Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr7
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: 21614486
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1093914 characters in sequence are not A, C, G, or T
File 47 of 54
Found at i:18698453 original size:37 final size:37
Alignment explanation
Indices: 18698412--18698489 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
18698402 GTTGTGTGAA
* *
18698412 GATGTT-GAAGTGTGCGAGTAGGGAGTGCACACATGAT
1 GATGTTAG-AGTGTGCGAGTAGAGAGTGAACACATGAT
18698449 GATGTTAGAGTGTGCGAGTAGAGAGTGAACACATGAT
1 GATGTTAGAGTGTGCGAGTAGAGAGTGAACACATGAT
18698486 GATG
1 GATG
18698490 AATGCATATG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.29, C:0.09, G:0.37, T:0.24
Consensus pattern (37 bp):
GATGTTAGAGTGTGCGAGTAGAGAGTGAACACATGAT
Found at i:18710296 original size:38 final size:39
Alignment explanation
Indices: 18710232--18710334 Score: 113
Period size: 38 Copynumber: 2.6 Consensus size: 39
18710222 ATAGTGCCCG
* * * *
18710232 TGTGCATGATGTAGGGGCATGTACACGATGGCACT-GA-C-
1 TGTGCACGATGTAGGGGGATGCACACGAT-G-ACTCCAGCA
*
18710270 TGTGCACGATGTGGGGGGATGCACACGATGACTCCAGCTA
1 TGTGCACGATGTAGGGGGATGCACACGATGACTCCAGC-A
18710310 TGTGCACGATGTAGGGGGATGCACA
1 TGTGCACGATGTAGGGGGATGCACA
18710335 TGAGCTAGGG
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
36 3 0.05
37 2 0.04
38 26 0.47
40 24 0.44
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.21
Consensus pattern (39 bp):
TGTGCACGATGTAGGGGGATGCACACGATGACTCCAGCA
Found at i:18727354 original size:30 final size:30
Alignment explanation
Indices: 18727314--18727377 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
18727304 TGGAAATTTC
* *
18727314 CAACGGAATTTTTTGTCGAAAATGCTTTTA
1 CAACGAAATTTTTGGTCGAAAATGCTTTTA
* * *
18727344 CAACGAAATTTTTGGTTGGAAATGCTTTTC
1 CAACGAAATTTTTGGTCGAAAATGCTTTTA
18727374 CAAC
1 CAAC
18727378 CAAAAATTCC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.38
Consensus pattern (30 bp):
CAACGAAATTTTTGGTCGAAAATGCTTTTA
Found at i:18728123 original size:20 final size:21
Alignment explanation
Indices: 18728098--18728155 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 21
18728088 ATTAAGAGTT
*
18728098 TTTAGGTTA-AAATAGTTTAG
1 TTTAGGTTAGAAATAGTTTAA
* *
18728118 TTTAGG-TAGAATTAGGTTAA
1 TTTAGGTTAGAAATAGTTTAA
*
18728138 TTTAGGTTATAAATAGTT
1 TTTAGGTTAGAAATAGTT
18728156 AGCTGAAGGA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
19 2 0.07
20 20 0.67
21 8 0.27
ACGTcount: A:0.34, C:0.00, G:0.21, T:0.45
Consensus pattern (21 bp):
TTTAGGTTAGAAATAGTTTAA
Found at i:18734418 original size:28 final size:28
Alignment explanation
Indices: 18734386--18734443 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
18734376 TACTTATATC
18734386 GTATAATTTATAATTCTTTCTCAAAGGT
1 GTATAATTTATAATTCTTTCTCAAAGGT
*
18734414 GTATAATTTATAATTCTTTCTTAAAGGT
1 GTATAATTTATAATTCTTTCTCAAAGGT
18734442 GT
1 GT
18734444 TTAAACATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (28 bp):
GTATAATTTATAATTCTTTCTCAAAGGT
Found at i:18736665 original size:11 final size:11
Alignment explanation
Indices: 18736649--18736676 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
