Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002091.1 Hibiscus syriacus cultivar Beakdansim tig00004264_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 156045
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:2413 original size:23 final size:24
Alignment explanation
Indices: 2382--2429 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
2372 GCGAAAATAG
2382 ATATCTTCGTGAG-ATATAAACAA
1 ATATCTTCGTGAGTATATAAACAA
*
2405 ATATGTTCGTGAGTATATAAACAA
1 ATATCTTCGTGAGTATATAAACAA
2429 A
1 A
2430 CATATTCATG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (24 bp):
ATATCTTCGTGAGTATATAAACAA
Found at i:3281 original size:2 final size:2
Alignment explanation
Indices: 3274--3315 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
3264 TTAACGATAA
3274 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3316 GACTTGTGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16732 original size:16 final size:16
Alignment explanation
Indices: 16711--16741 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
16701 ATCAGATTTG
16711 TTCATATCTATTTTTT
1 TTCATATCTATTTTTT
16727 TTCATATCTATTTTT
1 TTCATATCTATTTTT
16742 GTTCGAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.13, G:0.00, T:0.68
Consensus pattern (16 bp):
TTCATATCTATTTTTT
Found at i:31479 original size:99 final size:99
Alignment explanation
Indices: 31288--31486 Score: 314
Period size: 98 Copynumber: 2.0 Consensus size: 99
31278 GAAAACTTTA
* * * *
31288 ATTTTAATGTAAAACCGAATCCTGATGAATGCCTGATATCTTCCTAGTTGTGTAATTGTATTTTT
1 ATTTTAACGTAAAACCAAACCCTGATGAATGCCTGAAATCTTCCTAGTTGTGTAATTGTATTTTT
31353 CTGTTCTGATGACAGGGAAAATGAGCAGCTTTCC
66 CTGTTCTGATGACAGGGAAAATGAGCAGCTTTCC
31387 ATTTTAACGT-AAACCAAACCCTGATGAATGCCTGAAATCTTCCTAGTTGTGTAATTGTATTTTT
1 ATTTTAACGTAAAACCAAACCCTGATGAATGCCTGAAATCTTCCTAGTTGTGTAATTGTA-TTTT
31451 TCTGTAT-TGAAT-ACAGGGAAAATGAGCAGCTTTCC
65 TCTGT-TCTG-ATGACAGGGAAAATGAGCAGCTTTCC
31486 A
1 A
31487 AATATGGGGA
Statistics
Matches: 93, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
98 46 0.49
99 44 0.47
100 3 0.03
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (99 bp):
ATTTTAACGTAAAACCAAACCCTGATGAATGCCTGAAATCTTCCTAGTTGTGTAATTGTATTTTT
CTGTTCTGATGACAGGGAAAATGAGCAGCTTTCC
Found at i:39371 original size:14 final size:14
Alignment explanation
Indices: 39352--39392 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
39342 AAGTAATGTA
39352 ATTATATATAATAT
1 ATTATATATAATAT
39366 ATTATATATAATAT
1 ATTATATATAATAT
*
39380 ATTTATAGATAAT
1 A-TTATATATAAT
39393 TGCATTGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
14 15 0.60
15 10 0.40
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
ATTATATATAATAT
Found at i:40254 original size:15 final size:15
Alignment explanation
Indices: 40234--40268 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
40224 TTCTACCTAA
40234 AACATCAATGTTTTT
1 AACATCAATGTTTTT
40249 AACATCAATGTTTTT
1 AACATCAATGTTTTT
40264 AACAT
1 AACAT
40269 TTCCGGTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (15 bp):
AACATCAATGTTTTT
Found at i:40888 original size:84 final size:85
Alignment explanation
Indices: 40764--41078 Score: 386
Period size: 84 Copynumber: 3.7 Consensus size: 85
40754 TGCTGTTGCT
* * *
40764 CAGTCTGTAAATGTGTAGTAGGAATCAGGGGATTTTGCAACGCTGTCACACCAAGATTCAGA-GG
1 CAGTCTGTAAATGTGTAGCAGGATTCAGGGGATTTTGCAACGCTGTCACACCAGGATTCAGACGG
*
40828 ATTTTGCACCTGCAATTACC
66 ATTTTGCAACTGCAATTACC
* * ** *
40848 CAATCTATAAATGTGTAGCAGGATTCAGGGGATTTTGCAACGCT-TCGACACCAGGAGGCTGATC
1 CAGTCTGTAAATGTGTAGCAGGATTCAGGGGATTTTGCAACGCTGTC-ACACCAGGATTCAGA-C
** ** *
40912 AAATTGTTGCAGTTG-ATGTTACC
64 GGATT-TTGCAACTGCA-ATTACC
* *
40935 CAGTCTGTAAATGTGTAGCAGGATTCAGGGGATTTTGCAACGCTGTCACACTAGGATTCA-AGGG
1 CAGTCTGTAAATGTGTAGCAGGATTCAGGGGATTTTGCAACGCTGTCACACCAGGATTCAGACGG
* *
40999 ATTTTGCAACTGCAACTGCC
66 ATTTTGCAACTGCAATTACC
* *
41019 CAGTCTGTAAATGTGTAGCAGGATTCAGGGGATTTTGCAACGCTGCCACACCAGAATTCA
1 CAGTCTGTAAATGTGTAGCAGGATTCAGGGGATTTTGCAACGCTGTCACACCAGGATTCA
41079 AGGGATTCAG
Statistics
Matches: 194, Mismatches: 30, Indels: 14
0.82 0.13 0.06
Matches are distributed among these distances:
83 2 0.01
84 118 0.61
85 4 0.02
86 5 0.03
87 63 0.32
88 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (85 bp):
CAGTCTGTAAATGTGTAGCAGGATTCAGGGGATTTTGCAACGCTGTCACACCAGGATTCAGACGG
ATTTTGCAACTGCAATTACC
Found at i:41032 original size:171 final size:171
Alignment explanation
Indices: 40740--41072 Score: 524
Period size: 171 Copynumber: 1.9 Consensus size: 171
40730 TAGGGTTGAC
* * * *
40740 CAAATTGTTGCAGTTGCTGTTGCTCAGTCTGTAAATGTGTAGTAGGAATCAGGGGATTTTGCAAC
1 CAAATTGTTGCAGTTGATGTTACCCAGTCTGTAAATGTGTAGCAGGAATCAGGGGATTTTGCAAC
* *
40805 GCTGTCACACCAAGATTCAGAGGATTTTGCACCTGCAATTACCCAATCTATAAATGTGTAGCAGG
66 GCTGTCACACCAAGATTCAGAGGATTTTGCAACTGCAACTACCCAATCTATAAATGTGTAGCAGG
* *
40870 ATTCAGGGGATTTTGCAACGCTTCGACACCAGGAGGCTGAT
131 ATTCAGGGGATTTTGCAACGCTGCCACACCAGGAGGCTGAT
*
40911 CAAATTGTTGCAGTTGATGTTACCCAGTCTGTAAATGTGTAGCAGGATTCAGGGGATTTTGCAAC
1 CAAATTGTTGCAGTTGATGTTACCCAGTCTGTAAATGTGTAGCAGGAATCAGGGGATTTTGCAAC
* * * * *
40976 GCTGTCACACTAGGATTCA-AGGGATTTTGCAACTGCAACTGCCCAGTCTGTAAATGTGTAGCAG
66 GCTGTCACACCAAGATTCAGA-GGATTTTGCAACTGCAACTACCCAATCTATAAATGTGTAGCAG
41040 GATTCAGGGGATTTTGCAACGCTGCCACACCAG
130 GATTCAGGGGATTTTGCAACGCTGCCACACCAG
41073 AATTCAAGGG
Statistics
Matches: 147, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
170 1 0.01
171 146 0.99
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (171 bp):
