Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 192 of 211
Found at i:59271323 original size:39 final size:40
Alignment explanation
Indices: 59271267--59271401 Score: 141
Period size: 40 Copynumber: 3.4 Consensus size: 40
59271257 TGGGCTTAGG
**
59271267 TTTTT-GCGGCGTTTTTCCAAAAAATGCCGCTAATGCTC-A
1 TTTTTAGCGGCG-TTTTCCAAAAAGCGCCGCTAATGCTCGA
* ***
59271306 TTTTTAGCGGCGCTTTCCTGTAAGCGCCGCTAAAT-CTCGA
1 TTTTTAGCGGCGTTTTCCAAAAAGCGCCGCT-AATGCTCGA
* * * *
59271346 TCTTTAGCGACGTTTTACATAAAGCGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTCCAAAAAGCGCCGCTAATGCTCGA
59271386 TTTTTAGCGGCGTTTT
1 TTTTTAGCGGCGTTTT
59271402 TTTGTCCAAA
Statistics
Matches: 77, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
39 24 0.31
40 53 0.69
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.36
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTCCAAAAAGCGCCGCTAATGCTCGA
Found at i:59275131 original size:9 final size:9
Alignment explanation
Indices: 59275117--59275196 Score: 50
Period size: 8 Copynumber: 9.3 Consensus size: 9
59275107 TTTCGGTTAA
59275117 AATTGAATT
1 AATTGAATT
59275126 AATTG-ATT
1 AATTGAATT
59275134 GAA-TGAATTT
1 -AATTGAA-TT
59275144 AATTTG-ATT
1 AA-TTGAATT
*
59275153 AATT-CATT
1 AATTGAATT
59275161 AATT-AATT
1 AATTGAATT
*
59275169 AATTTAATT
1 AATTGAATT
59275178 CAATTGAA--
1 -AATTGAATT
59275186 AATT-AATT
1 AATTGAATT
59275194 AAT
1 AAT
59275197 ATTTTCTTTA
Statistics
Matches: 59, Mismatches: 2, Indels: 21
0.72 0.02 0.26
Matches are distributed among these distances:
6 2 0.03
7 4 0.07
8 24 0.41
9 18 0.31
10 9 0.15
11 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (9 bp):
AATTGAATT
Found at i:59278537 original size:20 final size:20
Alignment explanation
Indices: 59278512--59278551 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
59278502 CGTAAAATGA
*
59278512 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
59278532 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
59278552 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:59278541 original size:34 final size:35
Alignment explanation
Indices: 59278497--59278563 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
59278487 CAGTAAAATA
*
59278497 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
59278531 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
59278564 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:59278567 original size:14 final size:15
Alignment explanation
Indices: 59278491--59278567 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
59278481 GATTGCCAGT
* *
59278491 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
59278505 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
59278519 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
59278539 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
59278554 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
59278568 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:59279232 original size:23 final size:22
Alignment explanation
Indices: 59279202--59279245 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
59279192 GTTTAAAAAT
*
59279202 AATAAATTATATATAATTTTATA
1 AATAAATTATA-ACAATTTTATA
*
59279225 AATAAATTTTAACAATTTTAT
1 AATAAATTATAACAATTTTAT
59279246 TTATTGTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
AATAAATTATAACAATTTTATA
Found at i:59308690 original size:15 final size:15
Alignment explanation
Indices: 59308680--59308708 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
59308670 AAATAAAATT
59308680 TAATATTATAATAAA
1 TAATATTATAATAAA
59308695 TAATATTAT-ATAAA
1 TAATATTATAATAAA
59308709 CTTTTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAATATTATAATAAA
Found at i:59309060 original size:16 final size:15
Alignment explanation
Indices: 59309041--59309079 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
59309031 ATTTCAAATT
59309041 TTAAAAAATATAAAAA
1 TTAAAAAATAT-AAAA
* *
59309057 TTAAAAATTATCAAA
1 TTAAAAAATATAAAA
59309072 TTAAAAAA
1 TTAAAAAA
59309080 AAGATTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
TTAAAAAATATAAAA
Found at i:59320898 original size:22 final size:22
Alignment explanation
Indices: 59320871--59320914 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
59320861 TTTTTAAAAA
59320871 TTATA-TTTATATAATTTTATTT
1 TTATATTTTATAT-ATTTTATTT
59320893 TTATATTTTATATATTTTATTT
1 TTATATTTTATATATTTTATTT
59320915 ACCAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (22 bp):
TTATATTTTATATATTTTATTT
Found at i:59320914 original size:14 final size:15
Alignment explanation
Indices: 59320871--59320912 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
59320861 TTTTTAAAAA
59320871 TTATATTTATATAATT
1 TTATATTT-TATAATT
*
59320887 TTAT-TTTTATATTT
1 TTATATTTTATAATT
59320901 TATATATTTTAT
1 T-TATATTTTAT
59320913 TTACCAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 7 0.30
15 6 0.26
16 10 0.43
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTATATTTTATAATT
Found at i:59324066 original size:20 final size:19
Alignment explanation
Indices: 59324033--59324070 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
59324023 ATAATTTAAT
59324033 TTAATTTAATTATATAAATA
1 TTAATTTAATTATA-AAATA
59324053 TTAATATTAA-TATAAAAT
1 TTAAT-TTAATTATAAAAT
59324071 TATTTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTAATTTAATTATAAAATA
Found at i:59325977 original size:30 final size:30
Alignment explanation
Indices: 59325941--59326010 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
59325931 ATAATCTAAT
*
59325941 AATATTATAAAATGAAGGAAGGAAAGAAAG
1 AATATTAGAAAATGAAGGAAGGAAAGAAAG
*
59325971 AATATTAGAAATTGAAGGAAGGAAAGAAAG
1 AATATTAGAAAATGAAGGAAGGAAAGAAAG
59326001 AATATTAGAA
1 AATATTAGAA
59326011 TTTGTTGGTG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.59, C:0.00, G:0.23, T:0.19
Consensus pattern (30 bp):
AATATTAGAAAATGAAGGAAGGAAAGAAAG
Found at i:59327429 original size:13 final size:13
Alignment explanation
Indices: 59327413--59327473 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
59327403 TTTGTATGTG
59327413 TATTTTAAATAAT
1 TATTTTAAATAAT
*
59327426 TATTTTAAATATTT
1 TATTTTAAATA-AT
*
59327440 TATGTATAAA-AAT
1 TAT-TTTAAATAAT
*
59327453 GATATTTAAAATAAT
1 --TATTTTAAATAAT
59327468 TATTTT
1 TATTTT
59327474 TATAATATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
13 17 0.46
14 9 0.24
15 11 0.30
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (13 bp):
TATTTTAAATAAT
Found at i:59327636 original size:49 final size:46
Alignment explanation
Indices: 59327511--59327636 Score: 132
Period size: 45 Copynumber: 2.7 Consensus size: 46
59327501 AATTTAGGTG
* * * *
59327511 AAAATATATTGATATTTG-TATGAACTATTTGAAATTTTTTACATATT
1 AAAATATA-TGATATTTGAAAT-AATTATTTGAAATATTTTACATATA
*
59327558 AAAGTA-ATGATATTTGAAATAAGTT-TTTGAAATATTTTACATATAA
1 AAAATATATGATATTTGAAATAA-TTATTTGAAATATTTTACATAT-A
59327604 AAAATAATAGTGATATTTGAAATAATTATTTGA
1 AAAAT-ATA-TGATATTTGAAATAATTATTTGA
59327637 TTTTATTATA
Statistics
Matches: 66, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
45 29 0.44
46 8 0.12
47 6 0.09
48 3 0.05
49 20 0.30
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (46 bp):
AAAATATATGATATTTGAAATAATTATTTGAAATATTTTACATATA
Found at i:59328087 original size:2 final size:2
Alignment explanation
Indices: 59328080--59328106 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
59328070 TGAGAATGGA
59328080 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 A
59328107 AAAGTGAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:59330740 original size:2 final size:2
Alignment explanation
Indices: 59330733--59330758 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
59330723 CTAAATATTT
59330733 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
59330759 CTTCTTCCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:59335395 original size:24 final size:24
Alignment explanation
Indices: 59335346--59335396 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
59335336 AATGGCCTAC
* ** *
59335346 ATACATATACATATACGTATGTAT
1 ATACATAAACATATACACATGCAT
59335370 ATACATAAACATATACACATGCAT
1 ATACATAAACATATACACATGCAT
59335394 ATA
1 ATA
59335397 AAACAGGGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.47, C:0.16, G:0.06, T:0.31
Consensus pattern (24 bp):
ATACATAAACATATACACATGCAT
Found at i:59341307 original size:4 final size:4
Alignment explanation
Indices: 59341298--59341338 Score: 64
Period size: 4 Copynumber: 10.2 Consensus size: 4
59341288 AGATGGTTAA
* *
59341298 TATG TATG TATG TATG AATG TATG TATG TATG TATG CATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG T
59341339 GTAGTTTCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.27, C:0.02, G:0.24, T:0.46
Consensus pattern (4 bp):
TATG
Found at i:59352369 original size:8 final size:8
Alignment explanation
Indices: 59352356--59352384 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
59352346 CACTAGAGAC
59352356 CAGTGTTA
1 CAGTGTTA
59352364 CAGTGTTA
1 CAGTGTTA
59352372 CAGTGTTA
1 CAGTGTTA
59352380 CAGTG
1 CAGTG
59352385 AGTCCTGGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:59352496 original size:23 final size:23
Alignment explanation
Indices: 59352470--59352591 Score: 208
Period size: 23 Copynumber: 5.3 Consensus size: 23
59352460 AGTGTTATTG
59352470 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACGT
*
59352493 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACGT
59352516 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACGT
*
59352539 ATCAATGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACGT
* *
59352562 ATCAGTGGTAGCTTTGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACGT
59352585 ATCAGTG
1 ATCAGTG
59352592 TGGCACTTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 93 1.00
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACGT
Found at i:59399749 original size:28 final size:28
Alignment explanation
Indices: 59399709--59399764 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
59399699 TAAACACATA
59399709 GCTAAAACACTAAATAATATCTTAATAC
1 GCTAAAACACTAAATAATATCTTAATAC
59399737 GCTAAAACACTAAATAATATCTTAATAC
1 GCTAAAACACTAAATAATATCTTAATAC
59399765 CCCTAAGTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.50, C:0.18, G:0.04, T:0.29
Consensus pattern (28 bp):
GCTAAAACACTAAATAATATCTTAATAC
Found at i:59412824 original size:18 final size:18
Alignment explanation
Indices: 59412803--59412840 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
59412793 ATTTAGGTAA
59412803 AACCGAAAAAATTCGGTT
1 AACCGAAAAAATTCGGTT
**
59412821 AACCGACCAAATTCGGTT
1 AACCGAAAAAATTCGGTT
59412839 AA
1 AA
59412841 TCGGTCAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (18 bp):
AACCGAAAAAATTCGGTT
Found at i:59413209 original size:9 final size:9
Alignment explanation
Indices: 59413189--59413246 Score: 82
Period size: 9 Copynumber: 6.4 Consensus size: 9
59413179 GTAGTGATTC
*
59413189 AATTTGGTT
1 AATTCGGTT
59413198 AATTCAGG-T
1 AATTC-GGTT
59413207 AATTCGGTT
1 AATTCGGTT
*
59413216 AATTCGGGT
1 AATTCGGTT
59413225 AATTCGGTT
1 AATTCGGTT
59413234 AATTCGGTT
1 AATTCGGTT
59413243 AATT
1 AATT
59413247 TTTAACCAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
8 2 0.05
9 40 0.91
10 2 0.05
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:59413534 original size:49 final size:49
Alignment explanation
Indices: 59413420--59413934 Score: 576
Period size: 49 Copynumber: 10.4 Consensus size: 49
59413410 AACACCCCTA
*
59413420 CTGTCAATGGTCGGCACCACCAGTACGAAAAAATAAATTTTGGGTGCTGGC
1 CTGTCAATGGCCGGCACCACCAGTACGAAAAAA-AAA-TTTGGGTGCTGGC
* * *
59413471 CTATCAATGACCGGCACCACCAATACGAAAAAAAAATTTGGGTGCTGGC
1 CTGTCAATGGCCGGCACCACCAGTACGAAAAAAAAATTTGGGTGCTGGC
* * * * * *
59413520 CTGTCAATGGCCGGCACCAGCAGTTCTAAAAAAAAAAATTGGCTTCTGGC
1 CTGTCAATGGCCGGCACCACCAGTAC-GAAAAAAAAATTTGGGTGCTGGC
* * * *
59413570 CTATCAATGGTCAGG-ACAACTAGTACGAAAAAAAAAATTTTGGGTGCTGGC
1 CTGTCAATGG-CCGGCACCACCAGTACG-AAAAAAAAA-TTTGGGTGCTGGC