18736639 CACTGTAAAT
18736649 TTTAAAACAAC
1 TTTAAAACAAC
18736660 TTTAAAACAAC
1 TTTAAAACAAC
18736671 TTTAAA
1 TTTAAA
18736677 CCTAAAAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (11 bp):
TTTAAAACAAC
Found at i:18736695 original size:22 final size:22
Alignment explanation
Indices: 18736670--18736735 Score: 107
Period size: 22 Copynumber: 3.0 Consensus size: 22
18736660 TTTAAAACAA
*
18736670 CTTT-AAACCTAAAAGTTCTGAT
1 CTTTAAAACC-AAAAGCTCTGAT
18736692 CTTTAAAACCAAAAGCTCTGAT
1 CTTTAAAACCAAAAGCTCTGAT
18736714 CTTTAAAACCAAAAGCTCTGAT
1 CTTTAAAACCAAAAGCTCTGAT
18736736 ACCACTTTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
22 37 0.88
23 5 0.12
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (22 bp):
CTTTAAAACCAAAAGCTCTGAT
Found at i:18739341 original size:20 final size:20
Alignment explanation
Indices: 18739316--18739361 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
18739306 TTTTGACCCC
18739316 ATTTGACTTATT-AGAGTATA
1 ATTTGACTTATTGA-AGTATA
*
18739336 ATTTGACTTATTGAAGTATG
1 ATTTGACTTATTGAAGTATA
18739356 ATTTGA
1 ATTTGA
18739362 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGAAGTATA
Found at i:18739437 original size:28 final size:27
Alignment explanation
Indices: 18739406--18739458 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
18739396 TTTGGAGTAT
*
18739406 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTT-CCACCTC
*
18739434 AGGGGCAAAATTGTAATTTTCCACC
1 AGGGGCAAAATGGTAATTTTCCACC
18739459 ACCAGGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (27 bp):
AGGGGCAAAATGGTAATTTTCCACCTC
Found at i:18739464 original size:28 final size:28
Alignment explanation
Indices: 18739406--18739464 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
18739396 TTTGGAGTAT
* *
18739406 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTTGCCACCCC
*
18739434 AGGGGCAAAATTGTAATTTT-CCACCACC
1 AGGGGCAAAATGGTAATTTTGCCACC-CC
18739462 AGG
1 AGG
18739465 ATATTTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (28 bp):
AGGGGCAAAATGGTAATTTTGCCACCCC
Found at i:18747099 original size:6 final size:6
Alignment explanation
Indices: 18747078--18747119 Score: 57
Period size: 6 Copynumber: 6.7 Consensus size: 6
18747068 AAAAAGACAC
*
18747078 AAAAGA GAAGAGA AAAAGA AAAAGA AAAAGA AAAAGA GAAAA
1 AAAAGA -AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA -AAAA
18747120 AGGTGTAGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 23 0.72
7 9 0.28
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:18747102 original size:14 final size:13
Alignment explanation
Indices: 18747078--18747121 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
18747068 AAAAAGACAC
*
18747078 AAAAGAGAAGAGA
1 AAAAGAAAAGAGA
18747091 AAAAGAAAA-AGA
1 AAAAGAAAAGAGA
18747103 AAAAGAAAAAGAGA
1 AAAAG-AAAAGAGA
18747117 AAAAG
1 AAAAG
18747122 GTGTAGAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 8 0.29
13 12 0.43
14 8 0.29
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAGAGA
Found at i:18758149 original size:37 final size:37
Alignment explanation
Indices: 18758093--18758174 Score: 92
Period size: 37 Copynumber: 2.2 Consensus size: 37
18758083 CTTTGTGACC