CAAATTGTTGCAGTTGATGTTACCCAGTCTGTAAATGTGTAGCAGGAATCAGGGGATTTTGCAAC
GCTGTCACACCAAGATTCAGAGGATTTTGCAACTGCAACTACCCAATCTATAAATGTGTAGCAGG
ATTCAGGGGATTTTGCAACGCTGCCACACCAGGAGGCTGAT
Found at i:42584 original size:29 final size:28
Alignment explanation
Indices: 42531--42588 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
42521 TACTGGTGGA
42531 ATCTTTTTACGATTTAACTTGAAAAATT
1 ATCTTTTTACGATTTAACTTGAAAAATT
* *
42559 ATCTTTTTTCGATTTAATTTGAAAAATT
1 ATCTTTTTACGATTTAACTTGAAAAATT
42587 AT
1 AT
42589 TATATTTGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.50
Consensus pattern (28 bp):
ATCTTTTTACGATTTAACTTGAAAAATT
Found at i:46441 original size:35 final size:35
Alignment explanation
Indices: 46395--46466 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
46385 ACCATTCACT
46395 ATATTCTAAACTCATTATTTTTTGTTAAAAAATTA
1 ATATTCTAAACTCATTATTTTTTGTTAAAAAATTA
46430 ATATTCTAAACTCATTATTTTTTGTTAAAAAATTA
1 ATATTCTAAACTCATTATTTTTTGTTAAAAAATTA
46465 AT
1 AT
46467 GGTATTTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.40, C:0.08, G:0.03, T:0.49
Consensus pattern (35 bp):
ATATTCTAAACTCATTATTTTTTGTTAAAAAATTA
Found at i:46833 original size:14 final size:14
Alignment explanation
Indices: 46814--46841 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
46804 TCAATTACTC
46814 AGTTTCGAAAATTT
1 AGTTTCGAAAATTT
46828 AGTTTCGAAAATTT
1 AGTTTCGAAAATTT
46842 TCGAAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (14 bp):
AGTTTCGAAAATTT
Found at i:50636 original size:8 final size:8
Alignment explanation
Indices: 50625--50655 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
50615 AAAGCCCTAA
50625 AGGGAGAG
1 AGGGAGAG
50633 AGGGAGAG
1 AGGGAGAG
50641 AGGGAGAG
1 AGGGAGAG
*
50649 AGAGAGA
1 AGGGAGA
50656 ACTGGAGCTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (8 bp):
AGGGAGAG
Found at i:57206 original size:16 final size:16
Alignment explanation
Indices: 57185--57220 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
57175 TAATTTCCGG
* *
57185 ATTTCGGGTTTAAGTT
1 ATTTCGAGTTTAAATT
57201 ATTTCGAGTTTAAATT
1 ATTTCGAGTTTAAATT
57217 ATTT
1 ATTT
57221 TTGAAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.25, C:0.06, G:0.17, T:0.53
Consensus pattern (16 bp):
ATTTCGAGTTTAAATT
Found at i:60766 original size:32 final size:32
Alignment explanation
Indices: 60725--60803 Score: 140
Period size: 32 Copynumber: 2.5 Consensus size: 32
60715 TATACGAGGT
60725 GAGGTCGCCATGCAGACGAGCCAGCCAACGGA
1 GAGGTCGCCATGCAGACGAGCCAGCCAACGGA
* *
60757 GAGGTCGCCATGCAAACGAGCCAGCCAATGGA
1 GAGGTCGCCATGCAGACGAGCCAGCCAACGGA
60789 GAGGTCGCCATGCAG
1 GAGGTCGCCATGCAG
60804 TCTGGGCGAC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.28, C:0.29, G:0.34, T:0.09
Consensus pattern (32 bp):
GAGGTCGCCATGCAGACGAGCCAGCCAACGGA
Found at i:60894 original size:29 final size:29
Alignment explanation
Indices: 60790--60884 Score: 163
Period size: 29 Copynumber: 3.3 Consensus size: 29
60780 GCCAATGGAG
* **
60790 AGGTCGCCATGCAGTCTGGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
60819 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
60848 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
60877 AGGTCGCC
1 AGGTCGCC
60885 CCGGCGTCCC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.14, C:0.31, G:0.33, T:0.23
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:60953 original size:50 final size:50
Alignment explanation
Indices: 60911--61026 Score: 170
Period size: 50 Copynumber: 2.4 Consensus size: 50
60901 CCCGAGACCA
*
60911 TGCATG-C-ACATGCA-GCCAA-ATAACTTCACGTGCTCCTGCTCCCCGC
1 TGCATGCCTACATGCATGCCAAGATAACTTCACGTGCTCCTGCTCCCAGC
* *
60957 TGCATGCCTGCATGCATGCCAAGATAACTTCACGTGCTCCTGCTCCCCGC
1 TGCATGCCTACATGCATGCCAAGATAACTTCACGTGCTCCTGCTCCCAGC
61007 TGCATGCCTACA-GCATGCCA
1 TGCATGCCTACATGCATGCCA
61027 TGTGATCCTA
Statistics
Matches: 64, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
46 6 0.09
47 1 0.02
48 6 0.09
49 13 0.20
50 38 0.59
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.22
Consensus pattern (50 bp):
TGCATGCCTACATGCATGCCAAGATAACTTCACGTGCTCCTGCTCCCAGC
Found at i:61262 original size:16 final size:18
Alignment explanation
Indices: 61241--61279 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
61231 GGAGATAAGG
*
61241 TAAATTTGTTTA-TATT-
1 TAAATTAGTTTATTATTA
61257 TAAATTAGTTTATTATTA
1 TAAATTAGTTTATTATTA
61275 TAAAT
1 TAAAT
61280 GTTAATTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 11 0.55
17 4 0.20
18 5 0.25
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (18 bp):
TAAATTAGTTTATTATTA
Found at i:61447 original size:46 final size:48
Alignment explanation
Indices: 61384--61475 Score: 129
Period size: 46 Copynumber: 2.0 Consensus size: 48
61374 TTATATAGTT
61384 AAAAAATAATTAATTAGTTTGTT-TT-GTT-AATAGTT-AGTTATATAA
1 AAAAAATAATTAATTAGTTT-TTGTTAGTTAAATAGTTAAGTTATATAA
*
61429 AAAAAATTATTTAATTAGTTTTTGTTAGTTAAATAGTTAAGTTATAT
1 AAAAAA-TAATTAATTAGTTTTTGTTAGTTAAATAGTTAAGTTATAT
61476 TTGTTTGTTG
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
45 8 0.20
46 15 0.37
47 3 0.07
48 7 0.17
49 8 0.20
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (48 bp):
AAAAAATAATTAATTAGTTTTTGTTAGTTAAATAGTTAAGTTATATAA
Found at i:61552 original size:32 final size:33
Alignment explanation
Indices: 61516--61592 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 33
61506 TTAGTTAGTA
*
61516 AGTTTATTAGTAG-TATA-TTATAATGAAAAAAT
1 AGTTTATTAGTAGTTATAGTTAT-ATAAAAAAAT
*
61548 AGTTTATTAGTTAGTTTTAGTTATATAAAAAAAT