* * *
59413621 CTGTCAATGGTCGGCACCACCAGTACGAAAAAAAATTTTGGGTGCTAGC
1 CTGTCAATGGCCGGCACCACCAGTACGAAAAAAAAATTTGGGTGCTGGC
* *
59413670 CTGTCAATGGCCGTCACCACCAATACGAAAAAAAAAATTTGGGTGCTGGC
1 CTGTCAATGGCCGGCACCACCAGTACG-AAAAAAAAATTTGGGTGCTGGC
* *
59413720 CTGTCAATGGCCGGCACCACCAGTACGAAAAAAAATGTTTTTGGGTGTTGGC
1 CTGTCAATGGCCGGCACCACCAGTACGAAAAAAAA---ATTTGGGTGCTGGC
* * * *
59413772 CT-TCTAATGACCGTCACCAACAGTACG-AAAAAAAATTTATGGTGCTGGC
1 CTGTC-AATGGCCGGCACCACCAGTACGAAAAAAAAATTT-GGGTGCTGGC
* * * *
59413821 CTATCAATGGCCGGCACCACTAATACG-AAAAAAAATTTGGGTACTGGC
1 CTGTCAATGGCCGGCACCACCAGTACGAAAAAAAAATTTGGGTGCTGGC
* * *
59413869 TTGTCAATGGCCGGCACCACCAATAC-AAAAAAAAA-TTGGGTGCTAGC
1 CTGTCAATGGCCGGCACCACCAGTACGAAAAAAAAATTTGGGTGCTGGC
59413916 CAT-TCAATGGCCGGCACCA
1 C-TGTCAATGGCCGGCACCA
59413935 AATTTATCAA
Statistics
Matches: 392, Mismatches: 58, Indels: 32
0.81 0.12 0.07
Matches are distributed among these distances:
47 26 0.07
48 43 0.11
49 116 0.30
50 104 0.27
51 70 0.18
52 33 0.08
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.22
Consensus pattern (49 bp):
CTGTCAATGGCCGGCACCACCAGTACGAAAAAAAAATTTGGGTGCTGGC
Found at i:59413595 original size:150 final size:148
Alignment explanation
Indices: 59413423--59413934 Score: 588
Period size: 150 Copynumber: 3.4 Consensus size: 148
59413413 ACCCCTACTG
59413423 TCAATGGTCGGCACCACCAGTACGAAAAAATAAATTTTGGGTGCTGGCCTATCAATGACCGGCAC
1 TCAATGGTCGGCACCACCAGTACGAAAAAA-AAATTTTGGGTGCTGGCCT-TCAATGACCGGCAC
* * * * *
59413488 CACCAATACGAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCAGCAGTTCTAAAAAA
64 CACCAGTACGAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAATACGAAAAAA
*
59413553 AAAAATTGGCTTCTGGCCTA
129 AAAAATTGGCTGCTGGCCTA
* * **
59413573 TCAATGGTCAGG-ACAACTAGTACGAAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGTCGGCA
1 TCAATGGTC-GGCACCACCAGTACG-AAAAAAAAATTTTGGGTGCTGGCCT-TCAATGACCGGCA
* * *
59413637 CCACCAGTACGAAAAAAAATTTTGGGTGCTAGCCTGTCAATGGCCGTCACCACCAATACGAAAAA
63 CCACCAGTACGAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAATACGAAAAA
* * *
59413702 AAAAATTTGGGTGCTGGCCTG
128 AAAAAATTGGCTGCTGGCCTA
* * * *
59413723 TCAATGGCCGGCACCACCAGTACGAAAAAAAATGTTTTTGGGTGTTGGCCTTCTAATGACCGTCA
1 TCAATGGTCGGCACCACCAGTACGAAAAAAAA--ATTTTGGGTGCTGGCCTTC-AATGACCGGCA
* * * *
59413788 CCAACAGTACG-AAAAAAAATTTATGGTGCTGGCCTATCAATGGCCGGCACCACTAATACG--AA
63 CCACCAGTACGAAAAAAAAATTT-GGGTGCTGGCCTGTCAATGGCCGGCACCACCAATACGAAAA
* * * * *
59413850 AAAAAATTTGGGTACTGGCTTG
127 AAAAAAATTGGCTGCTGGCCTA
* * * *
59413872 TCAATGGCCGGCACCACCAATAC-AAAAAAAAA--TTGGGTGCTAGCCATTCAATGGCCGGCACC
1 TCAATGGTCGGCACCACCAGTACGAAAAAAAAATTTTGGGTGCTGGCC-TTCAATGACCGGCACC
59413934 A
65 A
59413935 AATTTATCAA
Statistics
Matches: 314, Mismatches: 40, Indels: 22
0.84 0.11 0.06
Matches are distributed among these distances:
144 23 0.07
145 3 0.01
148 8 0.03
149 54 0.17
150 153 0.49
151 73 0.23
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (148 bp):
TCAATGGTCGGCACCACCAGTACGAAAAAAAAATTTTGGGTGCTGGCCTTCAATGACCGGCACCA
CCAGTACGAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAATACGAAAAAAAA
AAATTGGCTGCTGGCCTA
Found at i:59413755 original size:99 final size:98
Alignment explanation
Indices: 59413420--59413934 Score: 594
Period size: 100 Copynumber: 5.2 Consensus size: 98
59413410 AACACCCCTA
* *
59413420 CTGTCAATGGTCGGCACCACCAGTACGAAAAAATAAATTTTGGGTGCTGGCCTATCAATGACCGG
1 CTGTCAATGGCCGGCACCACCAGTACG-AAAAA-AAATTTTGGGTGCTGGCCTATCAATGGCCGG
59413485 CACCACCAATACGAAAAAAAAATTTGGGTGCTGGC
64 CACCACCAATACGAAAAAAAAATTTGGGTGCTGGC
* * * ** * * *
59413520 CTGTCAATGGCCGGCACCAGCAGTTCTAAAAAAAAAAATTGGCTTCTGGCCTATCAATGGTCAGG
1 CTGTCAATGGCCGGCACCACCAGTAC-GAAAAAAAATTTTGGGTGCTGGCCTATCAATGG-CCGG
* * *
59413585 -ACAACTAGTACGAAAAAAAAAATTTTGGGTGCTGGC
64 CACCACCAATACG-AAAAAAAAA-TTTGGGTGCTGGC
* * * *
59413621 CTGTCAATGGTCGGCACCACCAGTACGAAAAAAAATTTTGGGTGCTAGCCTGTCAATGGCCGTCA
1 CTGTCAATGGCCGGCACCACCAGTACGAAAAAAAATTTTGGGTGCTGGCCTATCAATGGCCGGCA
59413686 CCACCAATACGAAAAAAAAAATTTGGGTGCTGGC
66 CCACCAATACG-AAAAAAAAATTTGGGTGCTGGC
* *
59413720 CTGTCAATGGCCGGCACCACCAGTACGAAAAAAAATGTTTTTGGGTGTTGGCCT-TCTAATGACC
1 CTGTCAATGGCCGGCACCACCAGTACGAAAAAAAA---TTTTGGGTGCTGGCCTATC-AATGGCC
* * * *
59413784 GTCACCAACAGTACG-AAAAAAAATTTATGGTGCTGGC
62 GGCACCACCAATACGAAAAAAAAATTT-GGGTGCTGGC
* * * * * *
59413821 CTATCAATGGCCGGCACCACTAATACGAAAAAAAA-TTTGGGTACTGGCTTGTCAATGGCCGGCA
1 CTGTCAATGGCCGGCACCACCAGTACGAAAAAAAATTTTGGGTGCTGGCCTATCAATGGCCGGCA
*
59413885 CCACCAATAC-AAAAAAAAA-TTGGGTGCTAGC
66 CCACCAATACGAAAAAAAAATTTGGGTGCTGGC
59413916 CAT-TCAATGGCCGGCACCA
1 C-TGTCAATGGCCGGCACCA
59413935 AATTTATCAA
Statistics
Matches: 355, Mismatches: 47, Indels: 31
0.82 0.11 0.07
Matches are distributed among these distances:
95 25 0.07
96 3 0.01
97 37 0.10
98 2 0.01
99 80 0.23
100 96 0.27
101 79 0.22
102 33 0.09
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.22
Consensus pattern (98 bp):
CTGTCAATGGCCGGCACCACCAGTACGAAAAAAAATTTTGGGTGCTGGCCTATCAATGGCCGGCA
CCACCAATACGAAAAAAAAATTTGGGTGCTGGC
Found at i:59414383 original size:10 final size:11
Alignment explanation
Indices: 59414357--59414382 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
59414347 TTTAAAAATA
59414357 AAAAATATTTT
1 AAAAATATTTT
59414368 AAAAATATTTT
1 AAAAATATTTT
59414379 AAAA
1 AAAA
59414383 TTAAAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:59415391 original size:23 final size:23
Alignment explanation
Indices: 59415365--59415419 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
59415355 TTTAGCTTCT
59415365 TTTTGTCTTTGTCTTG-GTTTTAA
1 TTTTGT-TTTGTCTTGTGTTTTAA
* *
59415388 TTTTGTTTTGTGTTGTGTTTTAC
1 TTTTGTTTTGTCTTGTGTTTTAA
*
59415411 TTTTTTTTT
1 TTTTGTTTT
59415420 ATTTACTCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 8 0.29
23 20 0.71
ACGTcount: A:0.05, C:0.05, G:0.16, T:0.73
Consensus pattern (23 bp):
TTTTGTTTTGTCTTGTGTTTTAA
Found at i:59423697 original size:30 final size:31
Alignment explanation
Indices: 59423652--59423711 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
59423642 AGAGGTGGGA
*
59423652 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGAGAATAAAAATTTTAGGGGAAAAG
* *
59423683 TGGG-AGAGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGAGAATAAAAATTTTAGGGGAAAA
59423712 TAAAATGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.37, T:0.20
Consensus pattern (31 bp):
TGGGAAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:59424869 original size:51 final size:51
Alignment explanation
Indices: 59424739--59425521 Score: 814
Period size: 51 Copynumber: 15.9 Consensus size: 51
59424729 AGTCATTATG
* **
59424739 GCGAATCTTTTTTCCCGGGCGTTGCAGTGGAACAGATTAAAGCTGAA-GCA
1 GCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* * * *
59424789 ACGAATTTTATTTCCTTGGCGTTGCAGTGGAACATATTAAAGTTGAAGGCA
1 GCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* * * * * *
59424840 GCGAATCTTATTTCCTTAGCGTTGTAGTGGAATAGATTAAAGTTGAAGACG
1 GCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* * *
59424891 GTGAATCTTATTTCCTTAGCGTTGCAGT-----AGATTAAAGTTGAAGGCA
1 GCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* *
59424937 GCGAATCTTTTTTCCTTGGCGTTACAGTGGAACAGATTAAAGCTGAAGGCA
1 GCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* * * *
59424988 ACAAATCTTATTT-CTCTGGCATTGCAGT-----AGATTAAAGATGAAGGCA
1 GCGAATCTTATTTCCT-TGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* * * * *
59425034 GCGAATCTTATTTCCTTGGTGTTACAGTAGAACATATTAAAGTTGAAGGCA
1 GCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* * * *
59425085 GAGAATCTTATTTCCCTGGCGTTGCAGT-----AGATTAAAGCTGAAAGTA
1 GCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* *
59425131 GCGAATCTTCTTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAAGCA
1 GCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* * * *
59425182 GCAAATCTTATTT-CTCTGGCATTGC-----AATATATTAAAGCTGAAGGCA
1 GCGAATCTTATTTCCT-TGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
*
59425228 GCGAATCTTATTTCCTTGGCGTTACAGTGGAACAGATTAAAGCTGAAGGCA
1 GCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* * * * *
59425279 ACGGATCTTTTTTCCTTGGCGTTGCAGTGGAATAAATTAAAGCTGAAGGCA
1 GCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* *
59425330 GCGAATCTTGTTTCCCTGGCGTTGCAGT-----AGATTAAAGCTGAAGGCA
1 GCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* * *
59425376 GCAAATCTTATTTCCTTGGTGTTACAGTGGAACAGATTAAAGCTGAAGGCA
1 GCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* * * * *
59425427 CCGAATCTTATTT-CTCTAGCGTTGCAGTGTAATAGATTAAAGCTGAAAGCA
1 GCGAATCTTATTTCCT-TGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* * ** *
59425478 ACGAATCTTTTTTCCCAGGCGTTGCAGTGGAACATATTAAAGCT
1 GCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCT
59425522 ACAAATTATG
Statistics
Matches: 609, Mismatches: 92, Indels: 63
0.80 0.12 0.08
Matches are distributed among these distances:
46 193 0.32
47 4 0.01
50 46 0.08
51 365 0.60
52 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (51 bp):
GCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
Found at i:59424953 original size:97 final size:97
Alignment explanation
Indices: 59424739--59425505 Score: 805
Period size: 97 Copynumber: 7.8 Consensus size: 97
59424729 AGTCATTATG
* ** * *
59424739 GCGAATCTTTTTTCCCGGGCGTTGCAGTGGAACAGATTAAAGCTGAA-GCAACGAATTTTATTTC
1 GCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTC
* *
59424803 CTTGGCGTTGCAGTGGAACATATTAAAGTTGAAGGCA
66 CTTGGCGTTGCAGT-----AGATTAAAGCTGAAGGCA
* * * * * * *
59424840 GCGAATCTTATTTCCTTAGCGTTGTAGTGGAATAGATTAAAGTTGAAGACGGTGAATCTTATTTC
1 GCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTC
* *
59424905 CTTAGCGTTGCAGTAGATTAAAGTTGAAGGCA
66 CTTGGCGTTGCAGTAGATTAAAGCTGAAGGCA
* * * *
59424937 GCGAATCTTTTTTCCTTGGCGTTACAGTGGAACAGATTAAAGCTGAAGGCAACAAATCTTATTT-
1 GCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTC
* *
59425001 CTCTGGCATTGCAGTAGATTAAAGATGAAGGCA
66 CT-TGGCGTTGCAGTAGATTAAAGCTGAAGGCA
* * * * * *
59425034 GCGAATCTTATTTCCTTGGTGTTACAGTAGAACATATTAAAGTTGAAGGCAGAGAATCTTATTTC
1 GCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTC
* * *
59425099 CCTGGCGTTGCAGTAGATTAAAGCTGAAAGTA
66 CTTGGCGTTGCAGTAGATTAAAGCTGAAGGCA
* * *
59425131 GCGAATCTTCTTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAAGCAGCAAATCTTATTT-
1 GCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTC
* * *
59425195 CTCTGGCATTGCAATATATTAAAGCTGAAGGCA
66 CT-TGGCGTTGCAGTAGATTAAAGCTGAAGGCA
* * * *
59425228 GCGAATCTTATTTCCTTGGCGTTACAGTGGAACAGATTAAAGCTGAAGGCAACGGATCTTTTTTC
1 GCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTC
*
59425293 CTTGGCGTTGCAGTGGAATAAATTAAAGCTGAAGGCA
66 CTTGGCGTTGCA---G--TAGATTAAAGCTGAAGGCA
* * *
59425330 GCGAATCTTGTTTCCCTGGCGTTGCAGT-----AGATTAAAGCTGAAGGCAGCAAATCTTATTTC
1 GCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTC
* *
59425390 CTTGGTGTTACAGTGGAACAGATTAAAGCTGAAGGCA
66 CTTGGCGTTGCAGT-----AGATTAAAGCTGAAGGCA
* * * * * * *
59425427 CCGAATCTTATTT-CTCTAGCGTTGCAGTGTAATAGATTAAAGCTGAAAGCAACGAATCTTTTTT
1 GCGAATCTTATTTCCT-TGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTT
**
59425491 CCCAGGCGTTGCAGT
65 CCTTGGCGTTGCAGT
59425506 GGAACATATT
Statistics
Matches: 557, Mismatches: 88, Indels: 41
0.81 0.13 0.06
Matches are distributed among these distances:
92 1 0.00
94 1 0.00
96 4 0.01
97 402 0.72
98 3 0.01
101 40 0.07
102 106 0.19
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.31
Consensus pattern (97 bp):
GCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTC
CTTGGCGTTGCAGTAGATTAAAGCTGAAGGCA
Found at i:59424965 original size:148 final size:148
Alignment explanation
Indices: 59424772--59425505 Score: 834
Period size: 148 Copynumber: 5.0 Consensus size: 148
59424762 GCAGTGGAAC
* * * * *
59424772 AGATTAAAGCTGAA-GCAACGAATTTTATTTCCTTGGCGTTGCAGTGGAACATATTAAAGTTGAA
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTACAGTGGAACAGATTAAAGCTGAA
* * * * * *
