Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 331 of 362
Found at i:110494588 original size:46 final size:46
Alignment explanation
Indices: 110494411--110494592 Score: 213
Period size: 46 Copynumber: 4.0 Consensus size: 46
110494401 TTTGACGTGA
* * ** * * *
110494411 TGCCATAGTGTCTTTCAATTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* **** * *
110494457 TGCCATGGTATCTTTCAATCATGGTCTTATTTTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
110494503 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
110494549 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
110494593 AGAGCACACT
Statistics
Matches: 119, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
45 4 0.03
46 115 0.97
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.42
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:110495059 original size:19 final size:19
Alignment explanation
Indices: 110495037--110495075 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
110495027 TTTTAAATAG
*
110495037 ATACACATGTATTAATAAT
1 ATACACATGTATAAATAAT
110495056 ATACACATGTATAAATAAT
1 ATACACATGTATAAATAAT
110495075 A
1 A
110495076 AATAAGTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.33
Consensus pattern (19 bp):
ATACACATGTATAAATAAT
Found at i:110495975 original size:15 final size:15
Alignment explanation
Indices: 110495927--110495976 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
110495917 TTTATCAAAT
110495927 TTATATTGATTGAAA
1 TTATATTGATTGAAA
* * *
110495942 TCATTTTGATTGAAT
1 TTATATTGATTGAAA
110495957 TTATATTGATTGAAA
1 TTATATTGATTGAAA
110495972 TTATA
1 TTATA
110495977 ATATATATAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (15 bp):
TTATATTGATTGAAA
Found at i:110496634 original size:18 final size:19
Alignment explanation
Indices: 110496611--110496651 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
110496601 AATGAAATGA
110496611 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGA-AATT
110496629 GAAATTGAGATATGAAATT
1 GAAATTGAGATATGAAATT
110496648 GAAA
1 GAAA
110496652 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 10 0.48
20 3 0.14
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAAATT
Found at i:110496644 original size:13 final size:13
Alignment explanation
Indices: 110496599--110496649 Score: 56
Period size: 13 Copynumber: 4.1 Consensus size: 13
110496589 TTGAGCTATT
110496599 AGAA-TGAAA-TG
1 AGAATTGAAATTG
110496610 AGAAATTG-AATTG
1 AG-AATTGAAATTG
110496623 AGAATTGAAATTG
1 AGAATTGAAATTG
110496636 AG-ATATGAAATTG
1 AGAAT-TGAAATTG
110496649 A
1 A
110496650 AAACATGAAC
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.06
12 11 0.31
13 22 0.63
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (13 bp):
AGAATTGAAATTG
Found at i:110499250 original size:10 final size:11
Alignment explanation
Indices: 110499224--110499256 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
110499214 TTCTACACCA
110499224 TTTCTCTTCAC
1 TTTCTCTTCAC
*
110499235 TTTCTCTT-AT
1 TTTCTCTTCAC
110499245 TTTCTCTTCAC
1 TTTCTCTTCAC
110499256 T
1 T
110499257 AACATATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.09, C:0.30, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTCTCTTCAC
Found at i:110499661 original size:11 final size:11
Alignment explanation
Indices: 110499645--110499692 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
110499635 CTTTATATAC
110499645 TAATAAAATAA
1 TAATAAAATAA
*
110499656 TAATAAAATATCT
1 TAATAAAATA--A
* *
110499669 TATTAAAATAT
1 TAATAAAATAA
110499680 TAATAAAATAA
1 TAATAAAATAA
110499691 TA
1 TA
110499693 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:110501377 original size:15 final size:15
Alignment explanation
Indices: 110501357--110501387 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
110501347 GTTTATGTTG
*
110501357 AAAGAAAAAGAAAGA
1 AAAGAAAAAAAAAGA
110501372 AAAGAAAAAAAAAGA
1 AAAGAAAAAAAAAGA
110501387 A
1 A
110501388 TTCGAAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAAAAAGA
Found at i:110516272 original size:16 final size:17
Alignment explanation
Indices: 110516242--110516274 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
110516232 ACACGTAAAG
110516242 TTAAGACATTAAAATTT
1 TTAAGACATTAAAATTT
*
110516259 TTAA-ACATTCAAATTT
1 TTAAGACATTAAAATTT
110516275 ATCATTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.42
Consensus pattern (17 bp):
TTAAGACATTAAAATTT
Found at i:110523887 original size:152 final size:151
Alignment explanation
Indices: 110523612--110523888 Score: 430
Period size: 152 Copynumber: 1.8 Consensus size: 151
110523602 ATAGAAAATT
* *
110523612 TAACAAAAAGAGGTAGAAAAGTTTTTAGGATAACAAAAATTGGCAGAGAGGAAACGAAAGGAACA
1 TAACAAAAAGAGGTAGAAAAATTTTTAGGATAACAAAAATTGGCAGAAAGGAAACGAAAGGAACA
* *
110523677 ACAGAAGAGAGAAAATGTTTACTTGAAGGAGGCTCCGATGAAGGGAAGGAGTGCTAGTGGGCGGA
66 ACAGAAGAGAGAAAATGTTTACTTGAAGGAGGCTACGATGAAGGGAAGGAGGGCTAGTGGGCGGA
110523742 AGCAAACTCTACTTAAATGGG
131 AGCAAACTCTACTTAAATGGG
* * * * *
110523763 TAACAAAAAGAGGTTGAAAAATTTTTAGGGTAAGAAAAATTGGCAGAAAGGAAAATGTAAGGAAC
1 TAACAAAAAGAGGTAGAAAAATTTTTAGGATAACAAAAATTGGCAGAAAGG-AAACGAAAGGAAC
* *
110523828 AAC-GAAAGAGAGAAAATGTTTACTTGAAGGAGGCTATGATGAAGGGGAGGAGGGCTAGTGG
65 AACAG-AAGAGAGAAAATGTTTACTTGAAGGAGGCTACGATGAAGGGAAGGAGGGCTAGTGG
110523889 TAGGAGTCGA
Statistics
Matches: 113, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
151 47 0.42
152 66 0.58
ACGTcount: A:0.43, C:0.08, G:0.31, T:0.18
Consensus pattern (151 bp):
TAACAAAAAGAGGTAGAAAAATTTTTAGGATAACAAAAATTGGCAGAAAGGAAACGAAAGGAACA
ACAGAAGAGAGAAAATGTTTACTTGAAGGAGGCTACGATGAAGGGAAGGAGGGCTAGTGGGCGGA
AGCAAACTCTACTTAAATGGG
Found at i:110524189 original size:33 final size:33
Alignment explanation
Indices: 110524152--110524216 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
110524142 TGAACCATAA
*
110524152 CATGACTTTAGTTTATTATTAAATTTTTGTCAT
1 CATGACTTTAGTTTATTATTAAATCTTTGTCAT
110524185 CATGACTTTAGTTTATTATTAAATCTTTGTCA
1 CATGACTTTAGTTTATTATTAAATCTTTGTCA
110524217 ATCTAGTAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.28, C:0.11, G:0.09, T:0.52
Consensus pattern (33 bp):
CATGACTTTAGTTTATTATTAAATCTTTGTCAT
Found at i:110525557 original size:24 final size:25
Alignment explanation
Indices: 110525530--110525582 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
110525520 ATATTTTTTA
110525530 AAATATATATA-TAATAAT-ATATTT
1 AAATATATATATTAATAATAATA-TT
* *
110525554 AAAT-TTTATATTAATATTAATATT
1 AAATATATATATTAATAATAATATT
110525578 AAATA
1 AAATA
110525583 AAAATAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
23 5 0.21
24 16 0.67
25 3 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
AAATATATATATTAATAATAATATT
Found at i:110525577 original size:25 final size:25
Alignment explanation
Indices: 110525510--110525569 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 25
110525500 TCATAAAAAC
* *
110525510 ATATATATACAT-AT-TTTTTAAAAT
1 ATATATATA-ATAATATATTTAAATT
110525534 ATATATATAATAATATATTTAAATT
1 ATATATATAATAATATATTTAAATT
*
110525559 TTATAT-TAATA
1 ATATATATAATA
110525570 TTAATATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 2 0.06
24 16 0.52
25 13 0.42
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (25 bp):
ATATATATAATAATATATTTAAATT
Found at i:110525595 original size:31 final size:30
Alignment explanation
Indices: 110525559--110525617 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
110525549 TATTTAAATT
* *
110525559 TTATATTAATATTAATATTAAATAAAAATAA
1 TTATATTAATACTAA-ATAAAATAAAAATAA
110525590 TTATATTAATACTAAATAAAATAAAAAT
1 TTATATTAATACTAAATAAAATAAAAAT
110525618 TCTTCACCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 12 0.46
31 14 0.54
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (30 bp):
TTATATTAATACTAAATAAAATAAAAATAA
Found at i:110526497 original size:18 final size:18
Alignment explanation
Indices: 110526457--110526512 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
110526447 AGTACAAAAA
*
110526457 AAAACTTCAAAATAATTTTT
1 AAAA-TTCAAAAT-ATTTAT
110526477 AAAATTCAAAATATTTAT
1 AAAATTCAAAATATTTAT
*
110526495 AAAATTCTAAA-ATTTAT
1 AAAATTCAAAATATTTAT
110526512 A
1 A
110526513 TTTTAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 7 0.21
18 15 0.44
19 8 0.24
20 4 0.12
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAATTCAAAATATTTAT
Found at i:110526550 original size:31 final size:30
Alignment explanation
Indices: 110526512--110526604 Score: 91
Period size: 31 Copynumber: 3.1 Consensus size: 30
110526502 TAAAATTTAT
*
110526512 ATTTTAAAAAACATATATATAAATTTTAAAA
1 ATTTTAAAAAATATATATA-AAATTTTAAAA
* * *
110526543 ATTTTAAAGAATATATAAAGAAAATTT-AAA
1 ATTTTAAAAAATATATATA-AAATTTTAAAA
* *
110526573 ATTTTATAAAATA-ATTTAAAATTTTATAAA
1 ATTTTAAAAAATATATATAAAATTTTA-AAA
110526603 AT
1 AT
110526605 AATAATTTTG
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
28 6 0.12
29 3 0.06
30 19 0.38
31 22 0.44
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.40
Consensus pattern (30 bp):
ATTTTAAAAAATATATATAAAATTTTAAAA
Found at i:110526582 original size:21 final size:20
Alignment explanation
Indices: 110526556--110526603 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
110526546 TTAAAGAATA
110526556 TATAAAGAAAATTTAAAATTT
1 TATAAA-AAAATTTAAAATTT
*
110526577 TATAAAATAATTTAAAATTT
1 TATAAAAAAATTTAAAATTT
110526597 TATAAAA
1 TATAAAA
110526604 TAATAATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
TATAAAAAAATTTAAAATTT
Found at i:110526590 original size:20 final size:20
Alignment explanation
Indices: 110526565--110526607 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
