAACTTAT
* *
91925651 CAATAAATTTATAAAAAATATAAAA
1 -AA-AAATTAATAAAATATATAAAA
91925676 AAATTCATAA
Statistics
Matches: 63, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
24 5 0.08
25 2 0.03
26 5 0.08
27 18 0.29
28 22 0.35
29 11 0.17
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (28 bp):
AAAAATTAATAAAATATATAAAACTTAT
Found at i:91925687 original size:10 final size:9
Alignment explanation
Indices: 91925589--91925737 Score: 65
Period size: 9 Copynumber: 15.9 Consensus size: 9
91925579 TATTAAATAT
91925589 TAAAAA-TA
1 TAAAAATTA
*
91925597 TAAAAAGTA
1 TAAAAATTA
*
91925606 -AAAATTTA
1 TAAAAATTA
*
91925614 TATAAACTTA
1 TA-AAAATTA
91925624 TAAAAATTA
1 TAAAAATTA
91925633 -ATAAAA-TA
1 TA-AAAATTA
*
91925641 TTAAAACTT-
1 -TAAAAATTA
91925650 TCAATAAATTTA
1 T-AA-AAA-TTA
91925662 TAAAAAATATA
1 T-AAAAAT-TA
*
91925673 AAAAAATTCA
1 TAAAAATT-A
91925683 TAAAAACTTA
1 TAAAAA-TTA
*
91925693 TAAATATTA
1 TAAAAATTA
**
91925702 TAAAGCTTA
1 TAAAAATTA
*
91925711 TGAATAATTA
1 T-AAAAATTA
**
91925721 TAAAGCTTA
1 TAAAAATTA
91925730 TAAAAATT
1 TAAAAATT
91925738 TTAATAAGAG
Statistics
Matches: 106, Mismatches: 20, Indels: 29
0.68 0.13 0.19
Matches are distributed among these distances:
8 16 0.15
9 41 0.39
10 37 0.35
11 9 0.08
12 3 0.03
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.34
Consensus pattern (9 bp):
TAAAAATTA
Found at i:91925704 original size:19 final size:18
Alignment explanation
Indices: 91925685--91925733 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
91925675 AAAATTCATA
91925685 AAAACTTATAAATATTAT
1 AAAACTTATAAATATTAT
* *
91925703 AAAGCTTATGAATAATTAT
1 AAAACTTATAAAT-ATTAT
*
91925722 AAAGCTTATAAA
1 AAAACTTATAAA
91925734 AATTTTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 11 0.41
19 16 0.59
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (18 bp):
AAAACTTATAAATATTAT
Found at i:91929241 original size:20 final size:20
Alignment explanation
Indices: 91929212--91929249 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
91929202 AAATATAAAT
91929212 ATTTTAAAAAATATTTATTA
1 ATTTTAAAAAATATTTATTA
* *
91929232 ATTTTTAAAATTATTTAT
1 ATTTTAAAAAATATTTAT
91929250 AAAATAAAAA
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:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTTAAAAAATATTTATTA
Found at i:91929556 original size:15 final size:15
Alignment explanation
Indices: 91929518--91929566 Score: 57
Period size: 14 Copynumber: 3.4 Consensus size: 15
91929508 AAATTGGAAA
*
91929518 AAAAAATT-AAGTAT
1 AAAAAATTAAAATAT
*
91929532 AGAAAA-TAAAATAT
1 AAAAAATTAAAATAT
*
91929546 AAAAAATTAAAATTT
1 AAAAAATTAAAATAT
91929561 AAAAAA
1 AAAAAA
91929567 GCACACGTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
13 1 0.03
14 15 0.52
15 13 0.45
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (15 bp):
AAAAAATTAAAATAT
Found at i:91932675 original size:24 final size:24
Alignment explanation
Indices: 91932640--91932688 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
91932630 GAGGATGACC
* *
91932640 CAGAATTGGCAA-TTGCTTTGATAG
1 CAGAATTAGCAACTTG-TTTCATAG
91932664 CAGAATTAGCAACTTGTTTCATAG
1 CAGAATTAGCAACTTGTTTCATAG
91932688 C
1 C