59424836 GGCAGCGAATCTTATTTCCTTAGCGTTGTAGTGGAATAGATTAAAGTTGAAGACGGTGAATCTTA
66 GGCAACGAATCTTATTTCCTTGGCGTTGCAGTGGAATAGATTAAAGCTGAAGACAGCGAATCTTA
*
59424901 TTTCCTTAGCGTTGCAGT
131 TTTCCTTGGCGTTGCAGT
* *
59424919 AGATTAAAGTTGAAGGCAGCGAATCTTTTTTCCTTGGCGTTACAGTGGAACAGATTAAAGCTGAA
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTACAGTGGAACAGATTAAAGCTGAA
* * * *
59424984 GGCAACAAATCTTATTT-CTCTGGCATTGCA---G--TAGATTAAAGATGAAGGCAGCGAATCTT
66 GGCAACGAATCTTATTTCCT-TGGCGTTGCAGTGGAATAGATTAAAGCTGAAGACAGCGAATCTT
* *
59425043 ATTTCCTTGGTGTTACAGT
130 ATTTCCTTGGCGTTGCAGT
* * * *
59425062 AGAACATATTAAAGTTGAAGGCAGAGAATCTTATTTCCCTGGCGTTGCAGT-----AGATTAAAG
1 AG-----ATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTACAGTGGAACAGATTAAAG
* * * * * *
59425122 CTGAAAGTAGCGAATCTTCTTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAA-AGCAGCAA
61 CTGAAGGCAACGAATCTTATTTCCTTGGCGTTGCAGTGGAATAGATTAAAGCTGAAGA-CAGCGA
* *
59425186 ATCTTATTT-CTCTGGCATTGCAAT
125 ATCTTATTTCCT-TGGCGTTGCAGT
*
59425210 ATATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTACAGTGGAACAGATTAAAGCTGAA
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTACAGTGGAACAGATTAAAGCTGAA
* * * * *
59425275 GGCAACGGATCTTTTTTCCTTGGCGTTGCAGTGGAATAAATTAAAGCTGAAGGCAGCGAATCTTG
66 GGCAACGAATCTTATTTCCTTGGCGTTGCAGTGGAATAGATTAAAGCTGAAGACAGCGAATCTTA
*
59425340 TTTCCCTGGCGTTGCAGT
131 TTTCCTTGGCGTTGCAGT
* *
59425358 AGATTAAAGCTGAAGGCAGCAAATCTTATTTCCTTGGTGTTACAGTGGAACAGATTAAAGCTGAA
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTACAGTGGAACAGATTAAAGCTGAA
* * * *
59425423 GGCACCGAATCTTATTT-CTCTAGCGTTGCAGTGTAATAGATTAAAGCTGAA-AGCAACGAATCT
66 GGCAACGAATCTTATTTCCT-TGGCGTTGCAGTGGAATAGATTAAAGCTGAAGA-CAGCGAATCT
* **
59425486 TTTTTCCCAGGCGTTGCAGT
129 TATTTCCTTGGCGTTGCAGT
59425506 GGAACATATT
Statistics
Matches: 495, Mismatches: 68, Indels: 47
0.81 0.11 0.08
Matches are distributed among these distances:
143 117 0.24
144 2 0.00
145 1 0.00
146 1 0.00
147 19 0.04
148 354 0.72
149 1 0.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (148 bp):
AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTACAGTGGAACAGATTAAAGCTGAA
GGCAACGAATCTTATTTCCTTGGCGTTGCAGTGGAATAGATTAAAGCTGAAGACAGCGAATCTTA
TTTCCTTGGCGTTGCAGT
Found at i:59425931 original size:142 final size:142
Alignment explanation
Indices: 59425479--59425960 Score: 617
Period size: 143 Copynumber: 3.4 Consensus size: 142
59425469 CTGAAAGCAA
* * *
59425479 CGAATCTTTTTTCCCAGGCGTTGCAGTGGAACATATTAAAGCTACAAATTATGGCGGATCTTATC
1 CGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAATTATGGC-GATCTTATC
* * * * * * *
59425544 TTCTTAAAGTTGCAGTGGAGCAGATTGAAACCACCAGCCTTATCTCTCTGAAGTTGCAGTGGAGT
65 TTCTTGAAGTTGAAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGCGGAGC
59425609 AGA-TTAAAGAAAG
130 AGACTT-AAGAAAG
* * *
59425622 CGAATCTTATTTCCTTGGCGTTGTAGTGGAACAGATTAAAGCTACAAATTATGGCGTATCCTATC
1 CGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAATTATGGCG-ATCTTATC
* * ** * *
59425687 TTCTTGAAGTTGTAGTGAAATAGATTGAAGCCACTACCCTTATCTCCCTGAAGTTGTAGCGGAGC
65 TTCTTGAAGTTGAAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGCGGAGC
* *
59425752 AGACTGAAGATAG
130 AGACTTAAGAAAG
* * * *
59425765 CGGATCCTATTTCCCTGGTGTTGCAGTGGAACAGATTAAAACTACAAATTATGGCAGATCTTATC
1 CGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAATTATGGC-GATCTTATC
* *
59425830 TTCTTGAAGTTGAAGTGGAGCAGATT-ATGCCACCAGCCTTATCTCCCTGAAGTTGTAGCAGAGC
65 TTCTTGAAGTTGAAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGCGGAGC
* *
59425894 AGACTTAGGACAG
130 AGACTTAAGAAAG
** * *
59425907 CGAATCTTATTTCCCTGGTATTGCAGTGGAACAGATTAAAGCCACAAGTTATGG
1 CGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAATTATGG
59425961 GAAGTTGTAA
Statistics
Matches: 292, Mismatches: 44, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
142 93 0.32
143 197 0.67
144 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (142 bp):
CGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTACAAATTATGGCGATCTTATCT
TCTTGAAGTTGAAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTGTAGCGGAGCA
GACTTAAGAAAG
Found at i:59427064 original size:17 final size:19
Alignment explanation
Indices: 59427031--59427069 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
59427021 AATGCTTCTC
59427031 AAAAACACTTTTAGGGA-A
1 AAAAACACTTTTAGGGACA
59427049 AAAAACACTTTT-GGGACA
1 AAAAACACTTTTAGGGACA
59427067 AAA
1 AAA
59427070 GCATTCCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.51, C:0.13, G:0.15, T:0.21
Consensus pattern (19 bp):
AAAAACACTTTTAGGGACA
Found at i:59435227 original size:4 final size:4
Alignment explanation
Indices: 59435218--59435246 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
59435208 AAACATAAAT
59435218 ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC A
59435247 CCCACACACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:59437439 original size:20 final size:20
Alignment explanation
Indices: 59437411--59437450 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
59437401 CTCACCAACC
* *
59437411 AATTTATTTTTTACTAATTA
1 AATTGATTTTGTACTAATTA
*
59437431 AATTGATTTTGTATTAATTA
1 AATTGATTTTGTACTAATTA
59437451 TTTTAAATCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (20 bp):
AATTGATTTTGTACTAATTA
Found at i:59438327 original size:32 final size:32
Alignment explanation
Indices: 59438291--59438351 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
59438281 TTGGTGGTGT
*
59438291 CATTATTGATTGTCTCCCATTAATGTTAATGC
1 CATTATTAATTGTCTCCCATTAATGTTAATGC
*
59438323 CATTATTAATTGTCTTCCATTAATGTTAA
1 CATTATTAATTGTCTCCCATTAATGTTAA
59438352 CAATCTCCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.28, C:0.16, G:0.10, T:0.46
Consensus pattern (32 bp):
CATTATTAATTGTCTCCCATTAATGTTAATGC
Found at i:59440269 original size:21 final size:21
Alignment explanation
Indices: 59440243--59440283 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
59440233 ATCTGCTCAA
* *
59440243 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
59440264 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
59440284 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:59443415 original size:17 final size:17
Alignment explanation
Indices: 59443393--59443431 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
59443383 GTCAATCCCC
*
59443393 AACAAATACAAAATATT
1 AACAAAAACAAAATATT
*
59443410 AACAAAAAGAAAATATT
1 AACAAAAACAAAATATT
*
59443427 CACAA
1 AACAA
59443432 TCTTTACGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.67, C:0.13, G:0.03, T:0.18
Consensus pattern (17 bp):
AACAAAAACAAAATATT
Found at i:59444165 original size:38 final size:38
Alignment explanation
Indices: 59444083--59444187 Score: 141
Period size: 38 Copynumber: 2.9 Consensus size: 38
59444073 ATAATAAATA
* *
59444083 TATTTATT-TTTTAAAATATTTTTAAAATGC----TTT
1 TATTTTTTATTTTAAAATATTTTTAAAATACTTTTTTT
*
59444116 T-TTTTTAATTTTAAAATATTTTTAAAATACTTTTTTT
1 TATTTTTTATTTTAAAATATTTTTAAAATACTTTTTTT
59444153 TATTTTTTATTTTAAAATATTTTTAAAATACTTTT
1 TATTTTTTATTTTAAAATATTTTTAAAATACTTTT
59444188 AAAAATTTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 7
0.85 0.05 0.10
Matches are distributed among these distances:
32 4 0.06
33 22 0.35
37 4 0.06
38 32 0.52
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (38 bp):
TATTTTTTATTTTAAAATATTTTTAAAATACTTTTTTT
Found at i:59444173 original size:10 final size:10
Alignment explanation
Indices: 59444160--59444211 Score: 54
Period size: 11 Copynumber: 5.2 Consensus size: 10
59444150 TTTTATTTTT
59444160 TATTTTAAAA
1 TATTTTAAAA
59444170 TATTTTTAAAA
1 TA-TTTTAAAA
59444181 TACTTTTAAAA
1 TA-TTTTAAAA
**
59444192 -ATTTTTTAA
1 TATTTTAAAA
59444201 T-TTTTAAAA
1 TATTTTAAAA
59444210 TA
1 TA
59444212 AATTTTTGGT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
9 13 0.38
10 3 0.09
11 18 0.53
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (10 bp):
TATTTTAAAA
Found at i:59444200 original size:11 final size:11
Alignment explanation
Indices: 59444090--59444197 Score: 63
Period size: 11 Copynumber: 10.5 Consensus size: 11
59444080 ATATATTTAT
59444090 TTTTTAAAATA
1 TTTTTAAAATA
*
59444101 TTTTTAAAATGC
1 TTTTTAAAAT-A
***
59444113 TTTTT-TTTTA
1 TTTTTAAAATA
*
59444123 ATTTTAAAATA
1 TTTTTAAAATA
59444134 TTTTTAAAATA
1 TTTTTAAAATA
**
59444145 CTTTTT--TTTA
1 -TTTTTAAAATA
59444155 TTTTT----TA
1 TTTTTAAAATA
59444162 -TTTTAAAATA
1 TTTTTAAAATA
59444172 TTTTTAAAATA
1 TTTTTAAAATA
*
59444183 CTTTTAAAA-A
1 TTTTTAAAATA
59444193 TTTTT
1 TTTTT
59444198 TAATTTTTAA
Statistics
Matches: 75, Mismatches: 14, Indels: 17
0.71 0.13 0.16
Matches are distributed among these distances:
6 4 0.05
7 2 0.03
9 5 0.07
10 13 0.17
11 41 0.55
12 10 0.13
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (11 bp):
TTTTTAAAATA
Found at i:59445374 original size:24 final size:24
Alignment explanation
Indices: 59445347--59445394 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
59445337 TGAATGGTGA
59445347 ATTTTGATATTAAAATATAATTTT
1 ATTTTGATATTAAAATATAATTTT
* **
59445371 ATTTTTATATTAATTTATAATTTT
1 ATTTTGATATTAAAATATAATTTT
59445395 TTTAAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (24 bp):
ATTTTGATATTAAAATATAATTTT
Found at i:59461574 original size:19 final size:21
Alignment explanation
Indices: 59461538--59461595 Score: 54
Period size: 19 Copynumber: 3.0 Consensus size: 21
59461528 TTTCTTATAT
* *
59461538 ATAATTTTTTA-AAATTTTTA
1 ATAAGTTTTTATAACTTTTTA
59461558 A-AA-TTTGTTAT-AC-TTTTA
1 ATAAGTTT-TTATAACTTTTTA
59461576 ATAAGTTTTTATAACTTTTT
1 ATAAGTTTTTATAACTTTTT
59461596 TTATTAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 11
0.72 0.02 0.26
Matches are distributed among these distances:
18 9 0.29
19 12 0.39
20 6 0.19
21 4 0.13
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (21 bp):
ATAAGTTTTTATAACTTTTTA
Found at i:59461644 original size:10 final size:9
Alignment explanation
Indices: 59461537--59461669 Score: 79
Period size: 10 Copynumber: 13.7 Consensus size: 9
59461527 TTTTCTTATA
59461537 TATAATTTTT
1 TATAA-TTTT
*
59461547 TAAAATTTT
1 TATAATTTT
*
59461556 TAAAATTTGT
1 TATAATTT-T
*
59461566 TATACTTTT
1 TATAATTTT
*
59461575 AATAAGTTTT
1 TATAA-TTTT
59461585 TATAACTTTTTT
1 TATAA---TTTT
59461597 TATTAATTTT
1 TA-TAATTTT
59461607 TATAGATTTT
1 TATA-ATTTT
* *
59461617 GTATCATTTA
1 -TATAATTTT
* *
59461627 AATGATTTT
1 TATAATTTT
59461636 ATATAATTTT
1 -TATAATTTT
*
59461646 CTATAATTTA
1 -TATAATTTT
59461656 TA-AATTTT
1 TATAATTTT
59461664 TATAAT
1 TATAAT
59461670 ATCTATTTAA
Statistics
Matches: 97, Mismatches: 17, Indels: 19
0.73 0.13 0.14
Matches are distributed among these distances:
8 7 0.07
9 29 0.30
10 49 0.51
11 3 0.03
12 6 0.06
13 3 0.03
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.59
Consensus pattern (9 bp):
TATAATTTT
Found at i:59461667 original size:17 final size:19
Alignment explanation
Indices: 59461633--59461669 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
59461623 TTTAAATGAT
59461633 TTTATATAATTTTCTATAA
1 TTTATATAATTTTCTATAA
59461652 TTTATA-AATTTT-TATAA
1 TTTATATAATTTTCTATAA
59461669 T
1 T
59461670 ATCTATTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 6 0.33
19 6 0.33
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTATATAATTTTCTATAA
Found at i:59461775 original size:19 final size:19
Alignment explanation
Indices: 59461691--59461776 Score: 50
Period size: 19 Copynumber: 4.4 Consensus size: 19
59461681 ATTTTCTTAT
* *
59461691 TTTTTCATGACATGTTAATAA
1 TTTTT-ATGATAT-TTAATAC
* * *
59461712 TTTTTATAATATTTGATAG
1 TTTTTATGATATTTAATAC
* *
59461731 TTTTTAAATATATATTTAAAAC
1 TTTTT--AT-GATATTTAATAC
59461753 --TTTATGATATTTAATAC
1 TTTTTATGATATTTAATAC
59461770 TTTTTAT
1 TTTTTAT
59461777 AGATTTTCTA
Statistics
Matches: 50, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
17 10 0.20
18 2 0.04
19 15 0.30
20 8 0.16
21 7 0.14
22 8 0.16
ACGTcount: A:0.35, C:0.05, G:0.06, T:0.55
Consensus pattern (19 bp):
TTTTTATGATATTTAATAC
Found at i:59462604 original size:16 final size:18
Alignment explanation