1 AGTTTATTAG-TAGTTATAGTTATATAAAAAAAT
*
61582 ATTTTATTAGT
1 AGTTTATTAGT
61593 TGTTTAAGGG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
32 10 0.26
33 4 0.10
34 21 0.54
35 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.47
Consensus pattern (33 bp):
AGTTTATTAGTAGTTATAGTTATATAAAAAAAT
Found at i:61670 original size:16 final size:16
Alignment explanation
Indices: 61638--61684 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
61628 TTTAAAAAGT
*
61638 TTAGTTTGTTAGT-TTA
1 TTAGTTTATTA-TATTA
61654 TTAGTTTATTATATTA
1 TTAGTTTATTATATTA
*
61670 TAAG-TTATTATATTA
1 TTAGTTTATTATATTA
61685 AAGTTTAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (16 bp):
TTAGTTTATTATATTA
Found at i:61679 original size:15 final size:14
Alignment explanation
Indices: 61659--61689 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
61649 GTTTATTAGT
61659 TTATTATATTATAAG
1 TTATTATATTA-AAG
61674 TTATTATATTAAAG
1 TTATTATATTAAAG
61688 TT
1 TT
61690 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:63857 original size:17 final size:17
Alignment explanation
Indices: 63835--63867 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
63825 CAATGATGTT
*
63835 TAGTATCAAATCATTAC
1 TAGTATCAAATAATTAC
63852 TAGTATCAAATAATTA
1 TAGTATCAAATAATTA
63868 GTATTAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
TAGTATCAAATAATTAC
Found at i:63886 original size:21 final size:21
Alignment explanation
Indices: 63862--63905 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
63852 TAGTATCAAA
* *
63862 TAATTAGTATTAAATCATTAG
1 TAATAAGTAGTAAATCATTAG
*
63883 TAATAATTAGTAAATCATTAG
1 TAATAAGTAGTAAATCATTAG
63904 TA
1 TA
63906 TCAAATCATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (21 bp):
TAATAAGTAGTAAATCATTAG
Found at i:63904 original size:11 final size:11
Alignment explanation
Indices: 63872--63905 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
63862 TAATTAGTAT
63872 TAAATCATTAG
1 TAAATCATTAG
*
63883 T-AATAATTAG
1 TAAATCATTAG
63893 TAAATCATTAG
1 TAAATCATTAG
63904 TA
1 TA
63906 TCAAATCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (11 bp):
TAAATCATTAG
Found at i:63913 original size:14 final size:14
Alignment explanation
Indices: 63834--63916 Score: 63
Period size: 14 Copynumber: 6.2 Consensus size: 14
63824 ACAATGATGT
63834 TTAGTATCAAATCA
1 TTAGTATCAAATCA
*
63848 TTACTAGTATCAAATAA
1 -T--TAGTATCAAATCA
*
63865 TTAGTATTAAATCA
1 TTAGTATCAAATCA
*
63879 TTAG--T--AATAA
1 TTAGTATCAAATCA
63889 TTAG--T-AAATCA
1 TTAGTATCAAATCA
63900 TTAGTATCAAATCA
1 TTAGTATCAAATCA
63914 TTA
1 TTA
63917 AATATTTAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
10 9 0.16
11 8 0.14
12 1 0.02
13 1 0.02
14 24 0.42
15 1 0.02
16 1 0.02
17 12 0.21
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.39
Consensus pattern (14 bp):
TTAGTATCAAATCA
Found at i:64039 original size:14 final size:14
Alignment explanation
Indices: 64020--64059 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
64010 TAGTAATAAT
64020 TATTAAATCATTAG
1 TATTAAATCATTAG
*
64034 TATTAAATCATTAT
1 TATTAAATCATTAG
*
64048 TA-TAAATAATTA
1 TATTAAATCATTA
64060 CTAAATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 9 0.38
14 15 0.62
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (14 bp):
TATTAAATCATTAG
Found at i:64109 original size:12 final size:12
Alignment explanation
Indices: 64002--64111 Score: 73
Period size: 13 Copynumber: 8.9 Consensus size: 12
63992 TTAGTATTCT
64002 ATAATTATTAGTA
1 ATAATTATTA-TA
64015 ATAATTATTA-A
1 ATAATTATTATA
* *
64026 ATCATTAGTATTAA
1 ATAATTATTA-T-A
*
64040 ATCATTATTATAA
1 ATAATTATTAT-A
*
64053 ATAATTACTA-A
1 ATAATTATTATA
**
64064 ATAA-TAACATA
1 ATAATTATTATA
64075 ATAATTATTATAAA
1 ATAATTATTAT--A
*
64089 ATCATTATTATA
1 ATAATTATTATA
*
64101 ATGATTATTAT
1 ATAATTATTAT
64112 CAAATCATTA
Statistics
Matches: 79, Mismatches: 11, Indels: 15
0.75 0.10 0.14
Matches are distributed among these distances:
10 3 0.04
11 19 0.24
12 15 0.19
13 21 0.27
14 21 0.27
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (12 bp):
ATAATTATTATA
Found at i:64116 original size:26 final size:26
Alignment explanation
Indices: 64018--64369 Score: 256
Period size: 26 Copynumber: 14.2 Consensus size: 26
64008 ATTAGTAATA
* * *
64018 ATTATTA-AATCATTAGTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
*
64043 ATTATTATAA--ATAATTA-CTAAAT-
1 ATTATTATAATGATTATTATC-AAATC
* ** * *
64066 AATAACATAATAATTATTATAAAATC
1 ATTATTATAATGATTATTATCAAATC
64092 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
* * * * * *
64118 ATTACTA-AATCATCA-AATC-ATTA
1 ATTATTATAATGATTATTATCAAATC
* * *
64141 AATATT-TAA--ATCATTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
*
64164 ATTTTTATAATGATTATTA-CTAAATC
1 ATTATTATAATGATTATTATC-AAATC
*
64190 ATTACTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
* * * * * *
64216 ATTACTA-AATCATCA-AATC-ATTA
1 ATTATTATAATGATTATTATCAAATC
* * *
64239 AATATT-TAA--ATCATTATTAAATC
1 ATTATTATAATGATTATTATCAAATC
*
64262 ATTTTTATAATGATTATTA-CTAAATC
1 ATTATTATAATGATTATTATC-AAATC
64288 ATTATTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
*
64314 ATTACTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
*
64340 ATTACTATAATGATTATTATCAAATC
1 ATTATTATAATGATTATTATCAAATC
64366 ATTA
1 ATTA
64370 CTAAATCATC
Statistics
Matches: 257, Mismatches: 48, Indels: 43
0.74 0.14 0.12
Matches are distributed among these distances:
21 8 0.03
22 4 0.02
23 35 0.14
24 21 0.08
25 29 0.11
26 158 0.61
27 2 0.01