* * * * *
18758093 TTGAACCTCTGCTTGTTGCTTCGGCACTAAGCGTAAT
1 TTGAACTTCTGCCTATTGCTTCAGCACTAAGCATAAT
* * *
18758130 TTGAACTTCTGCCTATTGCTTTAGCACTGAGCATGAT
1 TTGAACTTCTGCCTATTGCTTCAGCACTAAGCATAAT
18758167 TTGAACTT
1 TTGAACTT
18758175 TCGTCAGTTA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.38
Consensus pattern (37 bp):
TTGAACTTCTGCCTATTGCTTCAGCACTAAGCATAAT
Found at i:18765122 original size:39 final size:39
Alignment explanation
Indices: 18765068--18765147 Score: 117
Period size: 39 Copynumber: 2.1 Consensus size: 39
18765058 CTTATTTGTA
*
18765068 GATTGACCCTTAGCCACATTAAAATTTTGGGTAGCCATT
1 GATTGACCCTTAGCCACATTAAAATTTTGGGCAGCCATT
* *
18765107 GATTGA-CCTTCAGCCATATTTAAATTTTGGGCAGCCATT
1 GATTGACCCTT-AGCCACATTAAAATTTTGGGCAGCCATT
18765146 GA
1 GA
18765148 ATCTTTCCCT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 4 0.11
39 33 0.89
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (39 bp):
GATTGACCCTTAGCCACATTAAAATTTTGGGCAGCCATT
Found at i:18767621 original size:14 final size:14
Alignment explanation
Indices: 18767604--18767630 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
18767594 ATAACCAAAT
18767604 TAATTAACTAAAAC
1 TAATTAACTAAAAC
18767618 TAATTAACTAAAA
1 TAATTAACTAAAA
18767631 TTTAAACTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (14 bp):
TAATTAACTAAAAC
Found at i:18771726 original size:2 final size:2
Alignment explanation
Indices: 18771719--18771753 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
18771709 AAGGCTACTT
18771719 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18771754 TTGTCGTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18780472 original size:9 final size:10
Alignment explanation
Indices: 18780451--18780479 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
18780441 CTAAGGTAGT
18780451 TTTTATGAAA
1 TTTTATGAAA
18780461 TTTTAT-AAA
1 TTTTATGAAA
18780470 TTTTATGAAA
1 TTTTATGAAA
18780480 AATGGATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (10 bp):
TTTTATGAAA
Found at i:18782369 original size:18 final size:19
Alignment explanation
Indices: 18782346--18782385 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
18782336 CACGTGAAAA
*
18782346 ATTTTAGAA-TAAAATAAT
1 ATTTTAGAACTAAAACAAT
*
18782364 ATTTTATAACTAAAACAAT
1 ATTTTAGAACTAAAACAAT
18782383 ATT
1 ATT
18782386 AAAATATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (19 bp):
ATTTTAGAACTAAAACAAT
Found at i:18784227 original size:16 final size:15
Alignment explanation
Indices: 18784180--18784235 Score: 53
Period size: 14 Copynumber: 3.7 Consensus size: 15
18784170 AATTTTTCAT
* *
18784180 TTTCGTTTCC-TTCC
1 TTTCTTTTCCTTTTC
18784194 TTTCTTTTCCTTTTC
1 TTTCTTTTCCTTTTC
18784209 TTTCTTTT-CTTACTTC
1 TTTCTTTTCCTT--TTC
*
18784225 TTTCTTCTCCT
1 TTTCTTTTCCT
18784236 ACCTTATTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
14 12 0.34
15 11 0.31
16 10 0.29
17 2 0.06
ACGTcount: A:0.02, C:0.30, G:0.02, T:0.66
Consensus pattern (15 bp):
TTTCTTTTCCTTTTC
Found at i:18785196 original size:39 final size:38
Alignment explanation
Indices: 18785094--18785232 Score: 147
Period size: 39 Copynumber: 3.7 Consensus size: 38
18785084 TGGCGACGTA