Indices: 59462575--59462607 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
59462565 ATCAACAGAA
59462575 AAAAAAATACATTAAAAT
1 AAAAAAATACATTAAAAT
59462593 AAAAAAA-A-ATTAAAA
1 AAAAAAATACATTAAAA
59462608 ATCTGAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (18 bp):
AAAAAAATACATTAAAAT
Found at i:59462849 original size:17 final size:18
Alignment explanation
Indices: 59462824--59462864 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
59462814 CATGAATATT
*
59462824 ATATATATTA-TATTAAA
1 ATATCTATTATTATTAAA
59462841 ATATCTATTATTATTAAA
1 ATATCTATTATTATTAAA
59462859 A-ATCTA
1 ATATCTA
59462865 CACGCTATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATCTATTATTATTAAA
Found at i:59463495 original size:50 final size:50
Alignment explanation
Indices: 59463420--59463515 Score: 129
Period size: 50 Copynumber: 1.9 Consensus size: 50
59463410 AGGGCCATAG
* * * * * *
59463420 AAGTAGAATTCGTATAGAATTACTCTTCTTCTATTTGGCATTGATTGTAC
1 AAGTAGAATCCATATAGAACTACTCTCCTTATATTTGACATTGATTGTAC
*
59463470 AAGTAGAATCCATATAGAACTACTCTCCTTATATTTTACATTGATT
1 AAGTAGAATCCATATAGAACTACTCTCCTTATATTTGACATTGATT
59463516 AGAATAATAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (50 bp):
AAGTAGAATCCATATAGAACTACTCTCCTTATATTTGACATTGATTGTAC
Found at i:59463853 original size:29 final size:28
Alignment explanation
Indices: 59463801--59463855 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 28
59463791 ACTTTAAAAA
*
59463801 TTTTAAAATTTAGTCTTTATACTTTTAT
1 TTTTAAAATTTAGTCTTCATACTTTTAT
59463829 TTTTAGAAATTTAGTCTCTCA-ACTTTT
1 TTTTA-AAATTTAGTCT-TCATACTTTT
59463856 TAGATTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 5 0.21
29 17 0.71
30 2 0.08
ACGTcount: A:0.27, C:0.11, G:0.05, T:0.56
Consensus pattern (28 bp):
TTTTAAAATTTAGTCTTCATACTTTTAT
Found at i:59463869 original size:30 final size:29
Alignment explanation
Indices: 59463800--59463869 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
59463790 CACTTTAAAA
* * *
59463800 ATTTTAAAATTTAGTCTTTATACTTTTAT
1 ATTTAAAAATTTAGTCTTCATACTTTTAG
* *
59463829 TTTTAGAAATTTAGTCTCTCA-ACTTTTTAG
1 ATTTAAAAATTTAGTCT-TCATAC-TTTTAG
59463859 ATTTAAAAATT
1 ATTTAAAAATT
59463870 CAAATTTAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
29 16 0.50
30 16 0.50
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.53
Consensus pattern (29 bp):
ATTTAAAAATTTAGTCTTCATACTTTTAG
Found at i:59464185 original size:28 final size:29
Alignment explanation
Indices: 59464136--59464196 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 29
59464126 AACAAACTTC
*
59464136 AAACTTTTAAAATCAATATTATTAAAATT
1 AAACTTTTAAAAACAATATTATTAAAATT
* * *
59464165 AAAC-TTTAAAAACATTGTTATTAAGATT
1 AAACTTTTAAAAACAATATTATTAAAATT
59464193 AAAC
1 AAAC
59464197 CAATTGGATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 24 0.86
29 4 0.14
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (29 bp):
AAACTTTTAAAAACAATATTATTAAAATT
Found at i:59464356 original size:20 final size:19
Alignment explanation
Indices: 59464314--59464353 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
59464304 AGCTGGTTTC
59464314 TAATTTTTAAATAATTTAT
1 TAATTTTTAAATAATTTAT
59464333 TAATTTTT--ATAATTT-T
1 TAATTTTTAAATAATTTAT
59464349 TAATT
1 TAATT
59464354 AATCAACTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.29
17 7 0.33
19 8 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TAATTTTTAAATAATTTAT
Found at i:59472502 original size:24 final size:24
Alignment explanation
Indices: 59472474--59472520 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
59472464 TATATATACC
59472474 AATTCAATCA-ATA-TAAATTCAATA
1 AATTC-ATCACATACTAAA-TCAATA
59472498 AATTCATCACATACTAAATCAAT
1 AATTCATCACATACTAAATCAAT
59472521 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCATCACATACTAAATCAATA
Found at i:59473076 original size:4 final size:4
Alignment explanation
Indices: 59473067--59473133 Score: 55
Period size: 4 Copynumber: 16.5 Consensus size: 4
59473057 ACTTTTGTCC
* * * *
59473067 TTCT TTCT TTCT TT-T TTTT TTCTT TTCT TTCT TTCC TTCT CTGT TTCGT
1 TTCT TTCT TTCT TTCT TTCT TTC-T TTCT TTCT TTCT TTCT TTCT TTC-T
* *
59473116 TTCT TTCT CTCA TTCT TT
1 TTCT TTCT TTCT TTCT TT
59473134 TTCCTTTTCT
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
3 3 0.06
4 38 0.78
5 8 0.16
ACGTcount: A:0.01, C:0.24, G:0.03, T:0.72
Consensus pattern (4 bp):
TTCT
Found at i:59473699 original size:18 final size:19
Alignment explanation
Indices: 59473663--59473699 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
59473653 AAAAATATAA
*
59473663 ATTTTAAATTTTTATAAAT
1 ATTTTAAATTTTTAAAAAT
59473682 ATTTTAAA-TTTTAAAAAT
1 ATTTTAAATTTTTAAAAAT
59473700 TAATTTAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTAAATTTTTAAAAAT
Found at i:59473706 original size:19 final size:20
Alignment explanation
Indices: 59473650--59473707 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 20
59473640 ATAAAATTAC
59473650 TTTAAAAATATAAATTTTAAATT
1 TTTAAAAAT-T-AA-TTTAAATT
* *
59473673 TTTATAAA-TATTTTAAA-T
1 TTTAAAAATTAATTTAAATT
59473691 TTTAAAAATTAATTTAA
1 TTTAAAAATTAATTTAA
59473708 CCTTTTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
18 8 0.27
19 13 0.43
20 1 0.03
21 1 0.03
23 7 0.23
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTTAAAAATTAATTTAAATT
Found at i:59477964 original size:15 final size:15
Alignment explanation
Indices: 59477926--59477965 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
59477916 AATAATTTAA
59477926 AAATTATAAAAAATC
1 AAATTATAAAAAATC
59477941 AAATT-TAAAAAAT-
1 AAATTATAAAAAATC
59477954 AAATTCATAAAA
1 AAATT-ATAAAA
59477966 TTTTTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 5 0.22
14 8 0.35
15 10 0.43
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (15 bp):
AAATTATAAAAAATC
Found at i:59480581 original size:28 final size:28
Alignment explanation
Indices: 59480541--59480597 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
59480531 GTCAATTCAT
59480541 ATACATGAATGCTCATGCAAACATGTAA
1 ATACATGAATGCTCATGCAAACATGTAA
59480569 ATACATGAATGCTCATGCAAACATGTAA
1 ATACATGAATGCTCATGCAAACATGTAA
59480597 A
1 A
59480598 CGAGAAGCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.18, G:0.14, T:0.25
Consensus pattern (28 bp):
ATACATGAATGCTCATGCAAACATGTAA
Found at i:59480651 original size:24 final size:24
Alignment explanation
Indices: 59480624--59480681 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
59480614 GTTATATAAC
59480624 GGAAGCTCATCCGAGCC-ATAATCG
1 GGAAGCTCATCCGAGCCAAT-ATCG
**
59480648 GGAAGCTCAAGCGAGCCAATATCG
1 GGAAGCTCATCCGAGCCAATATCG
*
59480672 TGAAGCTCAT
1 GGAAGCTCAT
59480682 AAAAGAGCCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 27 0.93
25 2 0.07
ACGTcount: A:0.31, C:0.26, G:0.26, T:0.17
Consensus pattern (24 bp):
GGAAGCTCATCCGAGCCAATATCG
Found at i:59480704 original size:28 final size:28
Alignment explanation
Indices: 59480668--59480735 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
59480658 GCGAGCCAAT
* * *
59480668 ATCGTGAAGCTCATAAAAGAGCCTTTAA
1 ATCGAGAAGCTCATAAAAAAACCTTTAA
*
59480696 ATCGAGAAGCTCATAAAAAAACTTTTAA
1 ATCGAGAAGCTCATAAAAAAACCTTTAA
*
59480724 ATCGGGAAGCTC
1 ATCGAGAAGCTC
59480736 CGAAGAGCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (28 bp):
ATCGAGAAGCTCATAAAAAAACCTTTAA
Found at i:59484994 original size:24 final size:24
Alignment explanation
Indices: 59484967--59485022 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
59484957 GTAGTACGTA
*
59484967 TATATTTTAT-TATCATGTTATTTT
1 TATATTTTATATAT-ATGTTATGTT
* * *
59484991 TATAGTTTATATATTTTTTATGTT
1 TATATTTTATATATATGTTATGTT
59485015 TATATTTT
1 TATATTTT
59485023 CATGTTTTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (24 bp):
TATATTTTATATATATGTTATGTT
Found at i:59485031 original size:15 final size:15
Alignment explanation
Indices: 59484985--59485033 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
59484975 ATTATCATGT
59484985 TATTTTTATAGTTTATA
1 TATTTTTAT-GTTT-TA
59485002 TATTTTTTATG-TTTA
1 TA-TTTTTATGTTTTA
*
59485017 TATTTTCATGTTTTA
1 TATTTTTATGTTTTA
59485032 TA
1 TA
59485034 ATTCATATGT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 7 0.24
15 10 0.34
16 2 0.07
17 3 0.10
18 7 0.24
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.67
Consensus pattern (15 bp):
TATTTTTATGTTTTA
Found at i:59491116 original size:22 final size:23
Alignment explanation
Indices: 59491090--59491136 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
59491080 AGTTAGACTT
* *
59491090 AAATTTTAATTTGA-AAAATAAA
1 AAATTTAAATTTCACAAAATAAA
59491112 AAATTTAAATTTCACAAAATAAA
1 AAATTTAAATTTCACAAAATAAA
59491135 AA
1 AA
59491137 TATAGGGGCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (23 bp):
AAATTTAAATTTCACAAAATAAA
Found at i:59493858 original size:84 final size:83
Alignment explanation
Indices: 59493642--59493871 Score: 325
Period size: 84 Copynumber: 2.7 Consensus size: 83
59493632 GACGAAACAA
* * * *
59493642 TCACTAATGAAAGTAGCAATCAACATAATATAGTTGTTGCGGAAAAGGGCATCGAAACGCCTATC
1 TCACTAATGAAAGAAGCAATCAACATAATATAGTTGTTG-TGAAGAGGGCATCGAAATGCCTATC
59493707 ATTAGCTATGATGAAACCG
65 ATTAGCTATGATGAAACCG
* * * *
59493726 TTACTAATGAAAGAAGCAATCAACATAATATAGTTGTTGTAGAAGAGGGCATCGAAATGTCTGTT
1 TCACTAATGAAAGAAGCAATCAACATAATATAGTTGTTGT-GAAGAGGGCATCGAAATGCCTATC
59493791 ATTAGCTATGATGAAACCG
65 ATTAGCTATGATGAAACCG
* * * *
59493810 TCGCTAATGAAAGAAGCAATCAACATAATATAGTTGATGTGCATGAGGGCTTCGAAATGCCT
1 TCACTAATGAAAGAAGCAATCAACATAATATAGTTGTTGTG-AAGAGGGCATCGAAATGCCT
59493872 TCTAACCTAA
Statistics
Matches: 130, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
83 1 0.01
84 129 0.99
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.26
Consensus pattern (83 bp):
TCACTAATGAAAGAAGCAATCAACATAATATAGTTGTTGTGAAGAGGGCATCGAAATGCCTATCA
TTAGCTATGATGAAACCG
Found at i:59499356 original size:39 final size:39
Alignment explanation
Indices: 59499313--59499390 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
59499303 TGTCGTTAAT
*
59499313 TATGTTTTGTTTTAATTCTGTTCTTTAAGTGCAATTAGC
1 TATGTTTTGTTTTAATTCTGTTCTTTAAGTGCAACTAGC
59499352 TATGTTTTGTTTTAATTCTGTTCTTTAAGTGCAACTAGC
1 TATGTTTTGTTTTAATTCTGTTCTTTAAGTGCAACTAGC
59499391 CAAAACGTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.21, C:0.12, G:0.15, T:0.53
Consensus pattern (39 bp):
TATGTTTTGTTTTAATTCTGTTCTTTAAGTGCAACTAGC
Found at i:59505214 original size:48 final size:48
Alignment explanation
Indices: 59505143--59505334 Score: 341
Period size: 48 Copynumber: 4.0 Consensus size: 48
59505133 TCAAAATTTT
*
59505143 TTGGACCTGGTCAAAATGCAAAAGACTTTGGTCAAAATTGGTGTGCTG
1 TTGGACCTGGTCAAAATGCAAAAGAATTTGGTCAAAATTGGTGTGCTG
*
59505191 TTGGACCTGGTCAAAATGCAAAAGAATTTGGTCAAAATTGGGGTGCTG
1 TTGGACCTGGTCAAAATGCAAAAGAATTTGGTCAAAATTGGTGTGCTG
*
59505239 TTGGACCTGGTCAAAATGCAAAAGAAGTTGGTCAAAATTGGTGTGCTG
1 TTGGACCTGGTCAAAATGCAAAAGAATTTGGTCAAAATTGGTGTGCTG
59505287 TTGGACCTGGTCAAAATGCAAAAGAATTTGGTCAAAATTAGG-GTGCTG
1 TTGGACCTGGTCAAAATGCAAAAGAATTTGGTCAAAATT-GGTGTGCTG
59505335 AAGCAGGCTA
Statistics
Matches: 138, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
48 136 0.99
49 2 0.01
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (48 bp):
TTGGACCTGGTCAAAATGCAAAAGAATTTGGTCAAAATTGGTGTGCTG
Found at i:59512900 original size:116 final size:115
Alignment explanation
Indices: 59512745--59513355 Score: 693
Period size: 116 Copynumber: 5.4 Consensus size: 115
59512735 ACGAAAGAAA
* * *
59512745 AAAAAACAAAAAAATTTTTTTTTTGGGTGTTGGCCTGTCAATGGCCGGCAACAAGTGTACAGTAC
1 AAAAAA-AATAAAA-TTTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCAAGTGTACAGTAC
*** * * *
59512810 CAAAAAAAATTTTATTATTTTTTTT-GTGTTAGAATCAGAT-AAAAAATACG
64 CAAAAATTTTTTTTTTTTTTTTTTTCGTGTCAGAATCAGATAAAAAAATACG
* * *
59512860 AAAAAAAATTTTAAAAATTTTTTTTGGATGCTGGCCTGTCAATGGCCGGCACCCAGTGTACAGTA
1 AAAAAAAA---TAAAATTTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCAAGTGTACAGTA
*
59512925 CC--AAATTTTTTTTTGTTTTTTTTTCCGTGTCAGAATCAGA-AAAAAAATACG