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (26 bp):
ATTATTATAATGATTATTATCAAATC
Found at i:64182 original size:98 final size:98
Alignment explanation
Indices: 64072--64320 Score: 464
Period size: 98 Copynumber: 2.5 Consensus size: 98
64062 AAATAATAAC
*
64072 ATAATAATTATTA-TAAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAAT
1 ATAATGATTATTACT-AAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAAT
64136 CATTAAATATTTAAATCATTATTAAATCATTTTT
65 CATTAAATATTTAAATCATTATTAAATCATTTTT
*
64170 ATAATGATTATTACTAAATCATTACTATAATGATTATTATCAAATCATTACTAAATCATCAAATC
1 ATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATC
64235 ATTAAATATTTAAATCATTATTAAATCATTTTT
66 ATTAAATATTTAAATCATTATTAAATCATTTTT
64268 ATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTA
1 ATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTA
64321 TAATGATTAT
Statistics
Matches: 147, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
98 146 0.99
99 1 0.01
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (98 bp):
ATAATGATTATTACTAAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATCAAATC
ATTAAATATTTAAATCATTATTAAATCATTTTT
Found at i:64339 original size:150 final size:150
Alignment explanation
Indices: 64153--64427 Score: 507
Period size: 150 Copynumber: 1.8 Consensus size: 150
64143 TATTTAAATC
* **
64153 ATTATTAAATCATTTTTATAATGATTATTACTAAATCATTACTATAATGATTATTATCAAATCAT
1 ATTATCAAATCATTACTATAATGATTATTACTAAATCATTACTATAATGATTATTATCAAATCAT
64218 TACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATTATTACT
66 TACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATTATTACT
64283 AAATCATTATTATAATGATT
131 AAATCATTATTATAATGATT
64303 ATTATCAAATCATTACTATAATGATTATTA-TCAAATCATTACTATAATGATTATTATCAAATCA
1 ATTATCAAATCATTACTATAATGATTATTACT-AAATCATTACTATAATGATTATTATCAAATCA
64367 TTACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATTA
65 TTACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATTA
64428 ATAAATACAT
Statistics
Matches: 121, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
149 1 0.01
150 120 0.99
ACGTcount: A:0.43, C:0.10, G:0.03, T:0.44
Consensus pattern (150 bp):
ATTATCAAATCATTACTATAATGATTATTACTAAATCATTACTATAATGATTATTATCAAATCAT
TACTAAATCATCAAATCATTAAATATTTAAATCATTATTAAATCATTTTTATAATGATTATTACT
AAATCATTATTATAATGATT
Found at i:67326 original size:26 final size:24
Alignment explanation
Indices: 67266--67326 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 24
67256 TACTAATATT
*
67266 ATTAATAATGATTTAATAATTATT
1 ATTAATAATGATTTAATAATTATG
* *
67290 ATTAATCTAATGATTTGATATTTAATG
1 ATTAA--TAATGATTTAATAATT-ATG
67317 ATTTAATAAT
1 A-TTAATAAT
67327 AATATGATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
24 5 0.17
26 18 0.60
27 3 0.10
28 4 0.13
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (24 bp):
ATTAATAATGATTTAATAATTATG
Found at i:67613 original size:17 final size:17
Alignment explanation
Indices: 67560--67619 Score: 57
Period size: 17 Copynumber: 3.3 Consensus size: 17
67550 AATATAAATA
*
67560 AAACAAAATATTTTTTTT
1 AAACACAATA-TTTTTTT
* *
67578 AAACAACACTAAATATTTTT
1 AAAC-ACA--ATATTTTTTT
67598 AAACACAATATTTTTTT
1 AAACACAATATTTTTTT
67615 AAACA
1 AAACA
67620 AAAATTATCT
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
17 13 0.38
18 4 0.12
19 5 0.15
20 10 0.29
21 2 0.06
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (17 bp):
AAACACAATATTTTTTT
Found at i:68148 original size:21 final size:21
Alignment explanation
Indices: 68115--68163 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
68105 AATATAATAT
*
68115 ATAACTTAAACTAACCAACTA
1 ATAACTTAAACTAACAAACTA
* *
68136 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
68157 ATTAACT
1 A-TAACT
68164 AGATTTTAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Found at i:68632 original size:35 final size:35
Alignment explanation
Indices: 68592--68659 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
68582 TGGATGCAAC
*
68592 GCATGCATGAGTGATACAGTTAAAGCTTGGTCGTT
1 GCATGCATGAGTGATACAGTTAAAGCTGGGTCGTT
*
68627 GCATGCATGAGTGCTACAGTTAAAGCTGGGTCG
1 GCATGCATGAGTGATACAGTTAAAGCTGGGTCG
68660 CGATGCAGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (35 bp):
GCATGCATGAGTGATACAGTTAAAGCTGGGTCGTT
Found at i:68716 original size:12 final size:12
Alignment explanation
Indices: 68699--68723 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
68689 TCCATGGCGA
68699 CCTACCACCTAC
1 CCTACCACCTAC
68711 CCTACCACCTAC
1 CCTACCACCTAC
68723 C
1 C
68724 ATGTCGTCGG
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:0.24, C:0.60, G:0.00, T:0.16
Consensus pattern (12 bp):
CCTACCACCTAC
Found at i:69009 original size:13 final size:13
Alignment explanation
Indices: 68991--69017 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
68981 GATGGACGAG
68991 CAACAGCGGCCAC
1 CAACAGCGGCCAC
69004 CAACAGCGGCCAC
1 CAACAGCGGCCAC
69017 C
1 C
69018 CCAAAGCAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.48, G:0.22, T:0.00
Consensus pattern (13 bp):
CAACAGCGGCCAC
Found at i:69080 original size:29 final size:29
Alignment explanation
Indices: 69038--69093 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
69028 AAATAATGAT
69038 GGACGCCGGGCGTGCATGGCGACCTATAA
1 GGACGCCGGGCGTGCATGGCGACCTATAA
69067 GGACGCCGGGCGTGCATGGCGACCTAT
1 GGACGCCGGGCGTGCATGGCGACCTAT
69094 GTTGCCACTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.18, C:0.29, G:0.39, T:0.14
Consensus pattern (29 bp):
GGACGCCGGGCGTGCATGGCGACCTATAA