* * * * * *
18785094 ATGTGTGGTGTGGGAGAGCACACGCCGATGATATCTACC
1 ATGTGCGGTGTGGGAGTGCACATG-AGATGATATTTGCC
*
18785133 ATGTGCGGTGTGGGAGAGCACATGATGATGATATTTGCC
1 ATGTGCGGTGTGGGAGTGCACATGA-GATGATATTTGCC
* * *
18785172 ATGTGCGGTGTGGGAGTGCGCATGAG--GATATTAGCT
1 ATGTGCGGTGTGGGAGTGCACATGAGATGATATTTGCC
*
18785208 ATGTGCAGTGTGGGAGTGCACATGA
1 ATGTGCGGTGTGGGAGTGCACATGA
18785233 ACTGAGTTGA
Statistics
Matches: 88, Mismatches: 11, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
36 31 0.35
38 1 0.01
39 56 0.64
ACGTcount: A:0.22, C:0.14, G:0.37, T:0.26
Consensus pattern (38 bp):
ATGTGCGGTGTGGGAGTGCACATGAGATGATATTTGCC
Found at i:18789187 original size:18 final size:19
Alignment explanation
Indices: 18789153--18789190 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
18789143 CCATAAATCC
*
18789153 TTTTGCCTTTGGTTGGTGG
1 TTTTGCCTTTAGTTGGTGG
18789172 TTTTGCC-TTAGTTGGTGG
1 TTTTGCCTTTAGTTGGTGG
18789190 T
1 T
18789191 GCTGCAGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.03, C:0.11, G:0.34, T:0.53
Consensus pattern (19 bp):
TTTTGCCTTTAGTTGGTGG
Found at i:18796503 original size:2 final size:2
Alignment explanation
Indices: 18796496--18796579 Score: 161
Period size: 2 Copynumber: 42.5 Consensus size: 2
18796486 TGTTATGTTG
18796496 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18796538 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18796579 A
1 A
18796580 NNNNNNNNNN
Statistics
Matches: 81, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 80 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18796614 original size:2 final size:2
Alignment explanation
Indices: 18796607--18796677 Score: 133
Period size: 2 Copynumber: 35.0 Consensus size: 2
18796597 NNNNNNNNNN
18796607 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18796649 AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
18796678 GTATTGATCA
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 66 0.97
3 2 0.03
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18797347 original size:55 final size:55
Alignment explanation
Indices: 18797263--18797378 Score: 187
Period size: 55 Copynumber: 2.1 Consensus size: 55
18797253 ATTCTCGCTG
* *
18797263 GAATCATCATCCACCGATCATTAGCTCATGTGCACTCCCACATCGTACATAGCTA
1 GAATCATCATCCACCGATCATCAGCTCATGTGCACTCCCACATCGCACATAGCTA
* * *
18797318 GAATCATTATCCACCGGTCATCAGCTCATGTGCACTCCCACATCGCACATAGCTG
1 GAATCATCATCCACCGATCATCAGCTCATGTGCACTCCCACATCGCACATAGCTA
18797373 GAATCA
1 GAATCA
18797379 CCCATCATCA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (55 bp):
GAATCATCATCCACCGATCATCAGCTCATGTGCACTCCCACATCGCACATAGCTA
Found at i:18800042 original size:19 final size:20
Alignment explanation
Indices: 18800020--18800059 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
18800010 CAAGATAAAC
18800020 TTTTTA-GAATAAAATAATA
1 TTTTTATGAATAAAATAATA
*
18800039 -TTTTATTAATAAAATAATA
1 TTTTTATGAATAAAATAATA
18800058 TT
1 TT
18800060 AAAATATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
18 5 0.28
19 12 0.67
20 1 0.06
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
TTTTTATGAATAAAATAATA
Found at i:18801333 original size:26 final size:27