91932689 CATATCTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (24 bp):
CAGAATTAGCAACTTGTTTCATAG
Found at i:91935044 original size:19 final size:19
Alignment explanation
Indices: 91935020--91935056 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
91935010 TATATAAGAT
91935020 TTTAATCTT-TGTAAAAATG
1 TTTAAT-TTGTGTAAAAATG
91935039 TTTAATTTGTGTAAAAAT
1 TTTAATTTGTGTAAAAAT
91935057 TAGGTGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.38, C:0.03, G:0.11, T:0.49
Consensus pattern (19 bp):
TTTAATTTGTGTAAAAATG
Found at i:91935644 original size:20 final size:20
Alignment explanation
Indices: 91935615--91935657 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
91935605 AGTAAAAGTC
*
91935615 TAATGTGATATCAAAATTTT
1 TAATGAGATATCAAAATTTT
*
91935635 TAATGAGATATCAATATTTT
1 TAATGAGATATCAAAATTTT
91935655 TAA
1 TAA
91935658 GGTGAAACCG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (20 bp):
TAATGAGATATCAAAATTTT
Found at i:91935715 original size:20 final size:19
Alignment explanation
Indices: 91935668--91935715 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
91935658 GGTGAAACCG
* *
91935668 AAATTTCTAACCGTTACCA
1 AAATTTTTAACCGGTACCA
*
91935687 ACA-TTTTAACACGGTACCA
1 AAATTTTTAAC-CGGTACCA
91935706 AAATTTTTAA
1 AAATTTTTAA
91935716 AATGTGTTTG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 6 0.26
19 11 0.48
20 6 0.26
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.33
Consensus pattern (19 bp):
AAATTTTTAACCGGTACCA
Found at i:91936161 original size:12 final size:12
Alignment explanation
Indices: 91936144--91936169 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
91936134 ACTTATTTTT
91936144 TTCCTAAAACAA
1 TTCCTAAAACAA
91936156 TTCCTAAAACAA
1 TTCCTAAAACAA
91936168 TT
1 TT
91936170 ATTTATCCAA
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:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (12 bp):
TTCCTAAAACAA
Found at i:91938749 original size:20 final size:20
Alignment explanation
Indices: 91938723--91938768 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
91938713 CAATTATTCG
91938723 ATAACAGTCAGTATTTTTCA
1 ATAACAGTCAGTATTTTTCA
*
91938743 CTAACAGTCAGTATTTTTCA
1 ATAACAGTCAGTATTTTTCA
91938763 ATAACA
1 ATAACA
91938769 ATCATTTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (20 bp):
ATAACAGTCAGTATTTTTCA
Found at i:91938828 original size:22 final size:22
Alignment explanation
Indices: 91938784--91938828 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
91938774 TTAATCATTA
* **
91938784 TTATTCAGTATCAGTCATTTAT
1 TTATTCAGTAACAGTCAAATAT
91938806 TTATTCAGTAACAGTCAAATAT
1 TTATTCAGTAACAGTCAAATAT
91938828 T
1 T
91938829 CGGTAGCAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.44
Consensus pattern (22 bp):
TTATTCAGTAACAGTCAAATAT
Found at i:91938982 original size:6 final size:6
Alignment explanation
Indices: 91938963--91938997 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
91938953 ATACACCGTG
* *
91938963 ACAGTA ACAATA ACAGTA ACAGTA GCAGTA ACAGT
1 ACAGTA ACAGTA ACAGTA ACAGTA ACAGTA ACAGT
91938998 CAGATACAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (6 bp):
ACAGTA