Found at i:71268 original size:15 final size:18
Alignment explanation
Indices: 71224--71267 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
71214 GTCGGATGAA
71224 GAAGATGATGAGACGGAG
1 GAAGATGATGAGACGGAG
71242 GAAGATGATGAGACGGAG
1 GAAGATGATGAGACGGAG
*
71260 GAATATGA
1 GAAGATGA
71268 GGTGGTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.41, C:0.05, G:0.41, T:0.14
Consensus pattern (18 bp):
GAAGATGATGAGACGGAG
Found at i:77149 original size:18 final size:19
Alignment explanation
Indices: 77091--77151 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 19
77081 TATTTCTTAA
77091 TTTATTTTCTTAT-ATCATATT
1 TTTATTTT-TTATAAT-ATA-T
* *
77112 TTTATTTTTTTTAGTA-AT
1 TTTATTTTTTATAATATAT
77130 TTTA-TTTTTATAATATAT
1 TTTATTTTTTATAATATAT
77148 TTTA
1 TTTA
77152 CTTTGTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
17 9 0.26
18 11 0.32
19 1 0.03
20 4 0.12
21 9 0.26
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTATTTTTTATAATATAT
Found at i:77186 original size:9 final size:10
Alignment explanation
Indices: 77169--77196 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
77159 TTTATAACAC
77169 AATTTTTTTT
1 AATTTTTTTT
77179 AATTTTTTTT
1 AATTTTTTTT
77189 AATTTTTT
1 AATTTTTT
77197 ATACGTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (10 bp):
AATTTTTTTT
Found at i:87917 original size:25 final size:25
Alignment explanation
Indices: 87875--87933 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
87865 TTTTTAACTA
87875 TAAATA-TAAAATTAAAACATAAAC
1 TAAATATTAAAATTAAAACATAAAC
* *
87899 TAAATATTAAAATTGAAACCTAAAC
1 TAAATATTAAAATTAAAACATAAAC
87924 TAAATATTAA
1 TAAATATTAA
87934 CTATAAAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 6 0.19
25 26 0.81
ACGTcount: A:0.61, C:0.08, G:0.02, T:0.29
Consensus pattern (25 bp):
TAAATATTAAAATTAAAACATAAAC
Found at i:88381 original size:33 final size:35
Alignment explanation
Indices: 88308--88396 Score: 128
Period size: 38 Copynumber: 2.5 Consensus size: 35
88298 GTTTATATGC
*
88308 ATAAACAATTTCATTTATGAGTTCATTTAGAATAGCAT
1 ATAAACAATTTCGTTTATGAGTTCATTTAG-A-A-CAT
88346 ATAAACAATTTCGTTTATGAGTTCATTTAG-A-AT
1 ATAAACAATTTCGTTTATGAGTTCATTTAGAACAT
88379 ATAAACAATTTCGTTTAT
1 ATAAACAATTTCGTTTAT
88397 CGATTTATTT
Statistics
Matches: 50, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
33 20 0.40
35 1 0.02
38 29 0.58
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (35 bp):
ATAAACAATTTCGTTTATGAGTTCATTTAGAACAT
Found at i:90286 original size:12 final size:12
Alignment explanation
Indices: 90252--90295 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
90242 ATTCATAGAT
*
90252 TAAATTTATTAAAT
1 TAAATTTA-T-AAC
*
90266 TAAAATTATAAC
1 TAAATTTATAAC
90278 TAAATTTATAAC
1 TAAATTTATAAC
90290 TAAATT
1 TAAATT
90296 GATATAATGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 19 0.70
13 1 0.04
14 7 0.26
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (12 bp):
TAAATTTATAAC
Found at i:95006 original size:24 final size:24
Alignment explanation
Indices: 94979--95028 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
94969 CATTATGACC
94979 AAATATAATTGGGTACGGTAGGCA
1 AAATATAATTGGGTACGGTAGGCA
95003 AAATATAATTGGGTACGGTAGGCA
1 AAATATAATTGGGTACGGTAGGCA
95027 AA
1 AA
95029 GCAATCGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.08, G:0.28, T:0.24
Consensus pattern (24 bp):
AAATATAATTGGGTACGGTAGGCA
Found at i:96020 original size:76 final size:76
Alignment explanation
Indices: 95940--96097 Score: 223
Period size: 76 Copynumber: 2.1 Consensus size: 76
95930 CTAAAATACC
* *
95940 TAAAA-AAAATAATATAATATTCTAAATCCTAATTAAAATACT-AAAACATATTTAAACTAAAAT
1 TAAAATAAAA-AA-ATAATATCCTAAAACCTAATTAAAATACTAAAAACATATTTAAACTAAAAT
96003 ACAAAGATAAAGA
64 ACAAAGATAAAGA
* * *
96016 TAAAATATAAAAATAATATCCTAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATAC
1 TAAAATAAAAAAATAATATCCTAAAACCTAATTAAAATACTAAAAACATATTTAAACTAAAATAC
96081 AAAGATAAA-A
66 AAAGATAAAGA
*
96091 TATAATA
1 TAAAATA
96098 TTTAAAATAT
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
75 33 0.45
76 38 0.51
77 3 0.04
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.28
Consensus pattern (76 bp):
TAAAATAAAAAAATAATATCCTAAAACCTAATTAAAATACTAAAAACATATTTAAACTAAAATAC
AAAGATAAAGA
Found at i:96106 original size:76 final size:75
Alignment explanation
Indices: 95953--96098 Score: 231
Period size: 75 Copynumber: 1.9 Consensus size: 75
95943 AAAAAATAAT
* *
95953 ATAATATTCTAAATCCTAATTAAAATACTAAAACATATTTAAACTAAAATACAAAGATAAAGATA
1 ATAATATCCTAAAACCTAATTAAAATACTAAAACATATTTAAACTAAAATACAAAGATAAAGATA
96018 AAATATAAAA
66 AAATATAAAA
* *
96028 ATAATATCCTAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAA-AT
1 ATAATATCCTAAAACCTAATTAAAATACT-AAAACATATTTAAACTAAAATACAAAGATAAAGAT
*
96092 ATAATAT
65 AAAATAT
96099 TTAAAATATT
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
75 34 0.52
76 31 0.48
ACGTcount: A:0.59, C:0.10, G:0.02, T:0.29
Consensus pattern (75 bp):
ATAATATCCTAAAACCTAATTAAAATACTAAAACATATTTAAACTAAAATACAAAGATAAAGATA
AAATATAAAA
Found at i:97446 original size:15 final size:15
Alignment explanation
Indices: 97426--97455 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
97416 GTTAACTGCA
97426 CATGAAATCTTCCAT
1 CATGAAATCTTCCAT
97441 CATGAAATCTTCCAT
1 CATGAAATCTTCCAT
97456 TGAAATATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.33
Consensus pattern (15 bp):
CATGAAATCTTCCAT
Found at i:97461 original size:13 final size:14
Alignment explanation
Indices: 97427--97461 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