110526555 ATATAAAGAA
110526565 AATTTAAAATTTTATAAAAT
1 AATTTAAAATTTTATAAAAT
110526585 AATTTAAAATTTTATAAAAT
1 AATTTAAAATTTTATAAAAT
110526605 AAT
1 AAT
110526608 AATTTTGAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTTAAAATTTTATAAAAT
Found at i:110527067 original size:23 final size:23
Alignment explanation
Indices: 110527041--110527119 Score: 83
Period size: 23 Copynumber: 3.4 Consensus size: 23
110527031 AATTTAAATC
110527041 TATTATATTATTTTGAAAATATT
1 TATTATATTATTTTGAAAATATT
* *
110527064 TATTTTTATATATTTT-TAAA-ATT
1 TA-TTATAT-TATTTTGAAAATATT
110527087 TATTATTATTATTTTTGAAAATATT
1 TATTA-TATTA-TTTTGAAAATATT
110527112 TA-TATATT
1 TATTATATT
110527120 TTTATATATT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
22 4 0.09
23 18 0.39
24 13 0.28
25 11 0.24
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (23 bp):
TATTATATTATTTTGAAAATATT
Found at i:110527073 original size:26 final size:26
Alignment explanation
Indices: 110527043--110527114 Score: 82
Period size: 25 Copynumber: 2.9 Consensus size: 26
110527033 TTTAAATCTA
110527043 TTATATTATTTTGAAAATATTTATTT
1 TTATATTATTTTGAAAATATTTATTT
*
110527069 TTATA-TATTTT-TAAA-ATTTA-TT
1 TTATATTATTTTGAAAATATTTATTT
*
110527091 AT-TATTATTTTTGAAAATATTTAT
1 TTATATTA-TTTTGAAAATATTTAT
110527115 ATATTTTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
21 2 0.05
22 5 0.13
23 9 0.24
24 6 0.16
25 11 0.29
26 5 0.13
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (26 bp):
TTATATTATTTTGAAAATATTTATTT
Found at i:110527079 original size:10 final size:10
Alignment explanation
Indices: 110527064--110527130 Score: 57
Period size: 10 Copynumber: 6.5 Consensus size: 10
110527054 TGAAAATATT
110527064 TATTTTTATA
1 TATTTTTATA
110527074 TATTTTTA-A
1 TATTTTTATA
*
110527083 AATTTATTATTA
1 TATTT-TTA-TA
110527095 TTATTTTTGA-A
1 -TATTTTT-ATA
* *
110527106 AATATTTATA
1 TATTTTTATA
110527116 TATTTTTATA
1 TATTTTTATA
110527126 TATTT
1 TATTT
110527131 CTTTAATTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
9 6 0.13
10 30 0.67
11 1 0.02
12 3 0.07
13 5 0.11
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (10 bp):
TATTTTTATA
Found at i:110537680 original size:25 final size:26
Alignment explanation
Indices: 110537633--110537681 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
110537623 TTTTTACGAC
*
110537633 TTATCTTATTAAAAAATTAAAATAAA
1 TTATCTTATTAAAAAATAAAAATAAA
110537659 TTATCTT-TTAAAAAA-AAGAAATA
1 TTATCTTATTAAAAAATAA-AAATA
110537682 TTCAAATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 1 0.05
25 13 0.62
26 7 0.33
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (26 bp):
TTATCTTATTAAAAAATAAAAATAAA
Found at i:110537752 original size:19 final size:18
Alignment explanation
Indices: 110537710--110537752 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
110537700 TCTTTCATAC
110537710 AAAATTATATAAAATAAT
1 AAAATTATATAAAATAAT
* *
110537728 ATAAATTATTATATAATATT
1 A-AAATTA-TATAAAATAAT
110537748 AAAAT
1 AAAAT
110537753 ACAAATACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 10 0.48
20 10 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAAATTATATAAAATAAT
Found at i:110538331 original size:12 final size:12
Alignment explanation
Indices: 110538314--110538346 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
110538304 CGGCCTGCCC
110538314 ATATTAATTTTT
1 ATATTAATTTTT
110538326 ATATT-ATTTTT
1 ATATTAATTTTT
110538337 ATA-TAATTTT
1 ATATTAATTTT
110538347 AAAAAATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:110538505 original size:30 final size:31
Alignment explanation
Indices: 110538469--110538532 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
110538459 ACTTAACAAG
*
110538469 CAAATGT-TTCTAAAATAAT-AACAAAATTAA
1 CAAATGTCTT-TAAAATAATAAAAAAAATTAA
*
110538499 CAAATGTCTTTAAGATAATAAAAAAAATTAA
1 CAAATGTCTTTAAAATAATAAAAAAAATTAA
110538530 CAA
1 CAA
110538533 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 15 0.50
31 15 0.50
ACGTcount: A:0.58, C:0.09, G:0.05, T:0.28
Consensus pattern (31 bp):
CAAATGTCTTTAAAATAATAAAAAAAATTAA
Found at i:110538587 original size:11 final size:11
Alignment explanation
Indices: 110538569--110538609 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
110538559 ACAATAACAA
110538569 CAAAATAGTAG
1 CAAAATAGTAG
*
110538580 CAACATAGTAG
1 CAAAATAGTAG
*
110538591 TAAAATAGTAG
1 CAAAATAGTAG
110538602 CAAAATAG
1 CAAAATAG
110538610 GGAGAAAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.54, C:0.10, G:0.17, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:110539036 original size:21 final size:22
Alignment explanation
Indices: 110539000--110539042 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
110538990 TAGTTTTCAG
* *
110539000 TTTATTAAAAATTATATATTAT
1 TTTAGTAAAAATTATAAATTAT
110539022 TTTAGTAAAAA-TATAAATTAT
1 TTTAGTAAAAATTATAAATTAT
110539043 ATACTGTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (22 bp):
TTTAGTAAAAATTATAAATTAT
Found at i:110539709 original size:17 final size:17
Alignment explanation
Indices: 110539683--110539715 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
110539673 AAAAAGAGAA
110539683 AGAAAAAAGGT-AAAAG
1 AGAAAAAAGGTCAAAAG
110539699 AGAAGAAAAGGTCAAAA
1 AGAA-AAAAGGTCAAAA
110539716 ATAGACAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 7 0.47
18 4 0.27
ACGTcount: A:0.67, C:0.03, G:0.24, T:0.06
Consensus pattern (17 bp):
AGAAAAAAGGTCAAAAG
Found at i:110542627 original size:7 final size:7
Alignment explanation
Indices: 110542615--110542640 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
110542605 GCCAACACCC
110542615 CTTTCTT
1 CTTTCTT
110542622 CTTTCTT
1 CTTTCTT
110542629 CTTTCTT
1 CTTTCTT
110542636 CTTTC
1 CTTTC
110542641 CATTTTGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (7 bp):
CTTTCTT
Found at i:110551057 original size:25 final size:27
Alignment explanation
Indices: 110551018--110551096 Score: 94
Period size: 26 Copynumber: 3.1 Consensus size: 27
110551008 CAACTATCAC
*
110551018 TTCTCGCTAAGCTTGCAGCTTTG-ACA
1 TTCTTGCTAAGCTTGCAGCTTTGCACA
*
110551044 -TCTTGCTAAGCTTGCAAC-TTGCACA
1 TTCTTGCTAAGCTTGCAGCTTTGCACA
* *
110551069 TTTTTGCTGAGCTTGCAGC-TTGCACA
1 TTCTTGCTAAGCTTGCAGCTTTGCACA
110551095 TT
1 TT
110551097 GGAAAGCTCA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
24 3 0.07
25 19 0.41
26 24 0.52
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (27 bp):
TTCTTGCTAAGCTTGCAGCTTTGCACA
Found at i:110554114 original size:25 final size:26
Alignment explanation
Indices: 110554054--110554123 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
110554044 GGTTCTTCGT
* *
110554054 GAGCTT-CTCGATTAAAGGCTCTTTGC
1 GAGCTTCCT-GATTAATGGCTCTTTGA
110554080 GAGCTTCCTGATTAATGGCTCTTT-A
1 GAGCTTCCTGATTAATGGCTCTTTGA
110554105 GAGCTTCCTGA-T-ATGGCTC
1 GAGCTTCCTGATTAATGGCTC
110554124 GCTTGAAGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
23 7 0.17
24 1 0.02
25 11 0.27
26 20 0.49
27 2 0.05
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.36
Consensus pattern (26 bp):
GAGCTTCCTGATTAATGGCTCTTTGA
Found at i:110554967 original size:25 final size:25
Alignment explanation
Indices: 110554914--110554990 Score: 88
Period size: 25 Copynumber: 3.2 Consensus size: 25
110554904 TGTTATATAG
*
110554914 AGAGCACGAATGTGCT-A-AA-CAA
1 AGAGCACTAATGTGCTAATAATCAA
110554936 AGAGCACTAATGTGCTAATAATCAA
1 AGAGCACTAATGTGCTAATAATCAA
* * * *
110554961 ATAGCACTATTGTGCTAATTATCAG
1 AGAGCACTAATGTGCTAATAATCAA
110554986 AGAGC
1 AGAGC
110554991 GTGCTAAAGT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
22 15 0.33
23 1 0.02
24 2 0.04
25 28 0.61
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.23
Consensus pattern (25 bp):
AGAGCACTAATGTGCTAATAATCAA
Found at i:110559042 original size:14 final size:14
Alignment explanation
Indices: 110559023--110559058 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
110559013 CCTATTTTTC
*
110559023 CTTTCTTTTTCTTT
1 CTTTCTTTTTCCTT
110559037 CTTTCTTTTTCCTT
1 CTTTCTTTTTCCTT
110559051 CTTTCTTT
1 CTTTCTTT
110559059 CCCTACTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (14 bp):
CTTTCTTTTTCCTT
Found at i:110563097 original size:22 final size:21
Alignment explanation
Indices: 110563072--110563121 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
110563062 TATATACTTT
*
110563072 TATTATTTAAAACTCTTTCATA
1 TATTATTT-AAACCCTTTCATA
*
110563094 TATTA-TT-ATCCCTTTCATA
1 TATTATTTAAACCCTTTCATA
110563113 TATTATTTA
1 TATTATTTA
110563122 TATTGAGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 15 0.62
20 2 0.08
21 2 0.08
22 5 0.21
ACGTcount: A:0.32, C:0.14, G:0.00, T:0.54
Consensus pattern (21 bp):
TATTATTTAAACCCTTTCATA
Found at i:110566910 original size:22 final size:21
Alignment explanation
Indices: 110566867--110566911 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
110566857 TAAGATGTTA
**
110566867 GATATTTATTATTATTTAATT
1 GATATTTATTATTAAATAATT
*
110566888 GATATTATATTATTAAATGATT
1 GATATT-TATTATTAAATAATT
110566910 GA
1 GA
110566912 ATAATTTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (21 bp):
GATATTTATTATTAAATAATT
Found at i:110567048 original size:33 final size:35
Alignment explanation
Indices: 110566983--110567048 Score: 82
Period size: 33 Copynumber: 1.9 Consensus size: 35
110566973 CAATTGTAAC
* *
110566983 ATATTTATCTAATTACTTTTTATTTAAGTAAATAG
1 ATATTTATCTAATTACTTATTATTAAAGTAAATAG
* *
110567018 ATATTTAT-TATTTA-TTATTATTAAATTAAAT
1 ATATTTATCTAATTACTTATTATTAAAGTAAAT
110567049 TAAAGACAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 14 0.52
34 5 0.19
35 8 0.30