Alignment explanation
Indices: 18801246--18801334 Score: 135
Period size: 27 Copynumber: 3.3 Consensus size: 27
18801236 AAAAGAAAGT
* *
18801246 AACAAGAAAGGAAAATGGGCATGACCT
1 AACAAGAAAGGAAAATGGGCATGGCCC
*
18801273 AACAAGAAAGGAAAATGGGCATGGCTC
1 AACAAGAAAGGAAAATGGGCATGGCCC
*
18801300 AACAAGAAAGAAAAATGGGCATGGCCC
1 AACAAGAAAGGAAAATGGGCATGGCCC
18801327 AAC-AGAAA
1 AACAAGAAA
18801335 TAAGTTGAAG
Statistics
Matches: 57, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 5 0.09
27 52 0.91
ACGTcount: A:0.49, C:0.16, G:0.26, T:0.09
Consensus pattern (27 bp):
AACAAGAAAGGAAAATGGGCATGGCCC
Found at i:18806813 original size:19 final size:19
Alignment explanation
Indices: 18806779--18806816 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
18806769 CCATTTCACT
*
18806779 TATTGGAGTACGATTTGAG
1 TATTGGAGTACAATTTGAG
*
18806798 TATTGGAGTATAATTTGAG
1 TATTGGAGTACAATTTGAG
18806817 GGTTTGGTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.03, G:0.29, T:0.39
Consensus pattern (19 bp):
TATTGGAGTACAATTTGAG
Found at i:18813377 original size:253 final size:253
Alignment explanation
Indices: 18812929--18813434 Score: 825
Period size: 253 Copynumber: 2.0 Consensus size: 253
18812919 GCAATGTCTA
* * * *
18812929 ATATAAAGTTGCGTCTAAGGTTATTACTAACAGATTAAAGCAGATTTTGCCATTGATTCTTTCTG
1 ATATAAAGTTGCCTCTAAGGTTATTACTAACAAATTAAAGCAGATTTTGACATTGATTATTTCTG
*
18812994 ATAACCAGAGTGCTTTGTTCCTGGTCTTTTAATTATTGATAATGTCATATTAACCCATGAGGCTG
66 ATAACCAGAGTGCTTTGTTCCTAGTCTTTTAATTATTGATAATGTCATATTAACCCATGAGGCTG
18813059 TGCATTATCTCCATAACAAAAGACTACGACGAGTTGGCAACTTTGCATTGAAATTGGATATGAGT
131 TGCATTATCTCCATAACAAAAGACTACGACGAGTTGGCAACTTTGCATTGAAATTGGATATGAGT
** * *
18813124 AAGGCCTATGATAAAGTGGAGTGGCCTTTTGTCCATGATATTTTGATGAAGATGGGAT
196 AAGGCCTACAACAAAGTAGAGTGGCCTTTTGTCCATGATATTTTGATGAAGATGGGAT
* * *
18813182 ATATAAAGTTGCCTCTAAGGTTATTTCTAACAAATTAAAGTAGATTTTGACTTTGATTATTTCTG
1 ATATAAAGTTGCCTCTAAGGTTATTACTAACAAATTAAAGCAGATTTTGACATTGATTATTTCTG
* * *
18813247 ATAGCCAGAGTGCTTTGTTCCTAGT-TGTTTAATTATTGATAATGTCATATTGACCCATGAGGTT
66 ATAACCAGAGTGCTTTGTTCCTAGTCT-TTTAATTATTGATAATGTCATATTAACCCATGAGGCT
* *
18813311 GTGCATTATCTCCATAACAAAAGACTAGGACGAGTTGGCAACTTTGCGTTGAAATTGGATATGAG
130 GTGCATTATCTCCATAACAAAAGACTACGACGAGTTGGCAACTTTGCATTGAAATTGGATATGAG
* *
18813376 TAAGGCCTACAACAGAGTAGAGTGGCCTTTTGTCCATGATATTTTGATTAAGATGGGAT
195 TAAGGCCTACAACAAAGTAGAGTGGCCTTTTGTCCATGATATTTTGATGAAGATGGGAT
18813435 TTCCATAAAT
Statistics
Matches: 233, Mismatches: 19, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
252 1 0.00
253 232 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (253 bp):
ATATAAAGTTGCCTCTAAGGTTATTACTAACAAATTAAAGCAGATTTTGACATTGATTATTTCTG
ATAACCAGAGTGCTTTGTTCCTAGTCTTTTAATTATTGATAATGTCATATTAACCCATGAGGCTG
TGCATTATCTCCATAACAAAAGACTACGACGAGTTGGCAACTTTGCATTGAAATTGGATATGAGT
AAGGCCTACAACAAAGTAGAGTGGCCTTTTGTCCATGATATTTTGATGAAGATGGGAT
Found at i:18822347 original size:2 final size:2
Alignment explanation
Indices: 18822335--18822376 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
18822325 AATAGGCTAG
18822335 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18822375 AT
1 AT
18822377 TATGTTATGA