63 CCAAAAATTTTTTTTT-TTTTTTTTTTCGTGTCAGAATCAGATAAAAAAATACG
* *
59512976 AAAAAAAAATAAATTTTTTTTTTGGGTGCTGGCCTGTCAATGGCGGGCACCCAA-TGTACAGTAC
1 -AAAAAAAATAAAATTTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCA-CCAAGTGTACAGTAC
59513040 CAAAAATTTTTTTTTTTGTTTTTTTTTCGTGTCAGAATCAGATAAAAAAATACG
64 CAAAAA-TTTTTTTTTT-TTTTTTTTTCGTGTCAGAATCAGATAAAAAAATACG
* ** *
59513094 AAAAAAAATAAAATTTTTTTTTGGCTGCTGGCCTGTCAATGGCCGGCACCCGGTCTACAGTACCA
1 AAAAAAAATAAAATTTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCAAGTGTACAGTACCA
59513159 AAAATTTTTTTTTGTTTTTTTTTTCGTGTCAGAATCAGATAAAAAAATACG
66 AAAATTTTTTTTT-TTTTTTTTTTCGTGTCAGAATCAGATAAAAAAATACG
* * * ** *
59513210 -AAAAAAA-AAAA------TTT-AGTGTTGGCCTGTCAATGGCCGGCACCCAGTACACAGTA-CG
1 AAAAAAAATAAAATTTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCAAGTGTACAGTACCA
* *
59513265 GAAA-TTTTTTTTATTTTTTTTTCGTGTCAGAATCAGAT-AAAAAATACG
66 AAAATTTTTTTTTTTTTTTTTTTCGTGTCAGAATCAGATAAAAAAATACG
**** *
59513313 AAAAAAAATAATAA-AAAATTTTGGGTGCTGGCCTGTCGATGGC
1 AAAAAAAATAA-AATTTTTTTTTGGGTGCTGGCCTGTCAATGGC
59513356 AACCAAGGAA
Statistics
Matches: 435, Mismatches: 37, Indels: 51
0.83 0.07 0.10
Matches are distributed among these distances:
103 10 0.02
104 32 0.07
105 10 0.02
106 6 0.01
107 33 0.08
108 3 0.01
111 3 0.01
112 17 0.04
114 61 0.14
115 24 0.06
116 120 0.28
117 105 0.24
118 11 0.03
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (115 bp):
AAAAAAAATAAAATTTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCAAGTGTACAGTACCA
AAAATTTTTTTTTTTTTTTTTTTCGTGTCAGAATCAGATAAAAAAATACG
Found at i:59514490 original size:111 final size:111
Alignment explanation
Indices: 59514297--59515185 Score: 883
Period size: 111 Copynumber: 8.0 Consensus size: 111
59514287 ATAGCGCATA
* * * * ** * *
59514297 TTTTTCGTAAATTTATATCTGACTCTGACACG-AAAAAAATAAATTTTTTTAATAAT-TTGT--T
1 TTTTTCGT-ATTTTTTATCTGATTCTGACACGAAAAAAAATAAATTTTTTT-TTGGTACTGTACA
*
59514358 CTGGGTGCCGACCATTGACAGGCCAGCACCCAAAATTTTTTTTTATTT
64 CTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTATTT
* * **
59514406 TTTTTCGTATTTTTTATCTGATTCTGACATGAAAAAAAATAAATTTTTTTTTCGTACTGTGTACT
1 TTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAATAAATTTTTTTTTGGTACTGTACACT
* * *
59514471 GGGTGCCGGCCATTGACAGGCCAGCACACAAATTTTTTTTTTTTATT
66 GGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTAT-TT
*
59514518 TTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAATAAATTTTTTTTTGGTACTGTAGAC
1 TTTTTCGTA-TTTTTTATCTGATTCTGACACGAAAAAAAATAAATTTTTTTTTGGTACTGTACAC
*
59514583 TGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAAATTATTTATTTATTT
65 TGGGTGCCGGCCATTGACAGGCCAGCACCC--AAAATT-TTTTTTTATTT
*
59514633 ATTTTCGTA-TTTTTATCTGATTCTGACACG-AAAAAAA-AAA----TTTTT-GTACTGTACACT
1 TTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAATAAATTTTTTTTTGGTACTGTACACT
59514690 GGGTGCCGGCCATTGACAGGCCAGCACCC-AAA-----TTTT-TTT
66 GGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTATTT
* * * * *
59514729 TTTTTAGTATTTTTTTCTCTGATTCTGACACGAAAAAAAAAACAAAAAAACTTTTTATTGGTACT
1 TTTTTCGTA-TTTTTTATCTGATTCTGACACG-----AAAAA-AAATAAATTTTTTTTTGGTACT
59514794 GTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA--TTTTTTTATTT
59 GTACACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTATTT
** * *
59514845 TTTTTAATA-TTTTTATCTGATTTTGATACGAAAAAAAAAATAAAAATTTTTTTTTGGTACTGTA
1 TTTTTCGTATTTTTTATCTGATTCTGACACG--AAAAAAAAT--AAATTTTTTTTTGGTACTGTA
* *
59514909 AACTGGGTGCCGACCATTGACAGGCCAGCA-CCAAAA-------TT-TTT
62 CACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTATTT
* * * * **
59514950 TTTTTCATATTTTTTTATTTGATTCTGACACGAAAAAAAATAATTTTTTTTTCTTCGTACTGTGT
1 TTTTTCGTA-TTTTTTATCTGATTCTGACACGAAAAAAAATAA-ATTTTTTT-TTGGTACTGTAC
* *
59515015 ACTGGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAAAAATTTTTATTTTATTC
63 ACTGGGTGCCGGCCATTGACAGGCCAGCACC-----CAAAATTTTT-TTTTATTT
* * *
59515070 TTTTTCGTATTTTTAAATCTGACTGTGACAC--AAAAAAAT-AATTTTTTTTTGGTACTGTACAC
1 TTTTTCGTATTTTT-TATCTGATTCTGACACGAAAAAAAATAAATTTTTTTTTGGTACTGTACAC
* *
59515132 TGGGTGCCGGCTATTGACAGGCCAGCACCCAAAAAATTTTTTTTTGTTT
65 TGGGTGCCGGCCATTGACAGGCCAGCACCC--AAAATTTTTTTTTATTT
59515181 TTTTT
1 TTTTT
59515186 TTCTTTCGTA
Statistics
Matches: 666, Mismatches: 61, Indels: 104
0.80 0.07 0.13
Matches are distributed among these distances:
96 10 0.02
97 3 0.00
98 20 0.03
103 5 0.01
104 11 0.02
105 60 0.09
106 46 0.07
107 23 0.03
108 21 0.03
109 29 0.04
110 7 0.01
111 114 0.17
112 77 0.12
113 101 0.15
114 18 0.03
115 58 0.09
116 25 0.04
117 1 0.00
118 8 0.01
119 7 0.01
120 22 0.03
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (111 bp):
TTTTTCGTATTTTTTATCTGATTCTGACACGAAAAAAAATAAATTTTTTTTTGGTACTGTACACT
GGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTATTT
Found at i:59515020 original size:105 final size:104
Alignment explanation
Indices: 59514312--59515186 Score: 736
Period size: 113 Copynumber: 8.0 Consensus size: 104
59514302 CGTAAATTTA
* * ** * * *
59514312 TATCTGACTCTGACACG-AAAAAAATAAATTTTTTTAATAAT-TTGT--TCTGGGTGCCGACCAT
1 TATCTGATTCTGACACGAAAAAAAATAAATTTTTTT-TTGGTACTGTACACTGGGTGCCGGCCAT
* *
59514373 TGACAGGCCAGCACCCAAAATTTTTTTTTATTTTTTTTCGTATTTTT
65 TGACAGGCCAGCACCCAAAA----TTTTT-TTTTTTAT-AT-TTTTT
* * **
59514420 TATCTGATTCTGACATGAAAAAAAATAAATTTTTTTTTCGTACTGTGTACTGGGTGCCGGCCATT
1 TATCTGATTCTGACACGAAAAAAAATAAATTTTTTTTTGGTACTGTACACTGGGTGCCGGCCATT
* *
59514485 GACAGGCCAGCACACAAATTTTTTTTTTTTATTTTTTTCGTATTTTTT
66 GACAGGCCAGCACCCAAAATTTTTTTTTTTA---------TATTTTTT
*
59514533 TATCTGATTCTGACACGAAAAAAAATAAATTTTTTTTTGGTACTGTAGACTGGGTGCCGGCCATT
1 TATCTGATTCTGACACGAAAAAAAATAAATTTTTTTTTGGTACTGTACACTGGGTGCCGGCCATT
*
59514598 GACAGGCCAGCACCCAAAAAATTATTTATTTATTTATTTTCGTATTTT
66 GACAGGCCAGCACCC--AAAATT-TTT-TTT-TTTA-TAT--T-TTTT
59514646 TATCTGATTCTGACACG-AAAAAAA-AAA----TTTTT-GTACTGTACACTGGGTGCCGGCCATT
1 TATCTGATTCTGACACGAAAAAAAATAAATTTTTTTTTGGTACTGTACACTGGGTGCCGGCCATT
*
59514704 GACAGGCCAGCACCCAAATTTTTTTTTTTTAGTATTTTTT
66 GACAGGCCAGCACCCAAAATTTTTTTTTTTA-TATTTTTT
* * * *
59514744 TCTCTGATTCTGACACGAAAAAAAAAACAAAAAAACTTTTTATTGGTACTGTACACTGGGTGCCG
1 TATCTGATTCTGACACG-----AAAAA-AAATAAATTTTTTTTTGGTACTGTACACTGGGTGCCG
* *
59514809 GCCATTGACAGGCCAGCACCCAAAATTTTTTTATTTTTTTTAATATTTT
60 GCCATTGACAGGCCAGCACCCAAAA--TTTTT-TTTTTTAT-ATTTTTT
* * * *
59514858 TATCTGATTTTGATACGAAAAAAAAAATAAAAATTTTTTTTTGGTACTGTAAACTGGGTGCCGAC
1 TATCTGATTCTGACACG--AAAAAAAAT--AAATTTTTTTTTGGTACTGTACACTGGGTGCCGGC
*
59514923 CATTGACAGGCCAGCA-CCAAAATTTTTTTTTTCATATTTTTT
62 CATTGACAGGCCAGCACCCAAAATTTTTTTTTTTATATTTTTT
* * * **
59514965 TATTTGATTCTGACACGAAAAAAAATAATTTTTTTTTCTTCGTACTGTGTACTGGGTGCCGGCCA
1 TATCTGATTCTGACACGAAAAAAAATAA-ATTTTTTT-TTGGTACTGTACACTGGGTGCCGGCCA
* * *
59515030 TTGACAGGCCAGCACCAAAAAAAAAATTTTTATTTTATTCTTTTTCGTATTTT
64 TTGACAGGCCAGCACC-----CAAAA-TTTT-TTTT-TT-TATAT--T-TTTT
* * *
59515083 TAAATCTGACTGTGACAC--AAAAAAAT-AATTTTTTTTTGGTACTGTACACTGGGTGCCGGCTA
1 T--ATCTGATTCTGACACGAAAAAAAATAAATTTTTTTTTGGTACTGTACACTGGGTGCCGGCCA
** * *
59515145 TTGACAGGCCAGCACCCAAAAAATTTTTTTTTGTTTTTTTT
64 TTGACAGGCCAGCACCCAAAATTTTTTTTTTTATATTTTTT
59515186 T
1 T
59515187 TCTTTCGTAT
Statistics
Matches: 646, Mismatches: 64, Indels: 119
0.78 0.08 0.14
Matches are distributed among these distances:
98 20 0.03
99 1 0.00
101 6 0.01
102 3 0.00
103 10 0.02
104 17 0.03
105 49 0.08
106 54 0.08
107 32 0.05
108 27 0.04
109 28 0.04
110 13 0.02
111 96 0.15
112 59 0.09
113 111 0.17
114 29 0.04
115 47 0.07
116 10 0.02
117 5 0.01
118 17 0.03
120 12 0.02
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (104 bp):
TATCTGATTCTGACACGAAAAAAAATAAATTTTTTTTTGGTACTGTACACTGGGTGCCGGCCATT
GACAGGCCAGCACCCAAAATTTTTTTTTTTATATTTTTT
Found at i:59525558 original size:16 final size:16
Alignment explanation
Indices: 59525520--59525558 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
59525510 GTTTGGTTCA
59525520 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
* *
59525536 GTATAATGGAATAGAG
1 CTGTAATGGAATAGAG
59525552 CTGTAAT
1 CTGTAAT
59525559 AGTAATTCAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.28, T:0.28
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:59525584 original size:40 final size:38
Alignment explanation
Indices: 59525540--59525638 Score: 128
Period size: 39 Copynumber: 2.5 Consensus size: 38
59525530 ATAGAGGTAT
59525540 AATGGAATAGAGCTGTAATAGTAATTCAAT-TGTTTGGTTG
1 AATGGAAT-GAGCTGTAATAGT-ATTC-ATGTGTTTGGTTG
* *
59525580 AATGGAATGGAACTGTAATAGTATTCTTGTGTTTGGTTG
1 AATGGAAT-GAGCTGTAATAGTATTCATGTGTTTGGTTG
*
59525619 AATGGAATGAGTTGTAATAG
1 AATGGAATGAGCTGTAATAG
59525639 CATAAGGAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
38 11 0.21
39 22 0.42
40 20 0.38
ACGTcount: A:0.31, C:0.04, G:0.27, T:0.37
Consensus pattern (38 bp):
AATGGAATGAGCTGTAATAGTATTCATGTGTTTGGTTG
Found at i:59529533 original size:107 final size:105
Alignment explanation
Indices: 59529284--59529580 Score: 425
Period size: 107 Copynumber: 2.8 Consensus size: 105
59529274 TTTAAGAGGG
* * *
59529284 TGGCTATTTAGTCGAACGATAAATCGAAACCCAACACGTTA-GGCACGTTTTCTCGAATTTCCAA
1 TGGCTATTTGGTCGAACGAGAAATCGAAACCCAACACGTTAGGGCACGTTTTCTCGATTTTCCAA
* * * *
59529348 ACGCAAAATATTGCTTCACTTTGAAATTTTAAAAGGATATT
66 ACGCAAAATATTCCTT-ATTTTAAAATTTAAAAAGGATATT
* * * *
59529389 TGGCTATTTGGTCAAACAAGAAGTCGAAACCCAACACGTTAGGGCACGTTTCCTCGATTTTCCAA
1 TGGCTATTTGGTCGAACGAGAAATCGAAACCCAACACGTTAGGGCACGTTTTCTCGATTTTCCAA
*
59529454 ACGCGAAATATTACCTTATTTTAAAAGTTTAAAAAGGATATT
66 ACGCAAAATATT-CCTTATTTTAAAA-TTTAAAAAGGATATT
*
59529496 TGGCTATTTGGTCGAACGAGAAATCGAAACCCAACACGTTAGGGCACGTTTTCTCAATTTTCCAA
1 TGGCTATTTGGTCGAACGAGAAATCGAAACCCAACACGTTAGGGCACGTTTTCTCGATTTTCCAA
*
59529561 ACGCAAAACATTGCCTTATT
66 ACGCAAAATATT-CCTTATT
59529581 AGAAAAAATT
Statistics
Matches: 169, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
105 36 0.21
106 39 0.23
107 94 0.56
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.30
Consensus pattern (105 bp):
TGGCTATTTGGTCGAACGAGAAATCGAAACCCAACACGTTAGGGCACGTTTTCTCGATTTTCCAA
ACGCAAAATATTCCTTATTTTAAAATTTAAAAAGGATATT
Found at i:59530258 original size:26 final size:26
Alignment explanation
Indices: 59530223--59530276 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
59530213 ATTTAAAAAT
* * **
59530223 ATGTACGTATGTATATATATGACAAA
1 ATGTAAGTATGTACATATACAACAAA
59530249 ATGTAAGTATGTACATATACAACAAA
1 ATGTAAGTATGTACATATACAACAAA
59530275 AT
1 AT
59530277 TTGAAACTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.31
Consensus pattern (26 bp):
ATGTAAGTATGTACATATACAACAAA
Found at i:59531905 original size:40 final size:40
Alignment explanation
Indices: 59531861--59532104 Score: 177
Period size: 40 Copynumber: 5.8 Consensus size: 40
59531851 GTTTCTTTTG
*
59531861 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATTCGA
* * * **
59531901 TCTGCTCTAATACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-C--TGGATTCGA
** * ** * * *
59531944 TCCACTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTTG-
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTGGATTC----GA
* *
59531988 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATTCGA
* * *
59532028 TCTGCTCCACTACTGCTTTGGGAGATAAGATCTAGTTTATTTTG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-G--GA-TTCGA
*
59532072 TCTGCTCCACTACTGCTTAGAGAGATAAGACTG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTG
59532105 CTGGCTTCAA
Statistics
Matches: 156, Mismatches: 34, Indels: 26
0.72 0.16 0.12
Matches are distributed among these distances:
39 1 0.01
40 57 0.37
41 9 0.06
42 1 0.01
43 33 0.21
44 53 0.34
45 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (40 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATTCGA
Found at i:59531991 original size:127 final size:127
Alignment explanation
Indices: 59531830--59532060 Score: 394
Period size: 127 Copynumber: 1.8 Consensus size: 127
59531820 ACTCTGGTGT
59531830 AACTTCATGGGGATGAGATTGGTTTCTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTGG
1 AACTTCATGGGGATGAGATTGGTTTCTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTGG
*
59531895 ATGCGATCTGCTCTAATACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCACTCCACTGC
66 ATGCGATCTGCTCCAATACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCACTCCACTGC
59531957 AACTTCA-GGGAGAT-AGGATTGGTTTCTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACT
1 AACTTCATGGG-GATGA-GATTGGTTTCTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACT
* * *
59532020 TGATGCGATCTGCTCCACTACTGCTTTGGGAGATAAGATCT
64 GGATGCGATCTGCTCCAATACTGCTTAGGGAGATAAGATCT
59532061 AGTTTATTTT
Statistics
Matches: 98, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
126 4 0.04
127 94 0.96
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (127 bp):
AACTTCATGGGGATGAGATTGGTTTCTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTGG
ATGCGATCTGCTCCAATACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCCACTCCACTGC
Found at i:59532123 original size:127 final size:127
Alignment explanation
Indices: 59531865--59532123 Score: 279
Period size: 127 Copynumber: 2.0 Consensus size: 127
59531855 CTTTTGTCTG
*
59531865 CTCCACTACTGCTTAGGGAGATAAGACTGGATGCGATCTGCTCTAATACTGCTTAGGGAGATAAG
1 CTCCACTACTGCTTAGGGAGATAAGACTGGATGCGATCTGCTCCAATACTGCTTAGGGAGATAAG
* * * * * ** *** *
59531930 ATCTGTGGTTTTAATCCACTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTTGTCTG
66 ATCTGTGGTTTTAATCCACTCCACTACAACTTCAGAGAGATAAGACTGCTGGCTTCAATCTA
* * *
59531992 CTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTTGGGAGATAAG
1 CTCCACTACTGCTTAGGGAGATAAGACTGGATGCGATCTGCTCCAATACTGCTTAGGGAGATAAG
* ** ** ** *
59532057 ATCTAGT-TTATTTTGTCTGCTCCACTACTGCTT-AGAGAGATAAGACTGCTGGCTTCAATGTA
66 ATCT-GTGGT-TTTAATCCACTCCACTACAACTTCAGAGAGATAAGACTGCTGGCTTCAATCTA
59532119 CTCCA
1 CTCCA
59532124 TTGTAATCTC
Statistics
Matches: 107, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
127 89 0.83
128 18 0.17
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (127 bp):
CTCCACTACTGCTTAGGGAGATAAGACTGGATGCGATCTGCTCCAATACTGCTTAGGGAGATAAG
ATCTGTGGTTTTAATCCACTCCACTACAACTTCAGAGAGATAAGACTGCTGGCTTCAATCTA
Found at i:59532331 original size:43 final size:43
Alignment explanation
Indices: 59532152--59532457 Score: 167
Period size: 44 Copynumber: 7.0 Consensus size: 43
59532142 AAAATCCACC
* *
59532152 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAA-ATCTGTA
* * * ** * * *
59532196 ATCTTTAATCTATTCCACTGCTGCCCAAGGAGATAGAGC--TA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAATCTGTA
* * * * * **
59532237 ATGGCTTCAATGTACTCCACTA-TAATCTCAGGGAGGTAAAATCCGCC
1 AT--CTTCAATCTACTCCACTACT--GCTTAGGGAGAT-AAATCTGTA
* * *
59532284 ATCTTCGATTTGCTCCACTACTGCTTAGGGAGATAAATCTGTA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAATCTGTA
* *
59532327 ATCTTCAATCTATTCCACTGCTGCTTAGGGAGATAGAA-C--TA
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATA-AATCTGTA
* * * * **
59532368 ACGGCTTCAATGTACTCCACTGTAAT-CTTAGGGAGGTAAAATCTGCC
1 A--TCTTCAATCTACTCCAC--TACTGCTTAGGGAGAT-AAATCTGTA
* * *
59532415 ATCTTCGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
1 ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAA-ATCTGT
59532458 GGTTTTAATC
Statistics
Matches: 192, Mismatches: 51, Indels: 38
0.68 0.18 0.14
Matches are distributed among these distances:
41 7 0.04
42 1 0.01
43 72 0.38
44 73 0.38
45 35 0.18
46 1 0.01
47 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (43 bp):
ATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAATCTGTA
Found at i:59532394 original size:131 final size:131
Alignment explanation
Indices: 59532025--59532457 Score: 595
Period size: 132 Copynumber: 3.3 Consensus size: 131
59532015 AGACTTGATG
* * ** ** *
59532025 CGATCTGCTCCACTACTGCTTTGGGAGATAAGATCTAGTTTAT-TTTGTCTGCTCCACTACTGCT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-G-TAATCTTAATCTATTCCACTGCTGCT
* * * *
59532089 TAGAGAGATA-AGACT-GCTGGCTTCAATGTACTCCATTGTAATCTCAGGGAGGTAAAATCCACC
64 TAGGGAGATAGA-ACTAAC-GGCTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCCGCC
59532152 ATCTT
127 ATCTT
**
59532157 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTTAATCTATTCCACTGCTGCCC
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATC-TTAATCTATTCCACTGCTGCTT
* * * *
59532222 AAGGAGATAGAGCTAATGGCTTCAATGTACTCCACTATAATCTCAGGGAGGTAAAATCCGCCATC
65 AGGGAGATAGAACTAACGGCTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCCGCCATC
59532287 TT
130 TT
*
59532289 CGATTTGCTCCACTACTGCTTAGGGAGATAA-ATCTGTAATCTTCAATCTATTCCACTGCTGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTT-AATCTATTCCACTGCTGCTT
* *
59532353 AGGGAGATAGAACTAACGGCTTCAATGTACTCCACTGTAATCTTAGGGAGGTAAAATCTGCCATC
65 AGGGAGATAGAACTAACGGCTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCCGCCATC
59532418 TT
130 TT
*
59532420 CGATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
59532458 GGTTTTAATC
Statistics
Matches: 269, Mismatches: 26, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
130 5 0.02
131 121 0.45
132 142 0.53
133 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.31
Consensus pattern (131 bp):
CGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTAATCTATTCCACTGCTGCTTA
GGGAGATAGAACTAACGGCTTCAATGTACTCCACTGTAATCTCAGGGAGGTAAAATCCGCCATCT
T
Found at i:59532752 original size:44 final size:43
Alignment explanation
Indices: 59532694--59533092 Score: 318
Period size: 44 Copynumber: 9.1 Consensus size: 43
59532684 AGATCTGTTT
* * *
59532694 TCTTCGATCTACTTCGCCACTAGTATGGGAAGACAAGATCTGCA
1 TCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCA
* * * * *
59532738 TATTCGATCCACTTCCTACCAATATAGGAAGA-TAGAACCTGCTA
1 TCTTCGATCTACTTCCCACCAATATAGGAAGACAAG-ATCTGC-A
* * * * *
59532782 TCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTG-A
1 TCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCA
* * *
59532824 TTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCCGCA
1 --TCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCA
* * * *
59532870 TCTTCGATCCACTTCCTACCAATATAGGAAGATAAGACCTGCTA
1 TCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGC-A
* * * **
59532914 TCTTCGATCTACTTCACGCCAATACATAAAGACAAGATCTGCA
1 TCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCA
* * * * * *
59532957 TCTTCGATCCACGTCCTACCAATATAGGAAGACAGGACCTACTA
1 TCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGC-A
* * * * * * *
59533001 TCTAT-GATCTACTTCACGCCAATACATGAAGACAATATCTACTT
1 TCT-TCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGC-A
* *
59533045 TCTTCGATCTACTTCGCCACCAATATGGGAAGACAAAATCTGCA
1 TCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCA
59533089 TCTT
1 TCTT
59533093 TAACCAGCTC
Statistics
Matches: 271, Mismatches: 72, Indels: 24
0.74 0.20 0.07
Matches are distributed among these distances:
42 3 0.01
43 72 0.27
44 154 0.57
45 41 0.15
46 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (43 bp):
TCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCA
Found at i:59532830 original size:132 final size:132
Alignment explanation
Indices: 59532683--59532954 Score: 474
Period size: 132 Copynumber: 2.1 Consensus size: 132
59532673 TCAGAGAGAT
* * *
59532683 AAGATCTGTTTTCTTCGATCTACTTCGCCACTAGTATGGGAAGACAAGATCTGCATATTCGATCC
1 AAGATCTGATTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCCGCATATTCGATCC
* *
59532748 ACTTCCTACCAATATAGGAAGAT-AGAACCTGCTATCTTCGATCTACTTCACGCTAATACATGAA
66 ACTTCCTACCAATATAGGAAGATAAG-ACCTGCTATCTTCGATCTACTTCACGCCAATACATAAA
59532812 GAC
130 GAC
*
59532815 AAGATCTGATTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCCGCATCTTCGATCC
1 AAGATCTGATTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCCGCATATTCGATCC
59532880 ACTTCCTACCAATATAGGAAGATAAGACCTGCTATCTTCGATCTACTTCACGCCAATACATAAAG
66 ACTTCCTACCAATATAGGAAGATAAGACCTGCTATCTTCGATCTACTTCACGCCAATACATAAAG
59532945 AC
131 AC
59532947 AAGATCTG
1 AAGATCTG
59532955 CATCTTCGAT
Statistics
Matches: 133, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
132 131 0.98
133 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (132 bp):
AAGATCTGATTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCCGCATATTCGATCC
ACTTCCTACCAATATAGGAAGATAAGACCTGCTATCTTCGATCTACTTCACGCCAATACATAAAG
AC
Found at i:59532967 original size:87 final size:87
Alignment explanation
Indices: 59532855--59533080 Score: 310
Period size: 87 Copynumber: 2.6 Consensus size: 87
59532845 CCAGTATGGG
* * *
59532855 AAGACAAGATCCGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAAGACCTGCTATCT-TC
1 AAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTAT-
59532919 GATCTACTTCACGCCAATACATA
65 GATCTACTTCACGCCAATACATA
* *
59532942 AAGACAAGATCTGCATCTTCGATCCACGTCCTACCAATATAGGAAGACAGGACCTACTATCTATG
1 AAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTATG
*
59533007 ATCTACTTCACGCCAATACATG
66 ATCTACTTCACGCCAATACATA
* * * * * *
59533029 AAGACAATATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAA
1 AAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGACAA
59533081 AATCTGCATC
Statistics
Matches: 122, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
87 91 0.75
88 14 0.11
89 17 0.14
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (87 bp):
AAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTACTATCTATG
ATCTACTTCACGCCAATACATA
Found at i:59533278 original size:87 final size:87
Alignment explanation
Indices: 59533072--59533826 Score: 1145
Period size: 87 Copynumber: 8.8 Consensus size: 87
59533062 CACCAATATG
* * **
59533072 GGAAGACAAAATCTGC-ATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAAATTTTGTTTTC
1 GGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTC
59533136 GATCTGCTTCGCT-TTAATGCA
66 GATCTGCTTCGCTGTTAATGCA
* *
59533157 GGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGATGCAAGGTTTTGTTTTC
1 GGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTC
*
59533222 GATCTGC-TCAGCTGTTAATGTA
66 GATCTGCTTC-GCTGTTAATGCA
* * * * *
59533244 GGAAGGCAAGATCTACTATCTTTGACCAGCTCCACTGCAACCAATAGAGGCAAAGTTTTGTTTTC
1 GGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTC
*
59533309 GATCTGCTTCGCTGTTAATACA
66 GATCTGCTTCGCTGTTAATGCA
*
59533331 GGAAGGCAAGATCTGCTATATTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTC
1 GGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTC
* *
59533396 GATCTG-TTCCGCTATTAATACA
66 GATCTGCTT-CGCTGTTAATGCA
* *
59533418 GGAAGGCAAGATCTG----C--T-ACCAGCTCCACTGCAATCGATGGAGGCAAGGTTTTGTTTTT
1 GGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTC
* *
59533476 GATTTACTTCGCTGTTAATGCA
66 GATCTGCTTCGCTGTTAATGCA
* *
59533498 GGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACCGATGGAGGCATGGTTTTGTTTTC
1 GGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTC
*
59533563 GATCTGCTTCGTTGTTAATGCA
66 GATCTGCTTCGCTGTTAATGCA
*
59533585 GGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGAAGGCAAGGTTTTGTTTTC
1 GGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTC
*
59533650 GATCTGCTCCGCTGTTAATGCA
66 GATCTGCTTCGCTGTTAATGCA
59533672 GGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTC
1 GGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTC
*
59533737 GATCTGCTTTGCTGTTAATGCA
66 GATCTGCTTCGCTGTTAATGCA
* * * *
59533759 GGAATGCAAGATCTGTTATCTTTAACCAGCTCCACTGCAATCGATGGAGGCAAAGTTTTGTTTTC
1 GGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTC
59533824 GAT
66 GAT
59533827 TTTCACTGAT
Statistics
Matches: 609, Mismatches: 48, Indels: 24
0.89 0.07 0.04
Matches are distributed among these distances:
80 69 0.11
81 3 0.00
84 1 0.00
85 16 0.03
86 57 0.09
87 461 0.76
88 2 0.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (87 bp):
GGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTC
GATCTGCTTCGCTGTTAATGCA
Found at i:59533717 original size:341 final size:343
Alignment explanation
Indices: 59533092--59533828 Score: 1153
Period size: 341 Copynumber: 2.1 Consensus size: 343
59533082 ATCTGCATCT
* * * *
59533092 TTAACCAGCTCCACTGCAACCGATGGAGGCAAAATTTTGTTTTCGATCTGCTTCGCTTTAATGCA