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (35 bp):
ATATTTATCTAATTACTTATTATTAAAGTAAATAG
Found at i:110567810 original size:23 final size:23
Alignment explanation
Indices: 110567784--110567827 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
110567774 GATTAAAATT
110567784 GAAATTAAAGT-AGAAATTTAATA
1 GAAATT-AAGTAAGAAATTTAATA
*
110567807 GAAATTGAGTAAGAAATTTAA
1 GAAATTAAGTAAGAAATTTAA
110567828 ATATTAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.55, C:0.00, G:0.16, T:0.30
Consensus pattern (23 bp):
GAAATTAAGTAAGAAATTTAATA
Found at i:110574676 original size:26 final size:26
Alignment explanation
Indices: 110574567--110574668 Score: 168
Period size: 26 Copynumber: 3.9 Consensus size: 26
110574557 CATGAAATTC
110574567 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
110574593 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* **
110574619 TTATCATGGAACATTTACCTAACATA
1 TTATCATGAAACATTTACCTAACCCA
*
110574645 TTATCATGGAACATTTACCTAACC
1 TTATCATGAAACATTTACCTAACC
110574669 TTTTATCAAT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.37, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:110580486 original size:26 final size:26
Alignment explanation
Indices: 110580384--110580493 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
110580374 CATGAAATTC
*
110580384 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
110580410 TTATCATGAAACATTTACCTAATCC-A
1 TTATCATGAAACATTTACCTAA-CCTA
*
110580436 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
* *
110580462 TTATCATGGAACATTTACCTAACCTT
1 TTATCATGAAACATTTACCTAACCTA
110580488 TTATCA
1 TTATCA
110580494 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
25 2 0.03
26 76 0.95
27 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:110580961 original size:21 final size:21
Alignment explanation
Indices: 110580937--110581001 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
110580927 AAGTCTAGCT
*
110580937 GAAGCACATAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
*
110580958 GAAGC-C-CGAAG-GCT-AACT
1 GAAGCACAC-AAGTGCTAAACG
110580976 GAAGCACACAAGTGCTAAACG
1 GAAGCACACAAGTGCTAAACG
110580997 GAAGC
1 GAAGC
110581002 TCGAAGGCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
18 8 0.22
19 7 0.19
20 8 0.22
21 13 0.36
ACGTcount: A:0.40, C:0.23, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAGCACACAAGTGCTAAACG
Found at i:110580978 original size:39 final size:39
Alignment explanation
Indices: 110580920--110581019 Score: 164
Period size: 39 Copynumber: 2.6 Consensus size: 39
110580910 TCGTGATCTA
* * *
110580920 AAGCCCGAAGTCTAGCTGAAGCACATAAGTGCTAAACGG
1 AAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGG
110580959 AAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGG
1 AAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGG
*
110580998 AAGCTCGAAGGCTAACTGAAGC
1 AAGCCCGAAGGCTAACTGAAGC
110581020 TCATCGAGCT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.37, C:0.24, G:0.26, T:0.13
Consensus pattern (39 bp):
AAGCCCGAAGGCTAACTGAAGCACACAAGTGCTAAACGG
Found at i:110581020 original size:18 final size:18
Alignment explanation
Indices: 110580958--110581021 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
110580948 GTGCTAAACG
*
110580958 GAAGCCCGAAGGCTAACT
1 GAAGCTCGAAGGCTAACT
* * *
110580976 GAAGCACACAAGTGCTAAACG
1 GAAGCTC-GAAG-GCT-AACT
110580997 GAAGCTCGAAGGCTAACT
1 GAAGCTCGAAGGCTAACT
110581015 GAAGCTC
1 GAAGCTC
110581022 ATCGAGCTGA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 16 0.43
19 6 0.16
20 6 0.16
21 9 0.24
ACGTcount: A:0.36, C:0.25, G:0.27, T:0.12
Consensus pattern (18 bp):
GAAGCTCGAAGGCTAACT
Found at i:110581085 original size:20 final size:20
Alignment explanation
Indices: 110581072--110581113 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
110581062 CATATGAGTC
110581072 AACGAAAGCTCATAAGAGCT
1 AACGAAAGCTCATAAGAGCT
110581092 AACGAAAGCTCATAAGAGCT
1 AACGAAAGCTCATAAGAGCT
110581112 AA
1 AA
110581114 ACGGAAAGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.48, C:0.19, G:0.19, T:0.14
Consensus pattern (20 bp):
AACGAAAGCTCATAAGAGCT
Found at i:110581845 original size:25 final size:25
Alignment explanation
Indices: 110581817--110581867 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
110581807 TGACAGTTCC
110581817 AACCCTTCTTCACTAAAAATTAATT
1 AACCCTTCTTCACTAAAAATTAATT
110581842 AACCCTTCTTCACTAAAAATTAATT
1 AACCCTTCTTCACTAAAAATTAATT
110581867 A
1 A
110581868 TCTTCTCGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.35
Consensus pattern (25 bp):
AACCCTTCTTCACTAAAAATTAATT
Found at i:110582155 original size:20 final size:20
Alignment explanation
Indices: 110582130--110582168 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
110582120 TATTTTGTTC
110582130 ACAAAGTTAGCTTACTGCTT
1 ACAAAGTTAGCTTACTGCTT
110582150 ACAAAGTTAGCTTACTGCT
1 ACAAAGTTAGCTTACTGCT
110582169 GCTGTCCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (20 bp):
ACAAAGTTAGCTTACTGCTT
Found at i:110582626 original size:15 final size:15
Alignment explanation
Indices: 110582606--110582644 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
110582596 GGTGCAAAAA
*
110582606 TTATGGAATACCAGC
1 TTATGGAACACCAGC
110582621 TTATGGAACACCAGC
1 TTATGGAACACCAGC
110582636 TTATGGAAC
1 TTATGGAAC
110582645 CCCTCCTATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (15 bp):
TTATGGAACACCAGC
Found at i:110584627 original size:21 final size:20
Alignment explanation
Indices: 110584603--110584657 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 20
110584593 CGTGTGCCCT
* *
110584603 CTCCACACGGGCGTATGAGGC
1 CTCCACACGGGCCTAT-AGAC
*
110584624 CTCCACATGGGCCTATAGAC
1 CTCCACACGGGCCTATAGAC
*
110584644 CCCCACAC-GGCCTA
1 CTCCACACGGGCCTA
110584658 GGCAATACCA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 6 0.21
20 9 0.31
21 14 0.48
ACGTcount: A:0.22, C:0.40, G:0.24, T:0.15
Consensus pattern (20 bp):
CTCCACACGGGCCTATAGAC
Found at i:110584794 original size:141 final size:141
Alignment explanation
Indices: 110584540--110584796 Score: 424
Period size: 141 Copynumber: 1.8 Consensus size: 141
110584530 GTCTCATCTA
*
110584540 TTCTTAATTTTTAGCATTTTTGGACAGTGAGTTACACGGGCTATTCATACAGGCGTGTGCCCTCT
1 TTCTTAATTTTTAGCATTTTTGGACAGTGAGTTACACGGGCTATTCACACAGGCGTGTGCCCTCT
*
110584605 CCACACGGGCGTATGAGGCCTCCACATGGGCCTATAGACCCCCACACGGCCTAGGCAATACCACA
66 CCACACGGGCATATGAGGCCTCCACATGGGCCTATAGACCCCCACACGGCCTAGGCAATACCACA
110584670 CGGCCATGTGG
131 CGGCCATGTGG
* * * *
110584681 TTCTTAATTTTTAGTATTTTTGGACAGTGAGTTACATGGGCTGTTCACACGGGCGTGTGCCCTCT
1 TTCTTAATTTTTAGCATTTTTGGACAGTGAGTTACACGGGCTATTCACACAGGCGTGTGCCCTCT
* * * *
110584746 CCACACGGGCATTTGAGGCCTCCATATGGGCGTGTAGACCCCCACACGGCC
66 CCACACGGGCATATGAGGCCTCCACATGGGCCTATAGACCCCCACACGGCC
110584797 ATGTGGTTCT
Statistics
Matches: 106, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
141 106 1.00
ACGTcount: A:0.20, C:0.28, G:0.25, T:0.27
Consensus pattern (141 bp):
TTCTTAATTTTTAGCATTTTTGGACAGTGAGTTACACGGGCTATTCACACAGGCGTGTGCCCTCT
CCACACGGGCATATGAGGCCTCCACATGGGCCTATAGACCCCCACACGGCCTAGGCAATACCACA
CGGCCATGTGG
Found at i:110589025 original size:104 final size:104
Alignment explanation
Indices: 110588890--110589156 Score: 455
Period size: 104 Copynumber: 2.6 Consensus size: 104
110588880 TTGTATATAA
** *
110588890 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
110588955 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
110588994 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATCT
110589058 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
110589098 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCA
110589157 ATAACGGTTA
Statistics
Matches: 153, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
104 152 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.31, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:110602250 original size:99 final size:105
Alignment explanation
Indices: 110602099--110602327 Score: 332
Period size: 99 Copynumber: 2.2 Consensus size: 105
110602089 CACCGCTGAT
110602099 CGGGAATCAAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAA
1 CGGGAATC-AGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAA
*
110602164 AGATAT-GTGGAT-ATC-CACTTAG-ACCACC-AATGA-A-C
65 AGATATGGTGGATCA-CGCACATAGCACCACCAAATGACATC
110602199 CGGGAATCAGCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAA
1 CGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAA-CCCCTTTCACATTTCAA
110602263 AGATATGGTGGATCACGCACATAGCACCACCAAATGACATC
65 AGATATGGTGGATCACGCACATAGCACCACCAAATGACATC
* **
110602304 GGGGAATCA-CACACAGCAACCCCT
1 CGGGAATCAGCACTTAGCAACCCCT
110602328 TTATATACAA
Statistics
Matches: 117, Mismatches: 4, Indels: 12
0.88 0.03 0.09
Matches are distributed among these distances:
98 20 0.17
99 41 0.35
100 15 0.13
101 7 0.06
102 6 0.05
103 5 0.04
104 14 0.12
105 9 0.08
ACGTcount: A:0.33, C:0.31, G:0.18, T:0.18
Consensus pattern (105 bp):
CGGGAATCAGCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCTTTCACATTTCAAA
GATATGGTGGATCACGCACATAGCACCACCAAATGACATC
Found at i:110625938 original size:26 final size:27
Alignment explanation
Indices: 110625887--110625951 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 27
110625877 TTAAAAGTTA
*
110625887 AATTATATTAATTAAAACATGATTAATT
1 AATTA-ATTAATTAAAACAAGATTAATT
110625915 AATTAATTAATT-AAACTAAG-TTAATT
1 AATTAATTAATTAAAAC-AAGATTAATT
*
110625941 AACT-ATTAATT
1 AATTAATTAATT
110625952 GAAGTATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
25 7 0.21
26 13 0.38
27 9 0.26
28 5 0.15
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (27 bp):