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.05
2 36 0.95
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18840160 original size:21 final size:22
Alignment explanation
Indices: 18840130--18840175 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
18840120 GGATATGTTC
* *
18840130 ATGCAATTCATGACAAAGATTG
1 ATGCAATTCATAACAAAGACTG
18840152 ATGC-ATTCATAACAAAGACTG
1 ATGCAATTCATAACAAAGACTG
18840173 ATG
1 ATG
18840176 GATTTACGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.26
Consensus pattern (22 bp):
ATGCAATTCATAACAAAGACTG
Found at i:18841699 original size:13 final size:13
Alignment explanation
Indices: 18841663--18841792 Score: 59
Period size: 11 Copynumber: 10.3 Consensus size: 13
18841653 AAATTTTTTT
18841663 AAAAAAA-TTCAA
1 AAAAAAATTTCAA
18841675 AAAAATATATTTCAA
1 AAAAA-A-ATTTCAA
18841690 AAAAAAATTTTCATGTCA
1 AAAAAAA-TTTCA----A
*
18841708 AAAAAATATGTC--
1 AAAAAA-ATTTCAA
**
18841720 AAAAAAA-TT-GG
1 AAAAAAATTTCAA
18841731 AAAAAAATTTC--
1 AAAAAAATTTCAA
18841742 AAAAAAA--T-AA
1 AAAAAAATTTCAA
18841752 AAAAAAA--TCAA
1 AAAAAAATTTCAA
**
18841763 AAAAAAAACTCAA
1 AAAAAAATTTCAA
18841776 AAAAAAATTTCAA
1 AAAAAAATTTCAA
18841789 AAAA
1 AAAA
18841793 CAAGTGGTAA
Statistics
Matches: 96, Mismatches: 4, Indels: 35
0.71 0.03 0.26
Matches are distributed among these distances:
9 1 0.01
10 9 0.09
11 24 0.25
12 13 0.14
13 21 0.22
14 7 0.07
15 10 0.10
18 10 0.10
19 1 0.01
ACGTcount: A:0.68, C:0.08, G:0.03, T:0.21
Consensus pattern (13 bp):
AAAAAAATTTCAA
Found at i:18842104 original size:10 final size:8
Alignment explanation
Indices: 18842077--18842134 Score: 53
Period size: 8 Copynumber: 6.6 Consensus size: 8
18842067 AAAAAAACCC
18842077 TTTTCTTTA
1 TTTT-TTTA
18842086 TTTTTTTA
1 TTTTTTTA
18842094 TTTTTAGTTA
1 TTTTT--TTA
18842104 TTTTTGTTTA
1 -TTTT-TTTA
*
18842114 TTTATTTA
1 TTTTTTTA
*
18842122 TTTATTTA
1 TTTTTTTA
18842130 TTTTT
1 TTTTT
18842135 ACATTAATCT
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
8 25 0.58
9 7 0.16
10 6 0.14
11 4 0.09
12 1 0.02
ACGTcount: A:0.16, C:0.02, G:0.03, T:0.79
Consensus pattern (8 bp):
TTTTTTTA
Found at i:18847435 original size:25 final size:24
Alignment explanation
Indices: 18847407--18847464 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
18847397 ATCAACTAGA
*
18847407 TTGAATTGGAAACTTAGGTTAAACC
1 TTGAATAGGAAACTTAGG-TAAACC
*
18847432 TTGACGA-AGGAAAGTTAGGTAAACC
1 TTGA--ATAGGAAACTTAGGTAAACC
18847457 TTGAATAG
1 TTGAATAG
18847465 AATAGCGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
23 1 0.04
24 2 0.07
25 14 0.50
26 10 0.36
27 1 0.04
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (24 bp):
TTGAATAGGAAACTTAGGTAAACC
Found at i:18859033 original size:15 final size:15
Alignment explanation
Indices: 18859010--18859053 Score: 72
Period size: 15 Copynumber: 2.9 Consensus size: 15
18859000 GATCAGATAT
18859010 TTTGATTTTAAAG-C
1 TTTGATTTTAAAGTC
18859024 TTTAGATTTTAAAGTC
1 TTT-GATTTTAAAGTC
18859040 TTTGATTTTAAAGT
1 TTTGATTTTAAAGT
18859054 TGTTTTAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 3 0.11
15 21 0.75
16 4 0.14
ACGTcount: A:0.30, C:0.05, G:0.14, T:0.52
Consensus pattern (15 bp):
TTTGATTTTAAAGTC