Found at i:91946888 original size:12 final size:13
Alignment explanation
Indices: 91946865--91946893 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
91946855 CAAATGAATC
91946865 ATTTCTCATTTTT
1 ATTTCTCATTTTT
91946878 ATTTC-CATTTTT
1 ATTTCTCATTTTT
91946890 ATTT
1 ATTT
91946894 TTGAGAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.17, C:0.14, G:0.00, T:0.69
Consensus pattern (13 bp):
ATTTCTCATTTTT
Found at i:91951625 original size:20 final size:19
Alignment explanation
Indices: 91951602--91951654 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
91951592 AAAAAAAGTC
91951602 AAATTCAAATTAAAATACTG
1 AAATTCAAA-TAAAATACTG
* *
91951622 AAATTCAGGATAAAATGCTG
1 AAATTCA-AATAAAATACTG
91951642 AAATTCAAGATAA
1 AAATTCAA-ATAA
91951655 GAGTACTGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 27 0.96
21 1 0.04
ACGTcount: A:0.53, C:0.09, G:0.11, T:0.26
Consensus pattern (19 bp):
AAATTCAAATAAAATACTG
Found at i:91959860 original size:25 final size:25
Alignment explanation
Indices: 91959798--91959863 Score: 105
Period size: 25 Copynumber: 2.6 Consensus size: 25
91959788 ACTTTAGCGC
*
91959798 GCTCTCTGATAATTAGCACATTAGT
1 GCTCTCTGATTATTAGCACATTAGT
*
91959823 GCTCTCTGATTATTAGCACGTTAGT
1 GCTCTCTGATTATTAGCACATTAGT
*
91959848 GCTCTCTGTTTATTAG
1 GCTCTCTGATTATTAG
91959864 TGCATAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.41
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACATTAGT
Found at i:91963011 original size:15 final size:14
Alignment explanation
Indices: 91962960--91963012 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 14
91962950 TTTGGTTAAG
*
91962960 ATTAAAAATTTCAAA
1 ATTAAAAATAT-AAA
91962975 ATTTAAAAATATAAA
1 A-TTAAAAATATAAA
*
91962990 GACTAAAAATGATAAA
1 -ATTAAAAAT-ATAAA
91963006 ATTAAAA
1 ATTAAAA
91963013 TACATGTACT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
15 17 0.53
16 15 0.47
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (14 bp):
ATTAAAAATATAAA
Found at i:91965125 original size:3 final size:3
Alignment explanation
Indices: 91965117--91965220 Score: 94
Period size: 3 Copynumber: 35.3 Consensus size: 3
91965107 TCCATTTCGG
*
91965117 GAA GAA GAA -AA GAA -AA G-A GAA GAA GAA -AA GGAA GAA GGA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA -GAA GAA GAA GAA
* *
91965159 GAA GGAA GAA GGA GAA GAA GGAA GGA GAA GAA GAA -AA GAAA GAA G-A
1 GAA -GAA GAA GAA GAA GAA -GAA GAA GAA GAA GAA GAA G-AA GAA GAA
*
91965205 GAA GAA GAA GGA GAA G
1 GAA GAA GAA GAA GAA G
91965221 GAGTCGGCAG
Statistics
Matches: 83, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
2 12 0.14
3 60 0.72
4 11 0.13
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:91965165 original size:16 final size:16
Alignment explanation
Indices: 91965134--91965220 Score: 94
Period size: 16 Copynumber: 5.7 Consensus size: 16
91965124 AAAAGAAAAG
*
91965134 AGAAGAAGAA-AAGGA
1 AGAAGGAGAAGAAGGA
91965149 AGAAGGAGAAGAAGGA
1 AGAAGGAGAAGAAGGA
91965165 AGAAGGAGAAGAAGGA
1 AGAAGGAGAAGAAGGA
* *
91965181 AGGAGAAGAAGAA--A
1 AGAAGGAGAAGAAGGA
*
91965195 AGAA--AGAAGAGAAGA
1 AGAAGGAGAAGA-AGGA
91965210 AGAAGGAGAAG
1 AGAAGGAGAAG
91965221 GAGTCGGCAG