AATTAATTAATTAAAACAAGATTAATT
Found at i:110628197 original size:14 final size:14
Alignment explanation
Indices: 110628178--110628208 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
110628168 ATGATTGTTT
*
110628178 TAATCTAAATTTAC
1 TAATCTAAATTAAC
110628192 TAATCTAAATTAAC
1 TAATCTAAATTAAC
110628206 TAA
1 TAA
110628209 GAACTCGACA
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:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:110631168 original size:20 final size:21
Alignment explanation
Indices: 110631145--110631185 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
110631135 TATTGTGCCA
110631145 TATTTATT-GTTGTTGTATTT
1 TATTTATTCGTTGTTGTATTT
*
110631165 TATTTATTCGTTGTTTTATTT
1 TATTTATTCGTTGTTGTATTT
110631186 GTTATATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.15, C:0.02, G:0.12, T:0.71
Consensus pattern (21 bp):
TATTTATTCGTTGTTGTATTT
Found at i:110634400 original size:16 final size:18
Alignment explanation
Indices: 110634361--110634394 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
110634351 TAAGTTTATA
110634361 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
110634378 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
110634395 AATTTAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:110636439 original size:18 final size:19
Alignment explanation
Indices: 110636399--110636439 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
110636389 AGTTTTTATC
*
110636399 TTTTACTTGTTTCTTTTCG
1 TTTTACTTGTTTCTTTTCA
*
110636418 TTTT-CTTGTTTCTTTTTA
1 TTTTACTTGTTTCTTTTCA
110636436 TTTT
1 TTTT
110636440 TTACAAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.05, C:0.12, G:0.07, T:0.76
Consensus pattern (19 bp):
TTTTACTTGTTTCTTTTCA
Found at i:110637224 original size:24 final size:24
Alignment explanation
Indices: 110637190--110637326 Score: 107
Period size: 26 Copynumber: 5.5 Consensus size: 24
110637180 TTTATATGTG
* * *
110637190 ATTTATATTAAGCTTATTTATTTT
1 ATTTATTTTAAACTTATTTATCTT
* *
110637214 ATTTACTTTAAATCTT-TTCATATGTT
1 ATTTATTTTAAA-CTTATT--TATCTT
*
110637240 ATTTATTTTAAACTTACTTATCTT
1 ATTTATTTTAAACTTATTTATCTT
*
110637264 ATTTATTTTAAATCTT-TTCATATATT
1 ATTTATTTTAAA-CTTATT--TATCTT
* * *
110637290 GTTTATTTTAAACTTTTTATATATT
1 ATTTATTTTAAACTTATT-TATCTT
110637315 ATTTATTTTAAA
1 ATTTATTTTAAA
110637327 TATTTTTTAT
Statistics
Matches: 94, Mismatches: 11, Indels: 15
0.78 0.09 0.12
Matches are distributed among these distances:
24 29 0.31
25 30 0.32
26 35 0.37
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (24 bp):
ATTTATTTTAAACTTATTTATCTT
Found at i:110637237 original size:50 final size:50
Alignment explanation
Indices: 110637183--110637382 Score: 190
Period size: 50 Copynumber: 3.9 Consensus size: 50
110637173 TTATTTATTT
* * *
110637183 ATATGTGATTTATATTAAGCTTATTTATTTTATTTACTTTAAATCTTTTC
1 ATATGTGATTTATTTTAAACTTATTTATTTTATTTATTTTAAATCTTTTC
* * *
110637233 ATATGTTATTTATTTTAAACTTACTTATCTTATTTATTTTAAATCTTTTC
1 ATATGTGATTTATTTTAAACTTATTTATTTTATTTATTTTAAATCTTTTC
* * *
110637283 ATATATTG-TTTATTTTAAACTT-TTTATATATTATTTATTTTAAATATTTTTTAT
1 ATAT-GTGATTTATTTTAAACTTATTTAT-T-TTATTTATTTT-AA-ATCTTTT-C
* * *
110637337 ATATATTATTTATTTTAAAC-TATTTTATATATTATCTATTTTAAAT
1 ATATGTGATTTATTTTAAACTTA-TTTAT-T-TTATTTATTTTAAAT
110637383 TTTCACATAT
Statistics
Matches: 126, Mismatches: 15, Indels: 15
0.81 0.10 0.10
Matches are distributed among these distances:
49 4 0.03
50 62 0.49
51 12 0.10
52 2 0.02
53 10 0.08
54 18 0.14
55 18 0.14
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (50 bp):
ATATGTGATTTATTTTAAACTTATTTATTTTATTTATTTTAAATCTTTTC
Found at i:110637242 original size:26 final size:26
Alignment explanation
Indices: 110637212--110637562 Score: 216
Period size: 26 Copynumber: 13.3 Consensus size: 26
110637202 CTTATTTATT
* *
110637212 TTATTTACTTTAAATCTTTTCATATG
1 TTATTTATTTTAAATCTTTTCATATA
* * *
110637238 TTATTTATTTTAAA-C-TTACTTATC
1 TTATTTATTTTAAATCTTTTCATATA
110637262 TTATTTATTTTAAATCTTTTCATATA
1 TTATTTATTTTAAATCTTTTCATATA
* *
110637288 TTGTTTATTTTAAA-CTTTTTATATA
1 TTATTTATTTTAAATCTTTTCATATA
* *
110637313 TTATTTATTTTAAATATTTTTTATATATA
1 TTATTTATTTT-AA-ATCTTTT-CATATA
*
110637342 TTATTTATTTTAAA-CTATTTTATATA
1 TTATTTATTTTAAATCT-TTTCATATA
* *
110637368 TTATCTATTTTAAAT-TTTCACATATA
1 TTATTTATTTTAAATCTTT-TCATATA
* * * * *
110637394 ATATTCAATTTAAA-CTGTTTTATATG
1 TTATTTATTTTAAATCT-TTTCATATA
* ** * *
110637420 TTATTCATTTTAAAAATTTTAAGCTGTTTTA
1 TTATTTATTTTAAATCTTTT---C--ATATA
* * *
110637451 TTATTTATTTTAAGTTTTTTTCATACA
1 TTATTTATTTTAA-ATCTTTTCATATA
* * **
110637478 TTATTTATTTGAAACTGTTTTTTTATA
1 TTATTTATTTTAAA-TCTTTTCATATA
* * *
110637505 TTATTTACTTTAAGT-TCTTTCATTTA
1 TTATTTATTTTAAATCT-TTTCATATA
*
110637531 TTATTTATTTTAAA-CTTTT-TTATA
1 TTATTTATTTTAAATCTTTTCATATA
110637555 TTATTTAT
1 TTATTTAT
110637563 ATATTATTTT
Statistics
Matches: 252, Mismatches: 52, Indels: 44
0.72 0.15 0.13
Matches are distributed among these distances:
24 31 0.12
25 28 0.11
26 110 0.44
27 41 0.16
28 6 0.02
29 18 0.07
31 14 0.06
32 4 0.02
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (26 bp):
TTATTTATTTTAAATCTTTTCATATA
Found at i:110637329 original size:16 final size:16
Alignment explanation
Indices: 110637304--110637360 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
110637294 ATTTTAAACT
*
110637304 TTTTATATATTATTTA
1 TTTTAAATATTATTTA
110637320 TTTTAAATA-T-TTT-
1 TTTTAAATATTATTTA
* *
110637333 TTATATATATTATTTA
1 TTTTAAATATTATTTA
110637349 TTTTAAACTATT
1 TTTTAAA-TATT
110637361 TTATATATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
13 7 0.22
14 4 0.12
15 4 0.12
16 13 0.41
17 4 0.12
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTTAAATATTATTTA
Found at i:110637353 original size:80 final size:80
Alignment explanation
Indices: 110637212--110637562 Score: 226
Period size: 80 Copynumber: 4.4 Consensus size: 80
110637202 CTTATTTATT
* * * ** *
110637212 TTATTTACTTTAAATCTTTTCATATGTTATTTATTTT-AA-AC-TTACT-TATCTTATTTATTTT
1 TTATTTATTTTAAA-CTTTTTATATATTATTTATTTTAAATACTTTTTTATATATTATTTATTTT
110637273 AAATCT-TTTCATATA
65 AAATCTATTTCATATA
* *
110637288 TTGTTTATTTTAAACTTTTTATATATTATTTATTTTAAATATTTTTTATATATATTATTTATTTT
1 TTATTTATTTTAAACTTTTTATATATTATTTATTTTAAATACTTTTT-TATATATTATTTATTTT
*
110637353 AAA-CTATTTTATATA
65 AAATCTATTTCATATA
* * * * * * * *
110637368 TTATCTATTTTAAA-TTTTCACATATAATATTCAATTT-AA-ACTGTTTTATATGTTATTCATTT
1 TTATTTATTTTAAACTTTT--TATATATTATTTATTTTAAATACTTTTTTATATATTATTTATTT
** * *
110637430 TAAAAAT-TTTAAGCTGTTTTA
64 TAAATCTATTT---C--ATATA
** * * * *
110637451 TTATTTATTTTAAGTTTTTTTCATACATTATTTA-TTTGAA-ACTGTTTTTTTATATTATTTACT
1 TTATTTATTTTAA-ACTTTTT-ATATATTATTTATTTTAAATACT-TTTTTATATATTATTTATT
* * *
110637514 TTAAGT-TCTTTCATTTA
63 TTAAATCTATTTCATATA
110637531 TTATTTATTTTAAACTTTTT-TATATTATTTAT
1 TTATTTATTTTAAACTTTTTATATATTATTTAT
110637563 ATATTATTTT
Statistics
Matches: 214, Mismatches: 40, Indels: 40
0.73 0.14 0.14
Matches are distributed among these distances:
75 20 0.09
76 14 0.07
77 11 0.05
78 23 0.11
79 18 0.08
80 56 0.26
81 13 0.06
82 1 0.00
83 18 0.08
84 15 0.07
85 25 0.12
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (80 bp):
TTATTTATTTTAAACTTTTTATATATTATTTATTTTAAATACTTTTTTATATATTATTTATTTTA
AATCTATTTCATATA
Found at i:110637540 original size:53 final size:51
Alignment explanation
Indices: 110637449--110637561 Score: 147
Period size: 53 Copynumber: 2.2 Consensus size: 51
110637439 TAAGCTGTTT
* *
110637449 TATTATTTATTTTAAGTTTTTTTCATACATTATTTATTTGAAACTGTTTTTTTA
1 TATTATTTACTTTAAGTTTCTTTCATACATTATTTATTTGAAAC---TTTTTTA
** *
110637503 TATTATTTACTTTAAG-TTCTTTCATTTATTATTTATTTTAAACTTTTTTA
1 TATTATTTACTTTAAGTTTCTTTCATACATTATTTATTTGAAACTTTTTTA
110637553 TATTATTTA
1 TATTATTTA
110637562 TATATTATTT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
50 16 0.30
53 23 0.43
54 15 0.28
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.64
Consensus pattern (51 bp):
TATTATTTACTTTAAGTTTCTTTCATACATTATTTATTTGAAACTTTTTTA
Found at i:110647458 original size:2 final size:2
Alignment explanation
Indices: 110647451--110647486 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
110647441 CAAGTCTAAC
110647451 TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
110647487 TTGTAAATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:110647473 original size:17 final size:17
Alignment explanation
Indices: 110647451--110647483 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
110647441 CAAGTCTAAC
110647451 TATATATATATATATAA
1 TATATATATATATATAA
110647468 TATATATATATATATA
1 TATATATATATATATA
110647484 TATTTGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATATATATATATAA
Found at i:110655068 original size:16 final size:16
Alignment explanation
Indices: 110655024--110655069 Score: 67
Period size: 16 Copynumber: 2.8 Consensus size: 16
110655014 ATGAACTTTA
110655024 TTTATTAAAATAATAAT
1 TTTATTAAAA-AATAAT
110655041 TTTA-TAATAAAATAAT
1 TTTATTAA-AAAATAAT
110655057 TTTATTAAAAAAT
1 TTTATTAAAAAAT
110655070 TCACTAGACT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 18 0.67
17 9 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TTTATTAAAAAATAAT
Found at i:110657246 original size:20 final size:20
Alignment explanation
Indices: 110657216--110657259 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
110657206 AAGTAAAGGA
*
110657216 AAAAGGTTTTGAAGAGGAAAT
1 AAAAGGTTTTG-AGAGGAAAG
*
110657237 AAAA-GTTTTGGGAGGAAAG
1 AAAAGGTTTTGAGAGGAAAG
110657256 AAAA
1 AAAA
110657260 AGGGAAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 11 0.52
20 6 0.29