97417 TTAACTGCAC
97427 ATGAAATCTTCCAT
1 ATGAAATCTTCCAT
97441 CATGAAATCTTCCAT
1 -ATGAAATCTTCCAT
97456 -TGAAAT
1 ATGAAAT
97462 ATGATTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.30
15 14 0.70
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (14 bp):
ATGAAATCTTCCAT
Found at i:105743 original size:30 final size:30
Alignment explanation
Indices: 105707--105768 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
105697 TCCACCACCG
* * *
105707 ACGGCATTGTTCGTCAACACACTGTTATCA
1 ACGGCATTGTTCATCAACAAACTGTAATCA
105737 ACGGCATTGTTCATCAACAAACTGTAATCA
1 ACGGCATTGTTCATCAACAAACTGTAATCA
105767 AC
1 AC
105769 CATGTTTGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (30 bp):
ACGGCATTGTTCATCAACAAACTGTAATCA
Found at i:105754 original size:16 final size:16
Alignment explanation
Indices: 105707--105754 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
105697 TCCACCACCG
*
105707 ACGGCATTGTTCGTCA
1 ACGGCATTGTTCATCA
* *
105723 AC-ACACTGTT-ATCA
1 ACGGCATTGTTCATCA
105737 ACGGCATTGTTCATCA
1 ACGGCATTGTTCATCA
105753 AC
1 AC
105755 AAACTGTAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
14 5 0.20
15 12 0.48
16 8 0.32
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (16 bp):
ACGGCATTGTTCATCA
Found at i:105882 original size:66 final size:66
Alignment explanation
Indices: 105776--105909 Score: 250
Period size: 66 Copynumber: 2.0 Consensus size: 66
105766 AACCATGTTT
*
105776 GTAGGGACGGACACAGGATATCTGGTGTTGTTCTCAAGCTGTCCTTGTAAGAACAAATCGACATC
1 GTAGGGACGGACACAGGATATCCGGTGTTGTTCTCAAGCTGTCCTTGTAAGAACAAATCGACATC
105841 C
66 C
*
105842 GTAGGGACGGACACAGGATCTCCGGTGTTGTTCTCAAGCTGTCCTTGTAAGAACAAATCGACATC
1 GTAGGGACGGACACAGGATATCCGGTGTTGTTCTCAAGCTGTCCTTGTAAGAACAAATCGACATC
105907 C
66 C
105908 GT
1 GT
105910 CATGCCATTT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (66 bp):
GTAGGGACGGACACAGGATATCCGGTGTTGTTCTCAAGCTGTCCTTGTAAGAACAAATCGACATC
C
Found at i:106667 original size:59 final size:59
Alignment explanation
Indices: 106572--106808 Score: 272
Period size: 58 Copynumber: 4.1 Consensus size: 59
106562 GATAATGCCT
*
106572 CCTAAAACATAATAAAA-TAAGATTTAA-CAGTGTTGAGCAATGAAATAAAACCCTAAAT
1 CCTAAAACATAATAAAATTAAGATTTAATCA-TGTTGAGCAATGAAATAAAACCCTAAAC
* * * ** * * *
106630 CTTAAAATATAATAAAACTAAGATTTAATCACATTGAGTAATGAAGTAAAACTCT-AAC
1 CCTAAAACATAATAAAATTAAGATTTAATCATGTTGAGCAATGAAATAAAACCCTAAAC
* * *
106688 CCTAAAACATAATAAAGTTAA-AGTTTAATCATGTTGAGTAATGAAATAAAACCCCAAAC
1 CCTAAAACATAATAAAATTAAGA-TTTAATCATGTTGAGCAATGAAATAAAACCCTAAAC
* *
106747 CCT-AAACATAATAAAATTAAGGTTTAATCATGTTGA-CTAATGAAGTAAAACCCT-AAC
1 CCTAAAACATAATAAAATTAAGATTTAATCATGTTGAGC-AATGAAATAAAACCCTAAAC
106804 CCTAA
1 CCTAA
106809 TAATAAAGTT
Statistics
Matches: 150, Mismatches: 22, Indels: 14
0.81 0.12 0.08
Matches are distributed among these distances:
57 7 0.05
58 106 0.71
59 35 0.23
60 2 0.01
ACGTcount: A:0.49, C:0.15, G:0.10, T:0.27
Consensus pattern (59 bp):
CCTAAAACATAATAAAATTAAGATTTAATCATGTTGAGCAATGAAATAAAACCCTAAAC
Found at i:106776 original size:116 final size:116
Alignment explanation
Indices: 106572--106808 Score: 318
Period size: 116 Copynumber: 2.0 Consensus size: 116
106562 GATAATGCCT
* * *
106572 CCTAAAACATAATAAAATAAGATTTAACAGTGTTGAGCAATGAAATAAAACCCTAAATCTTAAAA
1 CCTAAAACATAATAAAATAAGATTTAACAGTGTTGAGCAATGAAATAAAACCCCAAACCCTAAAA
* * *
106637 TATAATAAAACTAAGATTTAATCACATTGAGTAATGAAGTAAAACTCTAAC
66 CATAATAAAACTAAGATTTAATCACATTGACTAATGAAGTAAAACCCTAAC
* *
106688 CCTAAAACATAATAAAGTTAA-AGTTTAATCA-TGTTGAGTAATGAAATAAAACCCCAAACCCT-
1 CCTAAAACATAATAAA-ATAAGA-TTTAA-CAGTGTTGAGCAATGAAATAAAACCCCAAACCCTA
* * **
106750 AAACATAATAAAATTAAGGTTTAATCATGTTGACTAATGAAGTAAAACCCTAAC
63 AAACATAATAAAACTAAGATTTAATCACATTGACTAATGAAGTAAAACCCTAAC
106804 CCTAA
1 CCTAA
106809 TAATAAAGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
116 69 0.65
117 35 0.33
118 2 0.02
ACGTcount: A:0.49, C:0.15, G:0.10, T:0.27
Consensus pattern (116 bp):
CCTAAAACATAATAAAATAAGATTTAACAGTGTTGAGCAATGAAATAAAACCCCAAACCCTAAAA
CATAATAAAACTAAGATTTAATCACATTGACTAATGAAGTAAAACCCTAAC
Found at i:107273 original size:2 final size:2
Alignment explanation
Indices: 107266--107300 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
107256 AAGTTTCAAC
107266 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
107301 CAAATGATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:109024 original size:44 final size:46
Alignment explanation
Indices: 108950--109047 Score: 146
Period size: 45 Copynumber: 2.2 Consensus size: 46
108940 TTATTAAAAT
* * * *
108950 AATATTAATAATATATATATCTAGAATTATCTAT-ATACAAATTTA
1 AATATTTATAATATATATATCTAAAATTATCTATAATAAAAATATA
108995 AATATTTATAATAT-TATATCTAAAATTATCTATAATAAAAATATA
1 AATATTTATAATATATATATCTAAAATTATCTATAATAAAAATATA
109040 AATATTTA
1 AATATTTA
109048 AAAAAAATTA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 18 0.38
45 30 0.62
ACGTcount: A:0.51, C:0.05, G:0.01, T:0.43
Consensus pattern (46 bp):
AATATTTATAATATATATATCTAAAATTATCTATAATAAAAATATA
Found at i:109218 original size:28 final size:28
Alignment explanation
Indices: 109168--109236 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 28
109158 GATAATAAAT
* * *
109168 AATAAAGTGATAAATTAGTTTTATCTCTTA
1 AATAAA-T-ATAAACTAGATTTATCCCTTA
109198 AATAAATATAAACTAGATTTATCCCTTA
1 AATAAATATAAACTAGATTTATCCCTTA
*
109226 AATTAAT-TAAA
1 AATAAATATAAA
109237 TGTTGGAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 4 0.11
28 24 0.69
29 1 0.03
30 6 0.17