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
12 6 0.10
13 1 0.02
14 4 0.06
15 14 0.23
16 32 0.52
17 5 0.08
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (16 bp):
AGAAGGAGAAGAAGGA
Found at i:91965189 original size:29 final size:31
Alignment explanation
Indices: 91965117--91965220 Score: 108
Period size: 33 Copynumber: 3.3 Consensus size: 31
91965107 TCCATTTCGG
* *
91965117 GAAGAAGAA-AAGAAAAGAGAAGAAGAAAAGGAA
1 GAAGGAGAAGAAGAAAAGA-AAG-AGAGAA-GAA
*
91965150 GAAGGAGAAGAAG-GAAG-AAG-GAGAAGAA
1 GAAGGAGAAGAAGAAAAGAAAGAGAGAAGAA
91965178 GGAAGGAGAAGAAGAAAAGAAAGAAGAGAAGAA
1 -GAAGGAGAAGAAGAAAAGAAAG-AGAGAAGAA
91965211 GAAGGAGAAG
1 GAAGGAGAAG
91965221 GAGTCGGCAG
Statistics
Matches: 61, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
28 3 0.05
29 17 0.28
30 3 0.05
31 6 0.10
32 10 0.16
33 19 0.31
34 3 0.05
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (31 bp):
GAAGGAGAAGAAGAAAAGAAAGAGAGAAGAA
Found at i:91966848 original size:29 final size:28
Alignment explanation
Indices: 91966787--91966848 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
91966777 AATCTATTTG
91966787 TAAAATTTTATAAATATTTTTAATAAAA
1 TAAAATTTTATAAATATTTTTAATAAAA
*
91966815 TAAAA-TTTA-AAATATATATTATAATTAAA
1 TAAAATTTTATAAATAT-T-TT-TAATAAAA
91966844 TAAAA
1 TAAAA
91966849 ATGTTTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 6 0.20
27 5 0.17
28 7 0.23
29 12 0.40
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
TAAAATTTTATAAATATTTTTAATAAAA
Found at i:91966850 original size:30 final size:28
Alignment explanation
Indices: 91966787--91966850 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 28
91966777 AATCTATTTG
*
91966787 TAAAATTTTATAAATATTTTTAATAAAA
1 TAAAAATTTATAAATATTTTTAATAAAA
*
91966815 T-AAAATTTA-AAATATATATTATAATTAAA
1 TAAAAATTTATAAATAT-T-TT-TAATAAAA
91966844 TAAAAAT
1 TAAAAAT
91966851 GTTTTTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
26 6 0.20
27 8 0.27
28 3 0.10
29 8 0.27
30 5 0.17
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
TAAAAATTTATAAATATTTTTAATAAAA
Found at i:91969124 original size:123 final size:123
Alignment explanation
Indices: 91968905--91969156 Score: 504
Period size: 123 Copynumber: 2.0 Consensus size: 123
91968895 GATTCAAACA
91968905 CTAAGAAGGAATATTATCTACAATTCCAATTGAGGAGATGACTAGTCTTAGCTATCGAAGCAGTT
1 CTAAGAAGGAATATTATCTACAATTCCAATTGAGGAGATGACTAGTCTTAGCTATCGAAGCAGTT
91968970 GACTCCACGAGTAGAGACATGGATGTATTCATTGGTAGAATGATATATTGGACTGGAT
66 GACTCCACGAGTAGAGACATGGATGTATTCATTGGTAGAATGATATATTGGACTGGAT
91969028 CTAAGAAGGAATATTATCTACAATTCCAATTGAGGAGATGACTAGTCTTAGCTATCGAAGCAGTT
1 CTAAGAAGGAATATTATCTACAATTCCAATTGAGGAGATGACTAGTCTTAGCTATCGAAGCAGTT
91969093 GACTCCACGAGTAGAGACATGGATGTATTCATTGGTAGAATGATATATTGGACTGGAT
66 GACTCCACGAGTAGAGACATGGATGTATTCATTGGTAGAATGATATATTGGACTGGAT
91969151 CTAAGA
1 CTAAGA
91969157 TGAATTAATT
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
123 129 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (123 bp):
CTAAGAAGGAATATTATCTACAATTCCAATTGAGGAGATGACTAGTCTTAGCTATCGAAGCAGTT
GACTCCACGAGTAGAGACATGGATGTATTCATTGGTAGAATGATATATTGGACTGGAT
Found at i:91970130 original size:19 final size:19