1 TTAACCAGCTCCACTGCAATCGATGGAGGCAAAGTTTTGTTTTCGATTTACTTCGCTTTAATGCA
*
59533157 GGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGATGCAAGGTTTTGTTTTC
66 GGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGTTTTGTTTTC
* *
59533222 GATCTGCTCAGCTGTTAATGTAGGAAGGCAAGATCTACTATCTTTGACCAGCTCCACTGCAACCA
131 GATCTGCTCAGCTGTTAATGCAGGAAGGCAAGATCTACTATCTTTAACCAGCTCCACTGCAACCA
*
59533287 ATAGAGGCAAAGTTTTGTTTTCGATCTGCTTCGCTGTTAATACAGGAAGGCAAGATCTGCTATAT
196 ATAGAGGCAAAGTTTTGTTTTCGATCTGCTCCGCTGTTAATACAGGAAGGCAAGATCTGCTATAT
59533352 TTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTG-TTCCGCTATTAATA
261 TTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGCTT-CGCTATTAATA
59533416 CAGGAAGGCAAGATCTG-C
325 CAGGAAGGCAAGATCTGTC
* *
59533434 -T-ACCAGCTCCACTGCAATCGATGGAGGCAAGGTTTTGTTTTTGATTTACTTCGCTGTTAATGC
1 TTAACCAGCTCCACTGCAATCGATGGAGGCAAAGTTTTGTTTTCGATTTACTTCGCT-TTAATGC
* * *
59533497 AGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACCGATGGAGGCATGGTTTTGTTTT
65 AGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGTTTTGTTTT
* *
59533562 CGATCTGCTTC-GTTGTTAATGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAAC
130 CGATCTGC-TCAGCTGTTAATGCAGGAAGGCAAGATCTACTATCTTTAACCAGCTCCACTGCAAC
* * *
59533626 CGAT-GAAGGCAAGGTTTTGTTTTCGATCTGCTCCGCTGTTAATGCAGGAAGGCAAGATCTGCTA
194 CAATAG-AGGCAAAGTTTTGTTTTCGATCTGCTCCGCTGTTAATACAGGAAGGCAAGATCTGCTA
* * *
59533690 TCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGCTTTGCTGTTAA
258 TATTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTATTAA
* *
59533755 TGCAGGAATGCAAGATCTGTTATC
323 TACAGGAAGGCAAGATCTG---TC
59533779 TTTAACCAGCTCCACTGCAATCGATGGAGGCAAAGTTTTGTTTTCGATTT
1 -TTAACCAGCTCCACTGCAATCGATGGAGGCAAAGTTTTGTTTTCGATTT
59533829 TCACTGATCT
Statistics
Matches: 359, Mismatches: 25, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
340 49 0.14
341 260 0.72
342 4 0.01
345 1 0.00
347 1 0.00
348 44 0.12
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (343 bp):
TTAACCAGCTCCACTGCAATCGATGGAGGCAAAGTTTTGTTTTCGATTTACTTCGCTTTAATGCA
GGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGATGGAGGCAAGGTTTTGTTTTC
GATCTGCTCAGCTGTTAATGCAGGAAGGCAAGATCTACTATCTTTAACCAGCTCCACTGCAACCA
ATAGAGGCAAAGTTTTGTTTTCGATCTGCTCCGCTGTTAATACAGGAAGGCAAGATCTGCTATAT
TTAACCAGCTCCACTGCAACCGATGGAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTATTAATAC
AGGAAGGCAAGATCTGTC
Found at i:59535072 original size:6 final size:7
Alignment explanation
Indices: 59535050--59535082 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
59535040 ATTTTTACTA
59535050 TTTCATT
1 TTTCATT
59535057 TTTCATT
1 TTTCATT
59535064 TTTCATT
1 TTTCATT
*
59535071 TTT-GTT
1 TTTCATT
59535077 TTTCAT
1 TTTCAT
59535083 CTCTTTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.12, C:0.12, G:0.03, T:0.73
Consensus pattern (7 bp):
TTTCATT
Found at i:59535520 original size:29 final size:26
Alignment explanation
Indices: 59535483--59535541 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 26
59535473 TCATATTTTA
59535483 TTTTGACTTTAATTGATTTCTCTTTTTGC
1 TTTTGACTTTAATT--TTT-TCTTTTTGC
* *
59535512 TTTTGACTTTGATTTTTTCTTTTTGT
1 TTTTGACTTTAATTTTTTCTTTTTGC
59535538 TTTT
1 TTTT
59535542 TTTTAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 12 0.43
27 3 0.11
29 13 0.46
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.69
Consensus pattern (26 bp):
TTTTGACTTTAATTTTTTCTTTTTGC
Found at i:59540102 original size:106 final size:105
Alignment explanation
Indices: 59539915--59540231 Score: 429
Period size: 106 Copynumber: 3.0 Consensus size: 105
59539905 AACGAAACCA
* * * * * *
59539915 TACTTTGAAGTTTTAAGAGGGTATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGGT
1 TACTTTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAACACGTT
59539980 AGGGCACGTTTTCTCGAATTTCCAAACGCAAAATATTGCT
66 AGGGCACGTTTTCTCGAATTTCCAAACGCAAAATATTGCT
* * *
59540020 TCACTTTGAAATTTTAAAAGGATATTTGGCTATTTGGTCAAACAAGAAGTCGAAACCCAACACGT
1 T-ACTTTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAACACGT
* * * *
59540085 TAGGGCACGTTTCCTCGATTTTCCAAATGCGAAATATTGCCT
65 TAGGGCACGTTTTCTCGAATTTCCAAACGCAAAATATTG-CT
* * * *
59540127 TATTTTAAAAGTTTAAAAATGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAACACGT
1 TACTTTGAAA-TTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAACACGT
*
59540192 TAGGGCACGTTTTCTC-AATTTTCCAAACGCAAAACATTGC
65 TAGGGCACGTTTTCTCGAA-TTTCCAAACGCAAAATATTGC
59540232 CTTATTAGAA
Statistics
Matches: 183, Mismatches: 25, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
105 1 0.01
106 98 0.54
107 84 0.46
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (105 bp):
TACTTTGAAATTTTAAAAGGATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAACACGTT
AGGGCACGTTTTCTCGAATTTCCAAACGCAAAATATTGCT
Found at i:59540197 original size:107 final size:106
Alignment explanation
Indices: 59539936--59540237 Score: 435
Period size: 107 Copynumber: 2.8 Consensus size: 106
59539926 TTTAAGAGGG
* * * *
59539936 TATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGGTAGGGCACGTTTTCTCGAATTT
1 TATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAACACGTTAGGGCACGTTTTCTCGATTTT
* * *
59540001 CCAAACGCAAAATATTG-CTTCACTTTGAAATTTTAAAAGGA
66 CCAAACGCAAAATATTGCCTT-ATTTTAAAATTTAAAAAGGA
* * * *
59540042 TATTTGGCTATTTGGTCAAACAAGAAGTCGAAACCCAACACGTTAGGGCACGTTTCCTCGATTTT
1 TATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAACACGTTAGGGCACGTTTTCTCGATTTT
* * *
59540107 CCAAATGCGAAATATTGCCTTATTTTAAAAGTTTAAAAATGA
66 CCAAACGCAAAATATTGCCTTATTTTAAAA-TTTAAAAAGGA
*
59540149 TATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAACACGTTAGGGCACGTTTTCTCAATTTT
1 TATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAACACGTTAGGGCACGTTTTCTCGATTTT
*
59540214 CCAAACGCAAAACATTGCCTTATT
66 CCAAACGCAAAATATTGCCTTATT
59540238 AGAAAAAATT
Statistics
Matches: 172, Mismatches: 22, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
106 79 0.46
107 93 0.54
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (106 bp):
TATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAACACGTTAGGGCACGTTTTCTCGATTTT
CCAAACGCAAAATATTGCCTTATTTTAAAATTTAAAAAGGA
Found at i:59540437 original size:4 final size:4
Alignment explanation
Indices: 59540428--59540454 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
59540418 AATGAAAGTG
59540428 TAAA TAAA TAAA TAAA TAAA TAAA TAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAA
59540455 CGAATAGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:59540919 original size:26 final size:26
Alignment explanation
Indices: 59540884--59540937 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
59540874 TTTAAAAAAT
* * **
59540884 ATGTACGTATGTATATATATGACAAA
1 ATGTAAGTATGTACATATACAACAAA
59540910 ATGTAAGTATGTACATATACAACAAA
1 ATGTAAGTATGTACATATACAACAAA
59540936 AT
1 AT
59540938 TTGAAACTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.46, C:0.09, G:0.13, T:0.31
Consensus pattern (26 bp):
ATGTAAGTATGTACATATACAACAAA
Found at i:59542716 original size:5 final size:5
Alignment explanation
Indices: 59542706--59542731 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
59542696 TTGATTTTAC
59542706 AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA A
59542732 ACAGGGAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:59543167 original size:15 final size:15
Alignment explanation
Indices: 59543142--59543176 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
59543132 AACTCTATTT
*
59543142 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
59543156 TAATTAATATTAAGA
1 TAATTAATATTAAGA
59543171 TAATTA
1 TAATTA
59543177 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:59544171 original size:19 final size:19
Alignment explanation
Indices: 59544147--59544187 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
59544137 TTGACCTTAC
59544147 TTCCCTTTTACTATTCTTT
1 TTCCCTTTTACTATTCTTT
59544166 TTCCCTTTTACTATTCTTT
1 TTCCCTTTTACTATTCTTT
59544185 TTC
1 TTC
59544188 ATTATTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.10, C:0.27, G:0.00, T:0.63
Consensus pattern (19 bp):
TTCCCTTTTACTATTCTTT
Found at i:59562471 original size:30 final size:31
Alignment explanation
Indices: 59562406--59562473 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
59562396 AATATTAATA
* *
59562406 AGTGACTGTTTTGTCACTTTTTGATAACGTT
1 AGTGACTATTTTGTCACTTTTTGATAAAGTT
*
59562437 AGTGACTATTTTGTCA-TTTTT-CTAAAGTT
1 AGTGACTATTTTGTCACTTTTTGATAAAGTT
59562466 GAGTGACT
1 -AGTGACT
59562474 TTGATTTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 6 0.18
30 12 0.36
31 15 0.45
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (31 bp):
AGTGACTATTTTGTCACTTTTTGATAAAGTT
Found at i:59562528 original size:29 final size:30
Alignment explanation
Indices: 59562496--59562572 Score: 86
Period size: 31 Copynumber: 2.6 Consensus size: 30
59562486 GCAATTGTAT
*
59562496 ACATG-AACTTTAATTTGGTGT-AATTATAC
1 ACATGAAACTTTAATTTGGT-TCAAATATAC
* *
59562525 ACATGAAACTGTAATTGTGGTTCAAATATAT
1 ACATGAAACTTTAATT-TGGTTCAAATATAC
*
59562556 ACTTGAAACTTTAATTT
1 ACATGAAACTTTAATTT
59562573 TGATTTAATC
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
29 5 0.12
30 11 0.28
31 24 0.60
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.40
Consensus pattern (30 bp):
ACATGAAACTTTAATTTGGTTCAAATATAC
Found at i:59562900 original size:73 final size:73
Alignment explanation
Indices: 59562811--59562958 Score: 262
Period size: 73 Copynumber: 2.0 Consensus size: 73
59562801 TTGATTTTGA
*
59562811 TCATAGAAATTCTAATTTATAATTGTAAAATAAAATAAAAAGTTATTACGATACAAAA-AATTGA
1 TCATAGAAATTATAATTTATAATTGTAAAATAAAATAAAAAGTTATTACGATACAAAACAA-TGA
59562875 GTTTCACTT
65 GTTTCACTT
*
59562884 TCATAGAAATTATAATTTATAATTGTAAAATAAAATAAAAAGTTATTATGATACAAAACAATGAG
1 TCATAGAAATTATAATTTATAATTGTAAAATAAAATAAAAAGTTATTACGATACAAAACAATGAG
59562949 TTTCACTT
66 TTTCACTT
59562957 TC
1 TC
59562959 CCAACAAGTA
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
73 70 0.97
74 2 0.03
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (73 bp):
TCATAGAAATTATAATTTATAATTGTAAAATAAAATAAAAAGTTATTACGATACAAAACAATGAG
TTTCACTT
Found at i:59563485 original size:24 final size:24
Alignment explanation
Indices: 59563457--59563508 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
59563447 TTAATAGGTC
*
59563457 AAATAAACTATACTAATAAATTCT
1 AAATAAACTATACTAATAAATACT
* *
59563481 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
59563505 AAAT
1 AAAT
59563509 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.35
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:59567552 original size:26 final size:26
Alignment explanation
Indices: 59567517--59567567 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
59567507 AATGTGAAAG
*
59567517 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
59567543 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
59567568 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:59567579 original size:103 final size:103
Alignment explanation
Indices: 59567439--59567660 Score: 374
Period size: 103 Copynumber: 2.2 Consensus size: 103
59567429 TGTATATAAA
** * *
59567439 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
59567503 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
* *
59567542 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
59567607 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
59567645 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
59567661 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
103 111 0.99
104 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:59567712 original size:70 final size:72
Alignment explanation
Indices: 59567580--59567730 Score: 243
Period size: 71 Copynumber: 2.1 Consensus size: 72
59567570 TCATTGGTGG
* *
59567580 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
59567644 GAGGGGT
66 GAGGGGT
***
59567651 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
59567715 GAGGGGT
66 GAGGGGT
59567722 TGCTAAGTG