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.39
Consensus pattern (28 bp):
AATAAATATAAACTAGATTTATCCCTTA
Found at i:110094 original size:43 final size:43
Alignment explanation
Indices: 109829--110126 Score: 236
Period size: 43 Copynumber: 6.9 Consensus size: 43
109819 TAATTAATAA
* *
109829 CCCTAATTTTTTTAATCTCACTTTTTTCCTTTATAATTGAGCT
1 CCCTAATTTTTTTAATCTCACTTTTTACCTTTATAATTGAGGT
* *
109872 -CAT-ATTTTTTTACAATATC-CTTTTCTACCTTTATAATTGAGGT
1 CCCTAATTTTTTT--AATCTCACTTTT-TACCTTTATAATTGAGGT
* *
109915 CCCT-ATTTTTTTAATCTCA-TTTTTAGCTTTATAATTGA-GC
1 CCCTAATTTTTTTAATCTCACTTTTTACCTTTATAATTGAGGT
* * ** * * *
109955 CCCTAATTTTTTTCAATCCCAATTTTTTTATTATTATATAATTTATGC
1 CCCTAATTTTTTT-AATCTC-A-CTTTTTA-CCTT-TATAATTGAGGT
* *
110003 CCCTAATTTTTTCAATCTCA-TTCTTTACCTTTAAAATTGAGG-
1 CCCTAATTTTTTTAATCTCACTT-TTTACCTTTATAATTGAGGT
* *
110045 CTCCTAATTTTTTTAATCTCACCTTTTACCTTTATAATTTAGGT
1 C-CCTAATTTTTTTAATCTCACTTTTTACCTTTATAATTGAGGT
* * * **
110089 CCCTAATATTTTCAATGAT-ACTTTTTATTTTTATAATT
1 CCCTAATTTTTTTAAT-CTCACTTTTTACCTTTATAATT
110127 TAAGTCCATG
Statistics
Matches: 208, Mismatches: 29, Indels: 36
0.76 0.11 0.13
Matches are distributed among these distances:
40 5 0.02
41 30 0.14
42 22 0.11
43 94 0.45
44 17 0.08
45 10 0.05
46 3 0.01
47 13 0.06
48 14 0.07
ACGTcount: A:0.25, C:0.18, G:0.05, T:0.52
Consensus pattern (43 bp):
CCCTAATTTTTTTAATCTCACTTTTTACCTTTATAATTGAGGT
Found at i:112269 original size:3 final size:3
Alignment explanation
Indices: 112261--112313 Score: 97
Period size: 3 Copynumber: 17.3 Consensus size: 3
112251 ACACGTGGTT
112261 TTC TTC TTC TTC TTC TTC TTC TTTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC -TTC TTC TTC TTC TTC TTC TTC TTC
112307 TTC TTC T
1 TTC TTC T
112314 CCTCAGTTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:112522 original size:21 final size:21
Alignment explanation
Indices: 112480--112522 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
112470 TTTAAAAAAT
* *
112480 AATTGAAAGTTTAGGTACTAA
1 AATTGAAAGTTTAGATAATAA
*
112501 AATTGATAGTTTAGATAATAA
1 AATTGAAAGTTTAGATAATAA
112522 A
1 A
112523 CGTGTTAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.02, G:0.16, T:0.35
Consensus pattern (21 bp):
AATTGAAAGTTTAGATAATAA
Found at i:119831 original size:22 final size:22
Alignment explanation
Indices: 119770--119832 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
119760 TATATGTTTT
* *
119770 TTATAAAAAATTATATGAAATAA
1 TTATAAAAATTTAT-TTAAATAA
* *
119793 TTATAAAAATATGTTTATAAT-A
1 TTATAAAAATTTATTTA-AATAA
119815 TTATAAAAATTTATTTAA
1 TTATAAAAATTTATTTAA
119833 TTTTAAAATC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 1 0.03
22 18 0.55
23 14 0.42
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (22 bp):
TTATAAAAATTTATTTAAATAA
Found at i:119991 original size:22 final size:22
Alignment explanation
Indices: 119966--120022 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
119956 ATAGATAATT
119966 TAAAAAATAATATTATTTCAAA
1 TAAAAAATAATATTATTTCAAA
* * *
119988 TAAATAATATTATTATTTTAAA
1 TAAAAAATAATATTATTTCAAA
120010 TAAATAAATAATA
1 TAAA-AAATAATA
120023 CGATTTGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 23 0.79
23 6 0.21
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAAAAATAATATTATTTCAAA
Found at i:119992 original size:19 final size:18
Alignment explanation
Indices: 119936--120001 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 18
119926 TTGGTTCCGT
119936 ATAATATTATTTAAACCTAA
1 ATAATATTATTTAAA--TAA
119956 ATAGATA--ATTTAAA-AA
1 ATA-ATATTATTTAAATAA
119972 ATAATATTATTTCAAATAA
1 ATAATATTATTT-AAATAA
119991 ATAATATTATT
1 ATAATATTATT
120002 ATTTTAAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
15 3 0.07
16 5 0.12
17 4 0.10
18 3 0.07
19 20 0.49
20 3 0.07
21 3 0.07
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.41
Consensus pattern (18 bp):
ATAATATTATTTAAATAA
Found at i:120015 original size:19 final size:19
Alignment explanation
Indices: 119936--120016 Score: 64
Period size: 22 Copynumber: 4.2 Consensus size: 19
119926 TTGGTTCCGT
119936 ATAATATTA-TTTAAACCTAA
1 ATAATATTATTTTAAA--TAA
119956 ATAGATA--A-TTTAAA-AA
1 ATA-ATATTATTTTAAATAA
*
119972 ATAATATTATTTCAAATAA
1 ATAATATTATTTTAAATAA
119991 ATAATATTATTATTTTAAATAA
1 AT-A-A-TATTATTTTAAATAA
120013 ATAA
1 ATAA
120017 ATAATACGAT
Statistics
Matches: 51, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
15 3 0.06
16 5 0.10
17 1 0.02
18 5 0.10
19 11 0.22
20 5 0.10
21 5 0.10
22 16 0.31
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (19 bp):
ATAATATTATTTTAAATAA
Found at i:120058 original size:11 final size:11
Alignment explanation
Indices: 120042--120069 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
120032 AAATAAAATA
120042 AATATTTTCAT
1 AATATTTTCAT
120053 AATATTTTCAT
1 AATATTTTCAT
120064 AATATT
1 AATATT
120070 ATAAATATAC
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:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (11 bp):
AATATTTTCAT
Found at i:122272 original size:19 final size:18
Alignment explanation
Indices: 122244--122282 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
122234 CTAAGTGTAC
122244 AATCTAGGTGTGCAATCT
1 AATCTAGGTGTGCAATCT
*
122262 AATCGTAGGTGTGCGATCT
1 AATC-TAGGTGTGCAATCT
122281 AA
1 AA
122283 ATGCTTAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (18 bp):
AATCTAGGTGTGCAATCT
Found at i:128451 original size:12 final size:12
Alignment explanation
Indices: 128434--128458 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