Alignment explanation
Indices: 91970092--91970136 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
91970082 ATTGAAAATT
* *
91970092 GAAAATTGGACCTGAGATA
1 GAAAATTGGACCTAACATA
*
91970111 GGAAATTGGACCTAACATA
1 GAAAATTGGACCTAACATA
91970130 GAAAATT
1 GAAAATT
91970137 AAACCCGAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.44, C:0.11, G:0.22, T:0.22
Consensus pattern (19 bp):
GAAAATTGGACCTAACATA
Found at i:91971943 original size:13 final size:13
Alignment explanation
Indices: 91971925--91971949 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
91971915 AAAATGTTTA
91971925 ATATATAAAAATT
1 ATATATAAAAATT
91971938 ATATATAAAAAT
1 ATATATAAAAAT
91971950 ATCAAACAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
ATATATAAAAATT
Found at i:91972410 original size:5 final size:6
Alignment explanation
Indices: 91972392--91972417 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
91972382 GAGCCTCAAC
91972392 AATAAA AATAAA AATAAA AATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AA
91972418 AAGGTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AATAAA
Found at i:91973437 original size:18 final size:19
Alignment explanation
Indices: 91973406--91973456 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
91973396 AAAAATATAA
*
91973406 ATTTTGGAATTTTTACAAA-T
1 ATTTT-GAA-TTTTAAAAATT
*
91973426 ATTTTTAATTTTAAAAATT
1 ATTTTGAATTTTAAAAATT
91973445 ATTTTGAATTTT
1 ATTTTGAATTTT
91973457 TGAAAATCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 8 0.30
19 14 0.52
20 5 0.19
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (19 bp):
ATTTTGAATTTTAAAAATT
Found at i:91973437 original size:19 final size:20
Alignment explanation
Indices: 91973406--91973463 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
91973396 AAAAATATAA
*
91973406 ATTTTGGAATTTTTACAAA-T
1 ATTTT-GAATTTTTAAAAATT
*
91973426 ATTTTTAA-TTTTAAAAATT
1 ATTTTGAATTTTTAAAAATT
*
91973445 ATTTTGAATTTTTGAAAAT
1 ATTTTGAATTTTTAAAAAT
91973464 CAAATTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 8 0.25
19 10 0.31
20 14 0.44
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAAATT
Found at i:91973956 original size:29 final size:30
Alignment explanation
Indices: 91973923--91974011 Score: 99
Period size: 31 Copynumber: 3.0 Consensus size: 30
91973913 TTGATTTAAT
91973923 GTACAATTGTATACATG-AACTTTAATTTG
1 GTACAATTGTATACATGAAACTTTAATTTG
* * *
91973952 GTACAGTTATACACATGAAACTTTAATTGTG
1 GTACAATTGTATACATGAAACTTTAATT-TG
* * * *
91973983 GTTCAAATGTATACTTGAAATTTTAATTT
1 GTACAATTGTATACATGAAACTTTAATTT
91974012 TGATTTAATC
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
29 14 0.29
30 11 0.23
31 23 0.48
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (30 bp):
GTACAATTGTATACATGAAACTTTAATTTG
Found at i:91974200 original size:29 final size:30
Alignment explanation
Indices: 91974153--91974211 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
91974143 GAATTGGATC
*
91974153 AAATCAAAATTTCTTGTATAAAATTGCACA
1 AAATCAAAATTTCATGTATAAAATTGCACA
*
91974183 AAATCAAAA-TTCATGTATACAATTGCACA
1 AAATCAAAATTTCATGTATAAAATTGCACA
91974212 TTAAACAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 18 0.67