21 4 0.19
ACGTcount: A:0.50, C:0.00, G:0.30, T:0.20
Consensus pattern (20 bp):
AAAAGGTTTTGAGAGGAAAG
Found at i:110657246 original size:47 final size:49
Alignment explanation
Indices: 110657183--110657274 Score: 129
Period size: 47 Copynumber: 1.9 Consensus size: 49
110657173 CGGGGTTTAG
*
110657183 GGAAATTAAAAGTTTTGGG-GAGAAAG-TAAA-GGAAAAAGGTTTTGAAGA
1 GGAAATTAAAAGTTTTGGGAG-GAAAGAAAAAGGGAAAAA-GTTTTGAAGA
110657231 GGAAA-TAAAAGTTTTGGGAGGAAAGAAAAAGGGAAAAAGTTTTG
1 GGAAATTAAAAGTTTTGGGAGGAAAGAAAAAGGGAAAAAGTTTTG
110657275 GGAGTTTGGG
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
47 18 0.45
48 15 0.38
49 7 0.17
ACGTcount: A:0.47, C:0.00, G:0.32, T:0.22
Consensus pattern (49 bp):
GGAAATTAAAAGTTTTGGGAGGAAAGAAAAAGGGAAAAAGTTTTGAAGA
Found at i:110657260 original size:20 final size:21
Alignment explanation
Indices: 110657214--110657261 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
110657204 GAAAGTAAAG
110657214 GAAAAAGGTTTTGAAGAGGAAA
1 GAAAAA-GTTTTGAAGAGGAAA
* *
110657236 -TAAAAGTTTTG-GGAGGAAA
1 GAAAAAGTTTTGAAGAGGAAA
110657255 GAAAAAG
1 GAAAAAG
110657262 GGAAAAAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
19 7 0.32
20 11 0.50
21 4 0.18
ACGTcount: A:0.50, C:0.00, G:0.31, T:0.19
Consensus pattern (21 bp):
GAAAAAGTTTTGAAGAGGAAA
Found at i:110660093 original size:46 final size:46
Alignment explanation
Indices: 110660041--110660222 Score: 249
Period size: 46 Copynumber: 4.0 Consensus size: 46
110660031 ACTTTCCGAA
* * *
110660041 ATGAAATGTGTAAGACCATGGTTGAAAAATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
110660087 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
110660133 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATTAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
110660179 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
110660223 TCGAAGATAA
Statistics
Matches: 122, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
45 1 0.01
46 121 0.99
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.22
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:110662867 original size:35 final size:35
Alignment explanation
Indices: 110662758--110662988 Score: 295
Period size: 35 Copynumber: 6.6 Consensus size: 35
110662748 TCCTTATTGA
*
110662758 AATACCATACCTATATTTCACAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCGGTAT-GGAT
* * * *** * **
110662793 AATGCCATATCTAC-GTTCTTGACTCAGTATATAT
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
110662827 AATACCATACCTACATTTCACAACTCGGTATGGAT
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
*
110662862 GATACCATACCTACATTTCACAACTCGGTATGGAT
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
* *
110662897 GATACCATACCTACATTTCACAACTCGGTATGGTT
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
*
110662932 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
* *
110662967 GATACCATACCTACGTTTCACA
1 AATACCATACCTACATTTCACA
110662989 CTTTTACATG
Statistics
Matches: 168, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
33 1 0.01
34 23 0.14
35 144 0.86
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.30
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCGGTATGGAT
Found at i:110663721 original size:5 final size:5
Alignment explanation
Indices: 110663711--110663756 Score: 85
Period size: 5 Copynumber: 9.4 Consensus size: 5
110663701 TTATGTTTTA
110663711 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
110663757 AAACTAAAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.10
5 36 0.90
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:110665046 original size:15 final size:15
Alignment explanation
Indices: 110665026--110665082 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
110665016 CGATGAATTT
110665026 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
110665041 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
110665056 ATTGAATTTATATTG
1 ATTGAATTTATATTG
110665071 ATTGAA-TTATAT
1 ATTGAATTTATAT
110665083 AATATACATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:110665503 original size:21 final size:23
Alignment explanation
Indices: 110665454--110665519 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
110665444 GCTTTATCGA
110665454 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
* *
110665477 TCAGGCACCTTGTGTGTCGT-TT
1 TCAGGCACTTTATGTGTCGTATT
110665499 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
110665520 ACTGATCAGG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 16 0.42
22 4 0.11
23 18 0.47
ACGTcount: A:0.15, C:0.18, G:0.24, T:0.42
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:110670741 original size:46 final size:47
Alignment explanation
Indices: 110670648--110670799 Score: 155
Period size: 47 Copynumber: 3.2 Consensus size: 47
110670638 ATAGTAAAAC
* * * * *
110670648 TATGGTCTTGCACA-TAGTCACATATTACACACCGAAGCCATAGCCCAGC
1 TATGGTCTTACACAGGA-TCACATA-T-CACACCGATGCCATAACCCAGA
* *
110670697 CATGGTCTTACAC-GGATCACATATCACACTGATGCCATAACCCAGA
1 TATGGTCTTACACAGGATCACATATCACACCGATGCCATAACCCAGA
* * * * *
110670743 TATGGTTTTATACAGTAGCACATATCACACCGATGCCATATCCCAGA
1 TATGGTCTTACACAGGATCACATATCACACCGATGCCATAACCCAGA
110670790 TATGGTCTTA
1 TATGGTCTTA
110670800 TGCGGAAGCA
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
46 28 0.33
47 39 0.45
48 7 0.08
49 12 0.14
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (47 bp):
TATGGTCTTACACAGGATCACATATCACACCGATGCCATAACCCAGA
Found at i:110670771 original size:54 final size:51
Alignment explanation
Indices: 110670719--110670978 Score: 253
Period size: 53 Copynumber: 5.0 Consensus size: 51
110670709 CGGATCACAT
* * * *
110670719 ATCACACTGATGCCATAACCCAGATATGGTTTTATACAGTAGCACAT-AT--C
1 ATCACAC-GATGCCATAGCCCAGATATGGTCTTATAC-GAATCACATGATCAC
* * * * *
110670769 A-CAC-CGATGCCATATCCCAGATATGGTCTTATGCGGAAGCACATAATTAC
1 ATCACACGATGCCATAGCCCAGATATGGTCTTATAC-GAATCACATGATCAC
* * *
110670819 ATCTCTCCGATGCCATAGCCCAGTTATGGTCTTATACGGAAATCACATGATCAC
1 ATCAC-ACGATGCCATAGCCCAGATATGGTCTTATAC-G-AATCACATGATCAC
* *
110670873 ATCACACCGATGCCATAGTCCAGCTATGGTCTTATACGAAATCACATGATCAC
1 ATCACA-CGATGCCATAGCCCAGATATGGTCTTATACG-AATCACATGATCAC
* *
110670926 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGATCACAT-ATCAC
1 ATCACA-CGATGCCATAGCCCAGATATGGTCTTATACGAATCACATGATCAC
110670977 AT
1 AT
110670979 GTTGCCATGG
Statistics
Matches: 184, Mismatches: 18, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
47 34 0.18
48 3 0.02
49 3 0.02
50 3 0.02
51 9 0.05
52 7 0.04
53 82 0.45
54 43 0.23
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (51 bp):
ATCACACGATGCCATAGCCCAGATATGGTCTTATACGAATCACATGATCAC
Found at i:110670852 original size:53 final size:53
Alignment explanation
Indices: 110670766--110670978 Score: 304
Period size: 53 Copynumber: 4.0 Consensus size: 53
110670756 AGTAGCACAT
* * * * * *
110670766 ATCACACCGATGCCATATCCCAGATATGGTCTTATGCGGAAGCACATAATTAC
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATGATCAC
* * *
110670819 ATCTCTCCGATGCCATAGCCCAGTTATGGTCTTATACGGAAATCACATGATCAC
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGG-AATCACATGATCAC
* *
110670873 ATCACACCGATGCCATAGTCCAGCTATGGTCTTATACGAAATCACATGATCAC
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATGATCAC
110670926 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGG-ATCACAT-ATCAC
1 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATGATCAC
110670977 AT
1 AT
110670979 GTTGCCATGG
Statistics
Matches: 144, Mismatches: 15, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
51 7 0.05
52 7 0.05
53 85 0.59
54 45 0.31
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (53 bp):
ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATGATCAC
Found at i:110670906 original size:107 final size:104
Alignment explanation
Indices: 110670766--110670978 Score: 302
Period size: 107 Copynumber: 2.0 Consensus size: 104
110670756 AGTAGCACAT
* * * * *
110670766 ATCACACCGATGCCATATCCCAGATATGGTCTTATGCGGAAGCACATAATTACATCTCTCCGATG
1 ATCACACCGATGCCATATCCCAGATATGGTCTTATACGAAAGCACATAATCACATCACACCGATG
*
110670831 CCATAGCCCAGTTATGGTCTTATACGGAAATCACATGATCAC
66 CCATAGCCCAGCTATGGTCTTATACGG--ATCACAT-ATCAC
* * *
110670873 ATCACACCGATGCCATAGT-CCAGCTATGGTCTTATACGAAATCACATGATCACATCACACCGAT
1 ATCACACCGATGCCATA-TCCCAGATATGGTCTTATACGAAAGCACATAATCACATCACACCGAT
110670937 GCCATAGCCCAGCTATGGTCTTATACGGATCACATATCAC
65 GCCATAGCCCAGCTATGGTCTTATACGGATCACATATCAC
110670977 AT
1 AT
110670979 GTTGCCATGG
Statistics
Matches: 96, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
104 7 0.07
105 7 0.07
107 81 0.84
108 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (104 bp):
ATCACACCGATGCCATATCCCAGATATGGTCTTATACGAAAGCACATAATCACATCACACCGATG
CCATAGCCCAGCTATGGTCTTATACGGATCACATATCAC
Found at i:110672751 original size:20 final size:21
Alignment explanation
Indices: 110672717--110672770 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
110672707 TGATGATATT
*
110672717 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATAAGATA
110672738 -TATATTATTTTAATAAGATA
1 TTATATTATTTTAATAAGATA
*
110672758 TTTTATTATTTTA
1 TTATATTATTTTA
110672771 TTATTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATAAGATA
Found at i:110672776 original size:11 final size:11
Alignment explanation
Indices: 110672760--110672787 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
110672750 ATAAGATATT
110672760 TTATTATTTTA
1 TTATTATTTTA
110672771 TTATTATTTTA
1 TTATTATTTTA
110672782 TTATTA
1 TTATTA
110672788 ATTATTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:110676777 original size:84 final size:83