128424 CTCGGACTTT
128434 TAAATACAAATA
1 TAAATACAAATA
128446 TAAATACAAATA
1 TAAATACAAATA
128458 T
1 T
128459 GAACTTCCCC
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:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (12 bp):
TAAATACAAATA
Found at i:131604 original size:39 final size:37
Alignment explanation
Indices: 131536--131613 Score: 120
Period size: 39 Copynumber: 2.1 Consensus size: 37
131526 AATTAACGTT
*
131536 AAATTTTGAACGGGGTACTAAAATGAAACAAAAACTA
1 AAATTTTGAACGGGGTACTAAAATAAAACAAAAACTA
*
131573 AAATTTTTAACGGTGTGTACTAAAATAAAACAAAAACTA
1 AAATTTTGAACGG-G-GTACTAAAATAAAACAAAAACTA
131612 AA
1 AA
131614 CTTTAGGTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 12 0.32
38 1 0.03
39 24 0.65
ACGTcount: A:0.53, C:0.10, G:0.13, T:0.24
Consensus pattern (37 bp):
AAATTTTGAACGGGGTACTAAAATAAAACAAAAACTA
Found at i:138042 original size:2 final size:2
Alignment explanation
Indices: 138035--138062 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
138025 TTGGAATTTG
138035 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
138063 TCGAGTATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:138381 original size:24 final size:24
Alignment explanation
Indices: 138327--138374 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
138317 ATATTTAGTT
138327 GAATTGTGAATATTTTGTTGAATC
1 GAATTGTGAATATTTTGTTGAATC
138351 GAATTGTGAATATTTTGTTGAATC
1 GAATTGTGAATATTTTGTTGAATC
138375 TGATTGTACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.04, G:0.21, T:0.46
Consensus pattern (24 bp):
GAATTGTGAATATTTTGTTGAATC
Found at i:146299 original size:2 final size:2
Alignment explanation
Indices: 146294--146328 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
146284 ACTATGTTTG
146294 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
146329 CTATTGTTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:146671 original size:21 final size:21
Alignment explanation
Indices: 146625--146677 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
146615 GGTCTTTAAG
146625 TATTATTATTAAATAAATAAA
1 TATTATTATTAAATAAATAAA
* * *
146646 AATTATT-TTGAATAAATATTA
1 TATTATTATTAAATAAATA-AA
*
146667 TATTATAATTA
1 TATTATTATTA
146678 CAGTTAATAA
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
20 10 0.42
21 12 0.50
22 2 0.08
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TATTATTATTAAATAAATAAA
Found at i:147870 original size:6 final size:6
Alignment explanation
Indices: 147827--148003 Score: 205
Period size: 6 Copynumber: 28.7 Consensus size: 6
147817 TGGAGATATG
* * *
147827 TATGTA TAATGTG TATGTG TATGCGTA TATGTA -ATGTA TATGTA CATGTA
1 TATGTA T-ATGTA TATGTA TAT--GTA TATGTA TATGTA TATGTA TATGTA
* * * *
147877 TATGTA CATGTA TATGTA CATGTA TATGTA CATGTA TATGTA CATGTATA
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATGTA TATG--TA
*
147927 TATGTA TA-GTA CATGTA TATGTA TGTATGTA TATGTA TATGTA TATGTA
1 TATGTA TATGTA TATGTA TATGTA --TATGTA TATGTA TATGTA TATGTA
147976 TATGTA TATGTA TATGTA TATGTA TATG
1 TATGTA TATGTA TATGTA TATGTA TATG
148004 GTGATTCATA
Statistics
Matches: 148, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
5 9 0.06
6 118 0.80
7 5 0.03
8 16 0.11
ACGTcount: A:0.32, C:0.04, G:0.19, T:0.45
Consensus pattern (6 bp):
TATGTA
Found at i:154958 original size:62 final size:62
Alignment explanation
Indices: 154889--155036 Score: 210
Period size: 61 Copynumber: 2.4 Consensus size: 62
154879 CACTTTATTC
*
154889 TTTACCAAATAAACATTTAGATACTACTTC-GTATTTAGATATTATAATTACTTAACTAT-TTT
1 TTTACCAAAT-AATATTTAGATACTAC-TCAGTATTTAGATATTATAATTACTTAACTATCTTT
* * *
154951 TTTACCAAATAATATTTAGATACTACTCATTATTTAGATATTATAATTATTTAACTTTCTTT
1 TTTACCAAATAATATTTAGATACTACTCAGTATTTAGATATTATAATTACTTAACTATCTTT
*
155013 TTTACCAAATTATTATTTAGATAC
1 TTTACCAAA-TAATATTTAGATAC
155037 ACCTTTGAAT
Statistics
Matches: 78, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
60 2 0.03
61 41 0.53
62 22 0.28
63 13 0.17
ACGTcount: A:0.36, C:0.12, G:0.04, T:0.47
Consensus pattern (62 bp):
TTTACCAAATAATATTTAGATACTACTCAGTATTTAGATATTATAATTACTTAACTATCTTT
Found at i:154985 original size:61 final size:61
Alignment explanation
Indices: 154856--155036 Score: 208
Period size: 61 Copynumber: 2.9 Consensus size: 61
154846 CCTGTACTAT
* * *
154856 ATTATTTAGGTATT-TAGTT-CTTACACTTTATTCTTTACCAAATAAACATTTAGATACTACTTC
1 ATTATTTAGATATTATAATTACTTA-ACTTT-TT-TTTACCAAAT-AATATTTAGATACTACTTC
*
154919 -GTATTTAGATATTATAATTACTTAACTATTTTTTTACCAAATAATATTTAGATACTAC-TC
1 ATTATTTAGATATTATAATTACTTAACT-TTTTTTTACCAAATAATATTTAGATACTACTTC
* *
154979 ATTATTTAGATATTATAATTATTTAACTTTCTTTTTTACCAAATTATTATTTAGATAC
1 ATTATTTAGATATTATAATTACTTAAC-TT-TTTTTTACCAAA-TAATATTTAGATAC
155037 ACCTTTGAAT
Statistics
Matches: 104, Mismatches: 7, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
60 2 0.02
61 40 0.38
62 34 0.33
63 22 0.21
64 6 0.06
ACGTcount: A:0.34, C:0.12, G:0.05, T:0.49
Consensus pattern (61 bp):
ATTATTTAGATATTATAATTACTTAACTTTTTTTTACCAAATAATATTTAGATACTACTTC
Found at i:155001 original size:17 final size:17
Alignment explanation
Indices: 154959--155003 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
154949 TTTTTACCAA
154959 ATAA-TATTTAGATACT
1 ATAATTATTTAGATACT
* *
154975 ACTCATTATTTAGATATT
1 A-TAATTATTTAGATACT
154993 ATAATTATTTA
1 ATAATTATTTA
155004 ACTTTCTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 1 0.04
17 11 0.46
18 12 0.50
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (17 bp):
ATAATTATTTAGATACT
Done.