30 9 0.33
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.31
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATAAAATTGCACA
Found at i:91977342 original size:24 final size:24
Alignment explanation
Indices: 91977315--91977366 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
91977305 TTAGTAAGTC
*
91977315 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
91977339 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
91977363 AAAT
1 AAAT
91977367 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:91982671 original size:60 final size:60
Alignment explanation
Indices: 91982599--91982718 Score: 204
Period size: 60 Copynumber: 2.0 Consensus size: 60
91982589 CATCCACATA
* * *
91982599 AACTAAAACATACAAGTAGAGGTAGGCGTAACACGAAAAAACAAGGGCATATCAGACTTT
1 AACTAAAACATACAAGTAGAGGTAAGCGTAACACGAAAAAACAAGGACACATCAGACTTT
*
91982659 AACTAAAACATACAAGTAGAGGTAAGCGTAACACGAACAAACAAGGACACATCAGACTTT
1 AACTAAAACATACAAGTAGAGGTAAGCGTAACACGAAAAAACAAGGACACATCAGACTTT
91982719 GACAAAAGAA
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.47, C:0.18, G:0.18, T:0.16
Consensus pattern (60 bp):
AACTAAAACATACAAGTAGAGGTAAGCGTAACACGAAAAAACAAGGACACATCAGACTTT
Found at i:91982737 original size:60 final size:60
Alignment explanation
Indices: 91982599--91982739 Score: 176
Period size: 60 Copynumber: 2.4 Consensus size: 60
91982589 CATCCACATA
* * * * *
91982599 AACTAAAACATACAAGTAGAGGTAGGCGTAACACGAAAAAACAAGGGCATATCAGACTTT
1 AACTAAAAAAAACAAGTAGAGGTAAGCGTAACACGAAAAAACAAGGACACATCAGACTTT
* * *
91982659 AACTAAAACATACAAGTAGAGGTAAGCGTAACACGAACAAACAAGGACACATCAGACTTT
1 AACTAAAAAAAACAAGTAGAGGTAAGCGTAACACGAAAAAACAAGGACACATCAGACTTT
* *
91982719 GAC-AAAAGAAAACTAGTAGAG
1 AACTAAAA-AAAACAAGTAGAG
91982740 AGAAGAAAAT
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
59 4 0.06
60 68 0.94
ACGTcount: A:0.49, C:0.17, G:0.19, T:0.15
Consensus pattern (60 bp):
AACTAAAAAAAACAAGTAGAGGTAAGCGTAACACGAAAAAACAAGGACACATCAGACTTT
Found at i:91987434 original size:61 final size:61
Alignment explanation
Indices: 91987367--91987484 Score: 164
Period size: 61 Copynumber: 1.9 Consensus size: 61
91987357 TTTTTTAAAA
* ** * **
91987367 TTTTTAGAATTAGAACTAAGTTGACAAATTTTGTAAATGTTGAGGGCTAAATTTATTCAAT
1 TTTTTAGAATTAGAACAAAAATGAAAAATTTTGTAAACATTGAGGGCTAAATTTATTCAAT
* *
91987428 TTTTTAGTATTCGAACAAAAATGAAAAATTTTGTAAACATTGAGGGCTAAATTTATT
1 TTTTTAGAATTAGAACAAAAATGAAAAATTTTGTAAACATTGAGGGCTAAATTTATT
91987485 ATTAGACTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.40
Consensus pattern (61 bp):
TTTTTAGAATTAGAACAAAAATGAAAAATTTTGTAAACATTGAGGGCTAAATTTATTCAAT
Found at i:91991577 original size:19 final size:19
Alignment explanation
Indices: 91991546--91991602 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
91991536 AAAAATATAA
91991546 ATTTTGGAATTTTTAGAAAT
1 ATTTT-GAATTTTTAGAAAT
* *
91991566 ATTTTTAA-TTTTAAAAATT
1 ATTTTGAATTTTTAGAAA-T
91991585 ATTTTGAATTTTT-GAAAT
1 ATTTTGAATTTTTAGAAAT
91991603 CAAATTGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
18 9 0.29
19 13 0.42
20 9 0.29
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (19 bp):
ATTTTGAATTTTTAGAAAT
Done.