Alignment explanation
Indices: 110676602--110676762 Score: 295
Period size: 84 Copynumber: 1.9 Consensus size: 83
110676592 ATTTAGGCCT
* *
110676602 TGGACTTGATAATTATTCCCACATTAGGGTTTGAACTTTTTTTATCCAAATTAGTCCCTGAACTT
1 TGGACTTGATAATTATTCCCACATTAGGGCTTGAACTTTTTTTATCCAAATTAGTCCCTAAACTT
110676667 GACAATTATTCTAATACC
66 GACAATTATTCTAATACC
110676685 TGGACTTGATAATTATTCCCACATTAGGGCTTGAACTTTTTTTTATCCAAATTAGTCCCTAAACT
1 TGGACTTGATAATTATTCCCACATTAGGGCTTGAAC-TTTTTTTATCCAAATTAGTCCCTAAACT
110676750 TGACAATTATTCT
65 TGACAATTATTCT
110676763 CATATTGAGG
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
83 35 0.47
84 40 0.53
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (83 bp):
TGGACTTGATAATTATTCCCACATTAGGGCTTGAACTTTTTTTATCCAAATTAGTCCCTAAACTT
GACAATTATTCTAATACC
Found at i:110678073 original size:19 final size:19
Alignment explanation
Indices: 110678049--110678087 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
110678039 TAAAATTAAG
*
110678049 TAATCAACACGTATTAATA
1 TAATCAACACATATTAATA
110678068 TAATCAACACATATTAATA
1 TAATCAACACATATTAATA
110678087 T
1 T
110678088 TTAGTAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.33
Consensus pattern (19 bp):
TAATCAACACATATTAATA
Found at i:110678955 original size:48 final size:48
Alignment explanation
Indices: 110678900--110678995 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 48
110678890 ATTAATGGTG
* *
110678900 TTTGAAAATGACCAA-ACTGTAGGAGCTATAAAACTTTCTTTTGATCTT
1 TTTGAAAAAGACCAATA-TGCAGGAGCTATAAAACTTTCTTTTGATCTT
110678948 TTTGAAAAAGACCAATATGCAGGAGCTATAAAACTTTCTTTTGATCTT
1 TTTGAAAAAGACCAATATGCAGGAGCTATAAAACTTTCTTTTGATCTT
110678996 GTACTTGCCT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
48 44 0.98
49 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (48 bp):
TTTGAAAAAGACCAATATGCAGGAGCTATAAAACTTTCTTTTGATCTT
Found at i:110686639 original size:149 final size:150
Alignment explanation
Indices: 110686316--110686831 Score: 794
Period size: 150 Copynumber: 3.5 Consensus size: 150
110686306 AAAAATTTTC
* * * *
110686316 GTATTTTTAAAATTTTCGAATCTTATTTTTTAAAATATACTATTTTCATATTTTATTTTTTTTAT
1 GTATTTTTAAAATTTTCAAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATAT
* *
110686381 TATTTTAGTACATAATGTTTCAAATATATTATTTTAGTGTTTTTTATATTAATTTAGTAAATAAC
66 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTATATTAATTTAGTAAATAAC
* *
110686446 CCTGATTTTGGCCATTTGTT
131 CCTGATTTTGACCCTTTGTT
110686466 CGTATTTTTAAAATTTTCAAATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTATA
1 -GTATTTTTAAAATTTTCAAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATA
*
110686530 TTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGT-TTTTTTATATTAATTTAGAAAATAA
65 TTATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTATATTAATTTAGTAAATAA
*
110686594 CCTTGATTTTGACCCTTTGCTT
130 CCCTGATTTTGACCCTTTG-TT
***
110686616 GTATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATAT
1 GTATTTTTAAAATTTTCAAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATAT
110686681 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTT-TATTAATTTAGTAAATAAC
66 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTATATTAATTTAGTAAATAAC
* * *
110686745 CCTAATTTTGTCACTTTGTTT
131 CCTGATTTTGACCCTTTG-TT
* *
110686766 GTATTTTTAAAATTTTCAGA--TT-TTTTTT-AAATATACTATATTCGTATTTTATTTTTTATAT
1 GTATTTTTAAAATTTTCAAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATAT
110686827 TATTT
66 TATTT
110686832 AAAAAAAACC
Statistics
Matches: 341, Mismatches: 21, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
146 37 0.11
147 6 0.02
148 2 0.01
149 92 0.27
150 146 0.43
151 58 0.17
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (150 bp):
GTATTTTTAAAATTTTCAAATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTATAT
TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTATATTAATTTAGTAAATAAC
CCTGATTTTGACCCTTTGTT
Found at i:110686890 original size:16 final size:16
Alignment explanation
Indices: 110686869--110686942 Score: 69
Period size: 16 Copynumber: 4.6 Consensus size: 16
110686859 CAAAAAAAAA
110686869 TTATTTTTTTCATATT
1 TTATTTTTTTCATATT
* *
110686885 TTATTTCTATTCGTATT
1 TTATTT-TTTTCATATT
**
110686902 TTA-TTTTTTCATTAAG
1 TTATTTTTTTCA-TATT
* *
110686918 ATATTTTTTTAATATT
1 TTATTTTTTTCATATT
110686934 TTATTTTTT
1 TTATTTTTT
110686943 ATACTATTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
15 4 0.09
16 22 0.50
17 18 0.41
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.70
Consensus pattern (16 bp):
TTATTTTTTTCATATT
Found at i:110687314 original size:12 final size:12
Alignment explanation
Indices: 110687290--110687322 Score: 57
Period size: 12 Copynumber: 2.7 Consensus size: 12
110687280 ATAATAATAA
110687290 TTCTTCTTTTCTT
1 TTCTTC-TTTCTT
110687303 TTCTTCTTTCTT
1 TTCTTCTTTCTT
110687315 TTCTTCTT
1 TTCTTCTT
110687323 CTCCTTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTCTTCTTTCTT
Found at i:110687330 original size:17 final size:18
Alignment explanation
Indices: 110687292--110687336 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
110687282 AATAATAATT
110687292 CTTCTTTTCTT-TTCTTC
1 CTTCTTTTCTTCTTCTTC
*
110687309 TTTCTTTTCTTCTTC-TC
1 CTTCTTTTCTTCTTCTTC
110687326 CTTC-TTTCTTC
1 CTTCTTTTCTTC
110687337 CCAAAATGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 7 0.28
17 15 0.60
18 3 0.12
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (18 bp):
CTTCTTTTCTTCTTCTTC
Found at i:110687623 original size:22 final size:23
Alignment explanation
Indices: 110687573--110687623 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
110687563 CATTTTCGTC
110687573 ATTAGT-TTTTGCCTTATACCAT
1 ATTAGTATTTTGCCTTATACCAT
* *
110687595 -TTAAGTATTTTG-TTTATACTAT
1 ATT-AGTATTTTGCCTTATACCAT
110687617 ATTAGTA
1 ATTAGTA
110687624 AAAAACCCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
21 2 0.08
22 15 0.62
23 7 0.29
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.53
Consensus pattern (23 bp):
ATTAGTATTTTGCCTTATACCAT
Found at i:110690202 original size:3 final size:3
Alignment explanation
Indices: 110690194--110690370 Score: 135
Period size: 3 Copynumber: 59.7 Consensus size: 3
110690184 TAATATTTCA
* * ** *
110690194 ATT ATT ATT ATT GTT ATT ATT -TT TTT ATT ACC ATT ATT ATT ACT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
110690241 ACT ATT ATT TTT ATT ACT ATT ATT ACT ACT ATT -TT CGTT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT
* * * * * * *
110690286 ACT ATT ACT ATT ATT TTT ATT ACT ATT ATT ATT ACT ATT TTT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
110690334 ATT ATT ATT ACT ATT -GT ATT ATT ACT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
110690371 ATTTTCTTTC
Statistics
Matches: 133, Mismatches: 37, Indels: 8
0.75 0.21 0.04
Matches are distributed among these distances:
2 5 0.04
3 126 0.95
4 2 0.02
ACGTcount: A:0.28, C:0.08, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:110690295 original size:51 final size:51
Alignment explanation
Indices: 110690227--110690376 Score: 241
Period size: 51 Copynumber: 3.0 Consensus size: 51
110690217 TTTATTACCA
*
110690227 TTATTATTACTATTACTATTATTTTTATTACTATTATTACTACTATTTTCG
1 TTATTATTACTATTACTATTATTTTTATTACTATTATTATTACTATTTTCG
*
110690278 TTATTATTACTATTACTATTATTTTTATTACTATTATTATTACTATTTTTG
1 TTATTATTACTATTACTATTATTTTTATTACTATTATTATTACTATTTTCG
* * *
110690329 TTATTATTATTATTACTATT-GTATTATTACTATTATTATTA-TATTTTC
1 TTATTATTACTATTACTATTATTTTTATTACTATTATTATTACTATTTTC
110690377 TTTCTTTATG
Statistics
Matches: 93, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
49 6 0.06
50 19 0.20
51 68 0.73
ACGTcount: A:0.28, C:0.09, G:0.02, T:0.61
Consensus pattern (51 bp):
TTATTATTACTATTACTATTATTTTTATTACTATTATTATTACTATTTTCG
Found at i:110690522 original size:26 final size:26
Alignment explanation
Indices: 110690453--110690528 Score: 66
Period size: 26 Copynumber: 2.9 Consensus size: 26
110690443 ACATGTATTT
* **
110690453 TTTATTTTATTTTTATTTTTTATATCA
1 TTTATTTTATTTATATCATTT-TATCA
*
110690480 -TTATTCTT-GTTATTATCATTTTATCA
1 TTTATT-TTATTTA-TATCATTTTATCA
*
110690506 TTTATTTTATTTATATCCTTTTA
1 TTTATTTTATTTATATCATTTTA
110690529 AATAATTTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
26 23 0.59
27 16 0.41
ACGTcount: A:0.22, C:0.08, G:0.01, T:0.68
Consensus pattern (26 bp):
TTTATTTTATTTATATCATTTTATCA
Found at i:110693834 original size:29 final size:28
Alignment explanation
Indices: 110693775--110693835 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
110693765 ATTGTACCAA
* * **
110693775 AAAAAAATTAATTTTATTTTGATCCCTT
1 AAAAAAATTAATTTTAATTTGATACAAT
*
110693803 AAAAAATTTAATTTATAATTTGATACAAT
1 AAAAAAATTAATTT-TAATTTGATACAAT
110693832 AAAA
1 AAAA
110693836 TTGATAACAC
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 13 0.48
29 14 0.52
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (28 bp):
AAAAAAATTAATTTTAATTTGATACAAT
Found at i:110699474 original size:71 final size:71
Alignment explanation
Indices: 110699379--110699510 Score: 174
Period size: 71 Copynumber: 1.9 Consensus size: 71
110699369 GGTCACCTCT
* * * * * * *
110699379 TAGTAATTTATTGTTGTTGCATACTCATTTCAGTTACTCAATTTTAATAAATCTTTATTTTAGTC
1 TAGTAATTTAGTATTATTGCATACTCATTTCAATCACACAAATTTAATAAATCTTTATTTTAGTC
110699444 CGTTGC
66 CGTTGC
* * *
110699450 TAGTAATTTAGTATTATTGTATACTTATTTCAATCACACAAATTTAATAAATTTTTATTTT
1 TAGTAATTTAGTATTATTGCATACTCATTTCAATCACACAAATTTAATAAATCTTTATTTT
110699511 TGTAAATTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
71 51 1.00
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.50
Consensus pattern (71 bp):