1 TGCTAAGTG
59567731 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 24 0.32
71 50 0.68
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:59574975 original size:25 final size:25
Alignment explanation
Indices: 59574941--59574990 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
59574931 GAAATGTGAA
*
59574941 AGGGGTTGCTATGTGCTGATTCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCG
59574966 AGGGGTTGCTAAGTGCTGATTCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCG
59574991 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.14, C:0.20, G:0.36, T:0.30
Consensus pattern (25 bp):
AGGGGTTGCTAAGTGCTGATTCCCG
Found at i:59575039 original size:100 final size:100
Alignment explanation
Indices: 59574866--59575081 Score: 355
Period size: 100 Copynumber: 2.2 Consensus size: 100
59574856 TGTATATAAA
** * *
59574866 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGTGGTGCTATGTGCGTGATCCACCATATCTTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGTGGTGCTAAGTGCGTGATCCACCATATCTTT
59574931 GAAATGTGAAAGGGGTTGCTATGTGCTGATTCCCG
66 GAAATGTGAAAGGGGTTGCTATGTGCTGATTCCCG
*
59574966 AGGGGTTGCTAAGTGCTGATT-CCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCA-TGGTGGTGCTAAGTGCG-TGATCCACCATATCT
59575029 TTGAAATGTGAAAGGGGTTGCTATGTGCTGATTCCCG
64 TTGAAATGTGAAAGGGGTTGCTATGTGCTGATTCCCG
59575066 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
59575082 GATATCATTG
Statistics
Matches: 109, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
99 7 0.06
100 101 0.93
101 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.31, T:0.32
Consensus pattern (100 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGTGGTGCTAAGTGCGTGATCCACCATATCTTT
GAAATGTGAAAGGGGTTGCTATGTGCTGATTCCCG
Found at i:59587728 original size:25 final size:24
Alignment explanation
Indices: 59587677--59587728 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
59587667 TTAATAGGTC
* *
59587677 AAAATAAACTATACTTAAAATTCT
1 AAAATAAACTATACTAAAAATACT
* *
59587701 AAAATATATTATACTAATAAATACT
1 AAAATAAACTATACTAA-AAATACT
59587726 AAA
1 AAA
59587729 TCTTCTTAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.33
Consensus pattern (24 bp):
AAAATAAACTATACTAAAAATACT
Found at i:59591868 original size:101 final size:101
Alignment explanation
Indices: 59591715--59591930 Score: 337
Period size: 102 Copynumber: 2.1 Consensus size: 101
59591705 TATATAAAAG
** * *
59591715 GGGTTGCTGTGTGCTGATTCCCCGATTTATGGTGGTGATATGTGCGTGATCCACCATATC-TTGA
1 GGGTTGCTAAGTGCTGATTCCCCGATTCATGGTGGTGATAAGTGCGTGATCCACCATATCTTTGA
59591779 AATGTGAAAGGGGTTGCTATGTGCTGATTCCCCCGA
66 AATGTGAAAGGGGTTGCTATGTGCTGATTCCCCCGA
* *
59591815 GGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCTTT
1 GGGTTGCTAAGTGCTGATTCCCCGATTCA-TGGTGGTGATAAGTGCG-TGATCCACCATATCTTT
*
59591879 GAAATGTGAAAGGGGTTGCTATGTGCTGATTCCCCTGA
64 GAAATGTGAAAGGGGTTGCTATGTGCTGATTCCCCCGA
59591917 GGGTTGCTAAGTGC
1 GGGTTGCTAAGTGC
59591931 GATATCCATT
Statistics
Matches: 106, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
100 25 0.24
101 27 0.25
102 54 0.51
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.32
Consensus pattern (101 bp):
GGGTTGCTAAGTGCTGATTCCCCGATTCATGGTGGTGATAAGTGCGTGATCCACCATATCTTTGA
AATGTGAAAGGGGTTGCTATGTGCTGATTCCCCCGA
Found at i:59591982 original size:69 final size:71
Alignment explanation
Indices: 59591851--59591999 Score: 230
Period size: 70 Copynumber: 2.1 Consensus size: 71
59591841 TCATTGGTGG
* * *
59591851 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGTTGCTATGTGCTGATTCCCCTG
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGTTGCTATGTGCTGATTCCCCCG
59591916 A-GGGT
66 AGGGGT
***
59591921 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGTTGCTATGTGCTGATTCCCCCG
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGTTGCTATGTGCTGATTCCCCCG
59591985 AGGGGT
66 AGGGGT
59591991 TGCTAAGTG
1 TGCTAAGTG
59592000 ATGATTCCCC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
69 29 0.40
70 43 0.60
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (71 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGTTGCTATGTGCTGATTCCCCCG
AGGGGT
Found at i:59592004 original size:27 final size:27
Alignment explanation
Indices: 59591958--59592009 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
59591948 TGAAATGAAA
* *
59591958 AGGGGTTGCTATGTGCTGATTCCCCCG
1 AGGGGTTGCTAAGTGATGATTCCCCCG
59591985 AGGGGTTGCTAAGTGATGATTCCCC
1 AGGGGTTGCTAAGTGATGATTCCCC
59592010 GATTCAGTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.15, C:0.23, G:0.33, T:0.29
Consensus pattern (27 bp):
AGGGGTTGCTAAGTGATGATTCCCCCG
Found at i:59599304 original size:104 final size:102
Alignment explanation
Indices: 59599124--59599344 Score: 347
Period size: 104 Copynumber: 2.2 Consensus size: 102
59599114 TGTATATAAA
** * *
59599124 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
59599189 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATT--CCCG
* *
59599228 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
59599292 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCG
59599330 A-GGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
59599345 GATATCCATT
Statistics
Matches: 110, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
101 14 0.13
102 5 0.05
104 90 0.82
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.32
Consensus pattern (102 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCG
Found at i:59599396 original size:68 final size:71
Alignment explanation
Indices: 59599266--59599414 Score: 223
Period size: 69 Copynumber: 2.1 Consensus size: 71
59599256 TCATTGGTGG
* *
59599266 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCG
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCG
59599330 A-GGGT
66 AGGGGT
***
59599335 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATT-CCCC
59599399 GAGGGGT
65 GAGGGGT
59599406 TGCTAAGTG
1 TGCTAAGTG
59599415 ATGATTCCCC
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
68 24 0.33
69 30 0.42
70 5 0.07
71 13 0.18
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (71 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCG
AGGGGT
Found at i:59603596 original size:19 final size:19
Alignment explanation
Indices: 59603567--59603620 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
59603557 TATTTTTTCC
59603567 AAAAATT-TTATAAAAATT
1 AAAAATTATTATAAAAATT
**
59603585 AAAAATTATTATGAAATCTT
1 AAAAATTATTAT-AAAAATT
59603605 AAAAA-TA-TATAAAAAT
1 AAAAATTATTATAAAAAT
59603621 GCTAAATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
17 4 0.13
18 10 0.33
19 6 0.20
20 10 0.33
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAAATTATTATAAAAATT
Found at i:59610174 original size:50 final size:50
Alignment explanation
Indices: 59610050--59610298 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
59610040 GATAATAACA
* * ** * *
59610050 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
59610101 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
59610151 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
59610201 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
59610256 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
59610299 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:59610228 original size:100 final size:104
Alignment explanation
Indices: 59610049--59610298 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
59610039 TGATAATAAC
**
59610049 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
59610114 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
59610151 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
59610214 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
59610256 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
59610299 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:59610414 original size:13 final size:13
Alignment explanation
Indices: 59610393--59610424 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
59610383 GCTTGGATCA
*
59610393 TCATCAAATAAAT
1 TCATAAAATAAAT
59610406 TCATAAAATAAAT
1 TCATAAAATAAAT
59610419 TCATAA
1 TCATAA
59610425 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:59610671 original size:30 final size:30
Alignment explanation
Indices: 59610636--59610693 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
59610626 CCTCGACTCT
*
59610636 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
59610666 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
59610694 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:59612933 original size:18 final size:17
Alignment explanation
Indices: 59612906--59612947 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
59612896 ATTTAATATT
*
59612906 TAATAATAAAAATTAATA
1 TAATATTAAAAATTAA-A
59612924 TAATATT-AAAATTAAA
1 TAATATTAAAAATTAAA
*
59612940 TAAAATTA
1 TAATATTA
59612948 CTTTTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 7 0.33
17 8 0.38
18 6 0.29
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
TAATATTAAAAATTAAA
Found at i:59622058 original size:38 final size:39
Alignment explanation
Indices: 59621972--59622069 Score: 103
Period size: 38 Copynumber: 2.5 Consensus size: 39
59621962 AATTTTTACG
*
59621972 ATTTATTTAGAAAATAATTGTAAGATAATACTTAAACAAAC
1 ATTTATTTA-AAAACAATT-TAAGATAATACTTAAACAAAC
* * *
59622013 ATATATTTTAAAA-AATTTAAGATAATA-TTGAAA-AAAT
1 ATTTATTTAAAAACAATTTAAGATAATACTT-AAACAAAC
59622050 ATTTTATTTAAAAACAATTT
1 A-TTTATTTAAAAACAATTT
59622070 TATTAAAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
37 6 0.12
38 23 0.47
39 9 0.18
40 4 0.08
41 7 0.14
ACGTcount: A:0.52, C:0.04, G:0.05, T:0.39
Consensus pattern (39 bp):
ATTTATTTAAAAACAATTTAAGATAATACTTAAACAAAC
Found at i:59622062 original size:16 final size:16
Alignment explanation
Indices: 59622038--59622080 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
59622028 TTTAAGATAA
*
59622038 TATTGAAAAAATATTT
1 TATTTAAAAAATATTT
59622054 TATTTAAAAACA-ATTT
1 TATTTAAAAA-ATATTT
59622070 TA-TTAAAAAAT
1 TATTTAAAAAAT
59622081 CAGTTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 1 0.04
15 7 0.29
16 15 0.62
17 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (16 bp):
TATTTAAAAAATATTT
Found at i:59622087 original size:17 final size:16
Alignment explanation
Indices: 59622038--59622088 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
59622028 TTTAAGATAA
59622038 TATTGAAAAAAT-ATTT
1 TATT-AAAAAATCATTT
*
59622054 TATTTAAAAA-CAATTT
1 TATTAAAAAATC-ATTT
59622070 TATTAAAAAATCAGTTT
1 TATTAAAAAATCA-TTT
59622087 TA
1 TA
59622089 AAAACATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
15 5 0.17
16 18 0.62
17 6 0.21
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (16 bp):
TATTAAAAAATCATTT
Found at i:59622089 original size:14 final size:15
Alignment explanation
Indices: 59622072--59622138 Score: 59
Period size: 17 Copynumber: 4.5 Consensus size: 15
59622062 AACAATTTTA
59622072 TTAAAAA-ATCAGTT
1 TTAAAAATATCAGTT
*
59622086 TTAAAAACAT-A-TT
1 TTAAAAATATCAGTT
* *
59622099 TTAAAATATATAATTT
1 TTAAAA-ATATCAGTT
59622115 ATTAAAGAATATCAGTT
1 -TTAAA-AATATCAGTT
59622132 TTAAAAA
1 TTAAAAA
59622139 CAATTTTTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
13 8 0.18
14 11 0.25
15 5 0.11
16 7 0.16
17 12 0.27
18 1 0.02
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (15 bp):
TTAAAAATATCAGTT
Found at i:59622099 original size:46 final size:46
Alignment explanation
Indices: 59622063--59622150 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
59622053 TTATTTAAAA
59622063 ACAATTTTATTAAA-AA-ATCAGTTTTAAAAACATATTTTAAAATAT
1 ACAA-TTTATTAAAGAATATCAGTTTTAAAAACATATTTTAAAATAT
* *
59622108 ATAATTTATTAAAGAATATCAGTTTTAAAAACA-ATTTTTAAAT
1 ACAATTTATTAAAGAATATCAGTTTTAAAAACATATTTTAAAAT
59622151 TCGTCTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
44 9 0.23
45 14 0.36
46 16 0.41
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (46 bp):
ACAATTTATTAAAGAATATCAGTTTTAAAAACATATTTTAAAATAT
Done.