Found at i:18863248 original size:20 final size:20
Alignment explanation
Indices: 18863203--18863240 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
18863193 TTTTTGCCCC
18863203 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
*
18863223 ATTTGATTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
18863241 AGATTTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.03, G:0.21, T:0.47
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:18863330 original size:28 final size:27
Alignment explanation
Indices: 18863293--18863345 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
18863283 TTTGGAGTAA
* *
18863293 AAGGGTAAAATGGTAATTTTGCCACCCC
1 AAGGGCAAAATGATAATTTT-CCACCCC
*
18863321 AAGGGCAAAATTATAATTTTCCACC
1 AAGGGCAAAATGATAATTTTCCACC
18863346 ATCAGGACAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 5 0.23
28 17 0.77
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (27 bp):
AAGGGCAAAATGATAATTTTCCACCCC
Found at i:18866315 original size:29 final size:28
Alignment explanation
Indices: 18866280--18866447 Score: 183
Period size: 29 Copynumber: 5.8 Consensus size: 28
18866270 TTTTAAAATA
* *
18866280 TTTGTCTTCATTTAGACAAGAAAACATG
1 TTTGTCTTAATTTAGACAAGAAAATATG
18866308 TTTGGTCTTAATTTAGACAAGAAAATATG
1 TTT-GTCTTAATTTAGACAAGAAAATATG
* *
18866337 TTTGTCTTAATTTAAGACAATAAAAATATTT
1 TTTGTCTTAATTT-AGACAA-GAAAATA-TG
* * *
18866368 TTTGTCTTAATCTAGACAAGAAAAGATA
1 TTTGTCTTAATTTAGACAAGAAAATATG
* *
18866396 TTTGTCTCAATTTAGACAAGATAAAATATT
1 TTTGTCTTAATTTAGACAAG--AAAATATG
*
18866426 TTTGTCTTAATTAAAGACAAGA
1 TTTGTCTTAATT-TAGACAAGA
18866448 GTTGTCTTAA
Statistics
Matches: 119, Mismatches: 14, Indels: 13
0.82 0.10 0.09
Matches are distributed among these distances:
28 32 0.27
29 38 0.32
30 29 0.24
31 20 0.17
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (28 bp):
TTTGTCTTAATTTAGACAAGAAAATATG
Found at i:18866384 original size:59 final size:57
Alignment explanation
Indices: 18866277--18866436 Score: 196
Period size: 59 Copynumber: 2.8 Consensus size: 57
18866267 CCGTTTTAAA
* * * * * * *
18866277 ATATTTGTCTTCATTTAGACAAGAAAACATGTTTGGTCTTAATTTAGACAAGAAAAT
1 ATATTTGTCTTAATTTAGACAAAAAAATATTTTTTGTCTTAATCTAGACAAGAAAAG
*
18866334 ATGTTTGTCTTAATTTAAGACAATAAAAATATTTTTTGTCTTAATCTAGACAAGAAAAG
1 ATATTTGTCTTAATTT-AGACAA-AAAAATATTTTTTGTCTTAATCTAGACAAGAAAAG
*
18866393 ATATTTGTCTCAATTTAGACAAGATAAAATA-TTTTTGTCTTAAT
1 ATATTTGTCTTAATTTAGACAA-A-AAAATATTTTTTGTCTTAAT
18866437 TAAAGACAAG
Statistics
Matches: 89, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
57 14 0.16
58 26 0.29
59 49 0.55
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (57 bp):
ATATTTGTCTTAATTTAGACAAAAAAATATTTTTTGTCTTAATCTAGACAAGAAAAG
Found at i:18866411 original size:28 final size:27
Alignment explanation
Indices: 18866274--18866447 Score: 177
Period size: 28 Copynumber: 6.0 Consensus size: 27
18866264 TGGCCGTTTT
*
18866274 AAAATATTTGTCTTCATTTAGACAAGA
1 AAAATATTTGTCTTAATTTAGACAAGA
*
18866301 AAACATGTTTGGTCTTAATTTAGACAAGA
1 AAA-ATATTT-GTCTTAATTTAGACAAGA
* *
18866330 AAATATGTTTGTCTTAATTTAAGACAATA
1 AAA-ATATTTGTCTTAATTT-AGACAAGA
*
18866359 AAAATATTTTTTGTCTTAATCTAGACAAGA