TAGTAATTTAGTATTATTGCATACTCATTTCAATCACACAAATTTAATAAATCTTTATTTTAGTC
CGTTGC
Found at i:110699528 original size:18 final size:18
Alignment explanation
Indices: 110699502--110699548 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
110699492 TTTAATAAAT
110699502 TTTTATTTTTGTAAATT-A
1 TTTTATTTTT-TAAATTAA
* *
110699520 TTTTCTTTTTAAAATTAA
1 TTTTATTTTTTAAATTAA
110699538 TTTTATTTTTT
1 TTTTATTTTTT
110699549 TAAAAGAGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTATTTTTTAAATTAA
Found at i:110707130 original size:20 final size:20
Alignment explanation
Indices: 110707105--110707143 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
110707095 CGGCCTTAAA
110707105 CAAGTAAATTACAAAACCAG
1 CAAGTAAATTACAAAACCAG
110707125 CAAGTAAATTACAAAACCA
1 CAAGTAAATTACAAAACCA
110707144 AGTTTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.56, C:0.21, G:0.08, T:0.15
Consensus pattern (20 bp):
CAAGTAAATTACAAAACCAG
Found at i:110711040 original size:15 final size:15
Alignment explanation
Indices: 110711020--110711050 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
110711010 GTGAGTGAAG
110711020 GAGAAGAAAAAGAAA
1 GAGAAGAAAAAGAAA
*
110711035 GAGAAGAAAGAGAAA
1 GAGAAGAAAAAGAAA
110711050 G
1 G
110711051 TGAGGGCGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (15 bp):
GAGAAGAAAAAGAAA
Found at i:110711363 original size:27 final size:26
Alignment explanation
Indices: 110711333--110711401 Score: 102
Period size: 27 Copynumber: 2.6 Consensus size: 26
110711323 CCGGTGATCC
*
110711333 CTATCTGATAGGCGGCACTAGTTGTG
1 CTATCTGATAGGCGGCACTAGTGGTG
*
110711359 TCTATGTGATAGGCGGCACTAGTGGTG
1 -CTATCTGATAGGCGGCACTAGTGGTG
110711386 CTTATCTGATAGGCGG
1 C-TATCTGATAGGCGG
110711402 TGCACCCTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 1 0.03
27 37 0.97
ACGTcount: A:0.19, C:0.17, G:0.33, T:0.30
Consensus pattern (26 bp):
CTATCTGATAGGCGGCACTAGTGGTG
Found at i:110711725 original size:19 final size:20
Alignment explanation
Indices: 110711690--110711727 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
110711680 TTGAGAATGT
*
110711690 TATATTGTAAAATTTTTTAA
1 TATATTGTAAAAGTTTTTAA
110711710 TATATT-TAAAAGTTTTTA
1 TATATTGTAAAAGTTTTTA
110711728 TGTTAGTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (20 bp):
TATATTGTAAAAGTTTTTAA
Found at i:110714734 original size:62 final size:62
Alignment explanation
Indices: 110714635--110714800 Score: 260
Period size: 62 Copynumber: 2.7 Consensus size: 62
110714625 CAATGTACCT
* * *
110714635 AATTTATATTATAAAGTTTGTTTCAATTTTTAGTGTTGTAATTTATTTAACTTATATAACAA
1 AATTTATATTACAAAGTTTGTTACAATTTTTAGTGTTGTAATATATTTAACTTATATAACAA
* * *
110714697 AATTTATATTACAAAGTTTGTTCCAATTTTTAATGTTGTAATATATTTAATTTATATAACAA
1 AATTTATATTACAAAGTTTGTTACAATTTTTAGTGTTGTAATATATTTAACTTATATAACAA
* *
110714759 AATTTATATTACAAAGTTTGTTACAAGTTTTAGTGTTTTAAT
1 AATTTATATTACAAAGTTTGTTACAATTTTTAGTGTTGTAAT
110714801 GTTGTAATGT
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 95 1.00
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.50
Consensus pattern (62 bp):
AATTTATATTACAAAGTTTGTTACAATTTTTAGTGTTGTAATATATTTAACTTATATAACAA
Found at i:110716043 original size:14 final size:14
Alignment explanation
Indices: 110716024--110716050 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
110716014 GAAAACACAT
110716024 GTTAGAATAGTATC
1 GTTAGAATAGTATC
110716038 GTTAGAATAGTAT
1 GTTAGAATAGTAT
110716051 AATTAGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.37
Consensus pattern (14 bp):
GTTAGAATAGTATC
Found at i:110716056 original size:14 final size:14
Alignment explanation
Indices: 110716025--110716058 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
110716015 AAAACACATG
**
110716025 TTAGAATAGTATCG
1 TTAGAATAGTATAA
110716039 TTAGAATAGTATAA
1 TTAGAATAGTATAA
110716053 TTAGAA
1 TTAGAA
110716059 AAAAATGTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.03, G:0.18, T:0.35
Consensus pattern (14 bp):
TTAGAATAGTATAA
Found at i:110722332 original size:3 final size:3
Alignment explanation
Indices: 110722324--110722494 Score: 132
Period size: 3 Copynumber: 56.0 Consensus size: 3
110722314 TATGTTAATG
* *
110722324 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TCTT TAT GTAT ATAT TAG
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT -TAT -TAT TAT
* * * * *
110722372 TAT T-T ATAT TAT CAT TAT TAT TAT TAT TGT TAA TAT TTT TAT TAC
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
110722417 TAT TAT TTT TAT TCCT T-T TATT TGT TAT CAA TA- TAA TAT TAT TAT
1 TAT TAT TAT TAT T-AT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
**
110722462 TGC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
110722495 CGTCACTATC
Statistics
Matches: 132, Mismatches: 28, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
2 5 0.04
3 114 0.86
4 13 0.10
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:110723655 original size:128 final size:132
Alignment explanation
Indices: 110723244--110723727 Score: 364
Period size: 131 Copynumber: 3.7 Consensus size: 132
110723234 TAGAAAATAC
* * * * * * * ** * **
110723244 GAGTGAAATTCTGAAGGGATCTTCGATTGTTTTGAGCAAATG-AATAAGCGCAACCCAGCACAAT
1 GAGTGAAATTTTGAAAGGATATTCGATTATTTTAAACAAACGCAA-AATTGCAACCCAACACGTT
* * * * * *
110723308 AGGGCTCGATTCTCA--AATCGCCAAACATCGAACATCGCCTTCATTTTGAAAGG-TTTTTAATA
65 AGGGCACGATTC-CACGAATTGCCAAATATCGCATATCGCCTTCGTTTT-AAAGGATTTTTAA-A
110723370 A-ACAT
127 AGACAT
* ** * * * ** * *
110723375 GAATGCAAA-CCTAAAAGAATATTCGATTGTTTTAAACAAACG-AGAAATCACAACCCAGCACGA
1 GAGTG-AAATTTTGAAAGGATATTCGATTATTTTAAACAAACGCA-AAATTGCAACCCAACACGT
* * * * ** *
110723438 TAGGGCATGATT-CTCGAATTGCCAAACACCG-AGTATTACCTTCGTTTTAAAGGATTTTTAGAA
64 TAGGGCACGATTCCACGAATTGCCAAATATCGCA-TATCGCCTTCGTTTTAAAGGATTTTTAAAA
* *
110723501 GGCCT
128 GACAT
* * *
110723506 GAGTGAAATTTTGAAGGGATATTTGATTATTTTAAAC-AA-TCAAAATTGCAACCCAACACGTTA
1 GAGTGAAATTTTGAAAGGATATTCGATTATTTTAAACAAACGCAAAATTGCAACCCAACACGTTA
* *
110723569 TGGCACGATTCCACGAATTGCCAAATATCGCATATCGCCTTCG-TTTAAGGGA-TTTTAAAAGAC
66 GGGCACGATTCCACGAATTGCCAAATATCGCATATCGCCTTCGTTTTAAAGGATTTTTAAAAGAC
110723632 AT
131 AT
* * * * * *
110723634 GAGTGAAATTTTGAAATGATATTCGATTGTTTTCAGCAAACGCGAAGTTGCAACCCAACACGTTA
1 GAGTGAAATTTTGAAAGGATATTCGATTATTTTAAACAAACGCAAAATTGCAACCCAACACGTTA
* *
110723699 GGGCACGATTCCGCGAATTGTCAAATATC
66 GGGCACGATTCCACGAATTGCCAAATATC
110723728 AGATCTCATC
Statistics
Matches: 280, Mismatches: 60, Indels: 27
0.76 0.16 0.07
Matches are distributed among these distances:
128 41 0.15
129 36 0.13
130 86 0.31
131 113 0.40
132 4 0.01
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (132 bp):
GAGTGAAATTTTGAAAGGATATTCGATTATTTTAAACAAACGCAAAATTGCAACCCAACACGTTA
GGGCACGATTCCACGAATTGCCAAATATCGCATATCGCCTTCGTTTTAAAGGATTTTTAAAAGAC
AT
Found at i:110723741 original size:130 final size:131
Alignment explanation
Indices: 110723388--110723744 Score: 368
Period size: 130 Copynumber: 2.7 Consensus size: 131
110723378 TGCAAACCTA
* * ** * * * *
110723388 AAAGAATATTCGATTGTTTTAAACAAACGAGAAATCACAACCCAGCACGATAGGGCATGATT-CT
1 AAAGGATATTCGATTGTTTTAAACAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCA
* * * * * *
110723452 CGAATTGCCAAACACCGAGTATT-ACCTTCGTTTTAAAGGATTTTTAGAAGGCCTGAGTGAAATT
66 CGAATTGCCAAATATC-AGCATTCACCTTCG-TTTAAAGGATTTTTAAAAGACATGAGTGAAATT
110723516 TTG
129 TTG
* * * * * *
110723519 AAGGGATATTTGATTATTTTAAAC-AA-TCAAAATTGCAACCCAACACGTTATGGCACGATTCCA
1 AAAGGATATTCGATTGTTTTAAACAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCA
* *
110723582 CGAATTGCCAAATATC-GCATATCGCCTTCGTTTAAGGGA-TTTTAAAAGACATGAGTGAAATTT
66 CGAATTGCCAAATATCAGCAT-TCACCTTCGTTTAAAGGATTTTTAAAAGACATGAGTGAAATTT
110723645 TG
130 TG
* * * * *
110723647 AAATGATATTCGATTGTTTTCAGCAAACGCGAAGTTGCAACCCAACACGTTAGGGCACGATTCCG
1 AAAGGATATTCGATTGTTTTAAACAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCA
* *
110723712 CGAATTGTCAAATATCAG-ATCTCATCTTCGTTT
66 CGAATTGCCAAATATCAGCAT-TCACCTTCGTTT
110723745 TAAACAATTT
Statistics
Matches: 183, Mismatches: 37, Indels: 13
0.79 0.16 0.06
Matches are distributed among these distances:
128 44 0.24
129 36 0.20
130 82 0.45
131 21 0.11
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (131 bp):
AAAGGATATTCGATTGTTTTAAACAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCA
CGAATTGCCAAATATCAGCATTCACCTTCGTTTAAAGGATTTTTAAAAGACATGAGTGAAATTTT
G
Found at i:110724648 original size:21 final size:21
Alignment explanation
Indices: 110724634--110724675 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 21
110724624 TAAATTTATA
110724634 ACAAAACAATATAAACAATAT
1 ACAAAACAATATAAACAATAT
110724655 ACAAAACAATATGGAAACAAT
1 ACAAAACAATAT--AAACAAT
110724676 TTGAAAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 12 0.63
23 7 0.37
ACGTcount: A:0.64, C:0.14, G:0.05, T:0.17
Consensus pattern (21 bp):
ACAAAACAATATAAACAATAT
Found at i:110728190 original size:27 final size:27
Alignment explanation
Indices: 110728160--110728212 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
110728150 GTGCTACATC
*
110728160 TGCCAACTCCTCCACCAGTGCCGCCTG
1 TGCCAACTCCTCCACCAATGCCGCCTG
110728187 TGCCAACTCCTCCACCAATGCCGCCT
1 TGCCAACTCCTCCACCAATGCCGCCT
110728213 CTTCTCTAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.17, C:0.49, G:0.15, T:0.19
Consensus pattern (27 bp):
TGCCAACTCCTCCACCAATGCCGCCTG
Found at i:110732178 original size:22 final size:23
Alignment explanation
Indices: 110732139--110732181 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
110732129 TTTATGTATT
*
110732139 TTTTTTAAAATTTTAAAATTTTA
1 TTTTTTAAAATTTCAAAATTTTA
110732162 TTTTTT-AAATTTCAAAATTT
1 TTTTTTAAAATTTCAAAATTT
110732182 AAATTCTAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTTTAAAATTTCAAAATTTTA
Found at i:110734076 original size:26 final size:26
Alignment explanation
Indices: 110734041--110734150 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
110734031 TGATACAAAT
*
110734041 TGATAATAGGTTAGGTAAATGTTCAA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
110734067 TAATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
110734093 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
110734119 TGATAAT-GAGTTAGGTAAATGTTTCA
1 TGATAATAG-GTTAGGTAAATGTTCCA
110734145 TGATAA
1 TGATAA
110734151 GAATTTCATG
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 1 0.01
26 77 0.99
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:110735805 original size:27 final size:27
Alignment explanation
Indices: 110735764--110735884 Score: 161
Period size: 27 Copynumber: 4.4 Consensus size: 27
110735754 GAGGAAGCGT
*
110735764 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
110735791 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
** * *
110735818 TCTGGTGGCTCTATCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
110735845 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
*
110735873 TCTGGTGACTCT
1 TCTGGTGGCTCT
110735885 ATCACATTAT
Statistics
Matches: 81, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
27 70 0.86
28 11 0.14
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:110735849 original size:54 final size:55
Alignment explanation
Indices: 110735764--110735903 Score: 194
Period size: 54 Copynumber: 2.6 Consensus size: 55
110735754 GAGGAAGCGT
* ** * *
110735764 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTATCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
110735818 TCTGGTGGCTCTATCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTATCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
*
110735873 TCTGGTGACTCTATCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTATCACATATATCTGTTCTGG
110735904 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
54 58 0.75
55 19 0.25
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (55 bp):
TCTGGTGGCTCTATCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:110735893 original size:27 final size:28
Alignment explanation
Indices: 110735764--110735903 Score: 139
Period size: 27 Copynumber: 5.2 Consensus size: 28
110735754 GAGGAAGCGT
* * *
110735764 TCTGGTGGCTATGCCACAAATATCTG-A
1 TCTGGTGGCTCTACCACAATTATCTGTA
* *
110735791 TCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTACCACAATTATCTGTA
*
110735818 TCTGGTGGCTCTATCAC-ATATATCTGT-
1 TCTGGTGGCTCTACCACAAT-TATCTGTA
* *
110735845 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTACCACAATTATCTGTA
* *
110735873 TCTGGTGACTCTATCAC-ATTATCTGT-
1 TCTGGTGGCTCTACCACAATTATCTGTA
110735899 TCTGG
1 TCTGG
110735904 CAGCCATGCT
Statistics
Matches: 100, Mismatches: 9, Indels: 9
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.06
27 78 0.78
28 16 0.16
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (28 bp):
TCTGGTGGCTCTACCACAATTATCTGTA
Found at i:110741238 original size:26 final size:26
Alignment explanation
Indices: 110741176--110741284 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
110741166 TGATACAAAT
110741176 TGATAATAGGTTAGGTAAATG-TTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
110741201 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
110741227 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
110741253 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
110741279 TGATAA
1 TGATAA
110741285 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 21 0.26
26 59 0.74
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:110742942 original size:27 final size:27
Alignment explanation
Indices: 110742901--110743013 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
110742891 GAGGAAGCGT
*
110742901 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
110742928 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
110742955 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
110742983 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
110743009 TCTGG
1 TCTGG
110743014 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:110743006 original size:54 final size:54
Alignment explanation
Indices: 110742899--110743013 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
110742889 TGGAGGAAGC
*
110742899 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
110742953 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
110743007 GTTCTGG
1 GTTCTGG
110743014 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:110757068 original size:38 final size:37
Alignment explanation
Indices: 110757024--110757134 Score: 97
Period size: 38 Copynumber: 3.0 Consensus size: 37
110757014 TAATTATGTA
110757024 AATATATATAATTTAATTATTAATTACTT-TTTTATTT
1 AATATATATAATTTAATTATTAATTA-TTATTTTATTT
* * *
110757061 AAGTATATAGATATTT-ATTATTTATTATTATTCTA-TT
1 AA-TATATATA-ATTTAATTATTAATTATTATTTTATTT
*
110757098 AA-AT-TATAATTTATATTATTAAATTATGATTATTATT
1 AATATATATAATTTA-ATTATT-AATTATTATT-TTATT
110757135 ATTAAAAATA
Statistics
Matches: 59, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
33 4 0.07
34 3 0.05
35 8 0.14
36 8 0.14
37 10 0.17
38 22 0.37
39 4 0.07
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.57
Consensus pattern (37 bp):
AATATATATAATTTAATTATTAATTATTATTTTATTT
Found at i:110757117 original size:20 final size:20
Alignment explanation
Indices: 110757084--110757140 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 20
110757074 TTTATTATTT
110757084 ATTATTATTCTATTAAATTATA
1 ATTATTA-T-TATTAAATTATA
*
110757106 ATT-TATATTATTAAATTATG
1 ATTAT-TATTATTAAATTATA
110757126 ATTATTATTATTAAA
1 ATTATTATTATTAAA
110757141 AATAAGTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 24 0.75
21 3 0.09
22 5 0.16
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
ATTATTATTATTAAATTATA
Found at i:110757123 original size:25 final size:26
Alignment explanation
Indices: 110757075--110757123 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
110757065 ATATAGATAT
* **
110757075 TTATTATTTATTATTATTCTATTAAA
1 TTATAATTTATTATTATTAAATTAAA
110757101 TTATAATTTA-TATTATTAAATTA
1 TTATAATTTATTATTATTAAATTA
110757124 TGATTATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (26 bp):
TTATAATTTATTATTATTAAATTAAA
Found at i:110757413 original size:13 final size:14
Alignment explanation
Indices: 110757395--110757432 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
110757385 TTATAAAGTT
110757395 AATAAAATAAAAG-
1 AATAAAATAAAAGA
* *
110757408 AATAAAAGAAATGA
1 AATAAAATAAAAGA
110757422 AATAAAATAAA
1 AATAAAATAAA
110757433 GTAAAGAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (14 bp):
AATAAAATAAAAGA
Found at i:110758506 original size:12 final size:12
Alignment explanation
Indices: 110758489--110758513 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
110758479 GCCGACTACT
110758489 GTTACTGTTACC
1 GTTACTGTTACC
110758501 GTTACTGTTACC
1 GTTACTGTTACC
110758513 G
1 G
110758514 ATTCGACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:110758572 original size:45 final size:45
Alignment explanation
Indices: 110758491--110758596 Score: 128
Period size: 45 Copynumber: 2.4 Consensus size: 45
110758481 CGACTACTGT
*
110758491 TACTGTTACCGTTACTGTTACCGATTCGACACTTTGTGTG-TCGAA
1 TACTGTTACCGTTACTGTTACAGATTCGACACTTTGTGTGCT-GAA
* *
110758536 TACTGTTACCGTTACTGTTACAGATTC-AGTATTTTGTGTGCTGAA
1 TACTGTTACCGTTACTGTTACAGATTCGA-CACTTTGTGTGCTGAA
* *
110758581 TATTGTTA-TGTTACTG
1 TACTGTTACCGTTACTG
110758597 CTACTGCTAC
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
44 8 0.15
45 45 0.83
46 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.20, T:0.42
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCGACACTTTGTGTGCTGAA
Found at i:110759699 original size:55 final size:54
Alignment explanation
Indices: 110759632--110759886 Score: 260
Period size: 55 Copynumber: 4.8 Consensus size: 54
110759622 ATTAAGGTTT
*
110759632 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * *
110759687 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGGC
* * * *
110759742 AAAGG-TCCCATATAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
*
110759795 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* * * *
110759844 AAGGATACCACGTAAGACTATGACAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
110759887 GTACCCGCGT
Statistics
Matches: 169, Mismatches: 24, Indels: 20
0.79 0.11 0.09
Matches are distributed among these distances:
49 39 0.23
52 7 0.04
53 40 0.24
54 12 0.07
55 67 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:110759838 original size:108 final size:110
Alignment explanation
Indices: 110759639--110759839 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
110759629 TTTAAGGATA
* *
110759639 CCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAATCATGTAAGA
1 CCATATAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
*
110759704 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* *
110759749 CCATATAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAG
1 CCATATAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTC-TAAGGCAAGGAAACCATGTAAG
*
110759811 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
110759840 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.57
109 7 0.08
110 26 0.31
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATATAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Done.