1 AAAATA---TTTGTCTTAATTTAGACAAGA
*
18866389 AAAGATATTTGTCTCAATTTAGACAAGA
1 AAA-ATATTTGTCTTAATTTAGACAAGA
*
18866417 TAAAATATTTTTGTCTTAATTAAAGACAAGA
1 -AAAATA--TTTGTCTTAATT-TAGACAAGA
18866448 GTTGTCTTAA
Statistics
Matches: 125, Mismatches: 11, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
27 3 0.02
28 39 0.31
29 39 0.31
30 21 0.17
31 23 0.18
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.37
Consensus pattern (27 bp):
AAAATATTTGTCTTAATTTAGACAAGA
Found at i:18867291 original size:121 final size:122
Alignment explanation
Indices: 18867133--18867380 Score: 444
Period size: 121 Copynumber: 2.0 Consensus size: 122
18867123 TTTTTTTTTT
* *
18867133 TACTTAATAGATTCTTATTTTTTTTAGGATGTGATTATGTTACTTGCAATAAGAATGATGTGTGT
1 TACTTAATAGATTCTTATTTTTTTTAGGATGTAATTATGTTACTTGCAATAAAAATGATGTGTGT
*
18867198 TTTCGCTTATGTAATTGGATTGCTTTCTTCCTTTATAAAGAAATTTTTTGAAATTCA
66 TTTCGCTTATATAATTGGATTGCTTTCTTCCTTTATAAAGAAATTTTTTGAAATTCA
*
18867255 TACTTAATATATTCTTA-TTTTTTTAGGATGTAATTATGTTACTTGCAATAAAAATGATGTGTGT
1 TACTTAATAGATTCTTATTTTTTTTAGGATGTAATTATGTTACTTGCAATAAAAATGATGTGTGT
*
18867319 TTTCGCTTGTATAATTGGATTGCTTTCTTCCTTTATAAAGAAATTTTTTGAAATTCA
66 TTTCGCTTATATAATTGGATTGCTTTCTTCCTTTATAAAGAAATTTTTTGAAATTCA
18867376 TACTT
1 TACTT
18867381 CACACAATCA
Statistics
Matches: 121, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
121 105 0.87
122 16 0.13
ACGTcount: A:0.28, C:0.09, G:0.14, T:0.49
Consensus pattern (122 bp):
TACTTAATAGATTCTTATTTTTTTTAGGATGTAATTATGTTACTTGCAATAAAAATGATGTGTGT
TTTCGCTTATATAATTGGATTGCTTTCTTCCTTTATAAAGAAATTTTTTGAAATTCA
Found at i:18873071 original size:30 final size:30
Alignment explanation
Indices: 18873037--18873123 Score: 174
Period size: 30 Copynumber: 2.9 Consensus size: 30
18873027 ATCTTTATGA
18873037 TATCACATGGTATTTTAGGTTGAAATTTCG
1 TATCACATGGTATTTTAGGTTGAAATTTCG
18873067 TATCACATGGTATTTTAGGTTGAAATTTCG
1 TATCACATGGTATTTTAGGTTGAAATTTCG
18873097 TATCACATGGTATTTTAGGTTGAAATT
1 TATCACATGGTATTTTAGGTTGAAATT
18873124 CTCCACGTTT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 57 1.00
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.44
Consensus pattern (30 bp):
TATCACATGGTATTTTAGGTTGAAATTTCG
Found at i:18873656 original size:23 final size:24
Alignment explanation
Indices: 18873617--18873661 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
18873607 TTTTACAAAA
*
18873617 AGAAAAGGAAAAAAAAAAGAAGAC
1 AGAAAAAGAAAAAAAAAAGAAGAC
18873641 AGAAAAAG-AAAAAAAAAGAAG
1 AGAAAAAGAAAAAAAAAAGAAG
18873662 GAATATGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (24 bp):
AGAAAAAGAAAAAAAAAAGAAGAC
Found at i:18878076 original size:338 final size:336
Alignment explanation
Indices: 18877422--18878094 Score: 1177
Period size: 338 Copynumber: 2.0 Consensus size: 336
18877412 AACAAAAACT
* * *
18877422 AATTTCTACCACATAGGGGTATTTTGATCTTTTACCCTAAAATTTTGAAACTTGGTAAAAATATA
1 AATTTCTACCACACAGGGGTATTTTGATCTTTTACCCGAAAATTTTGAAACTTGCTAAAAATATA
* * *
18877487 GCATATGATTGAAAAATATACATTTCATATCAAAAAATAAATTTAGGTATCTGAATCATCCCTTT
66 ACATATAAATGAAAAATATACATTTCATATCAAAAAATAAATTTAGGTATCTGAATCATCCCTTT
18877552 TAAAATGAAATTATAGCTAATCAAACTAAATAAAAATGTTGAATAAAATATCCCATTTTCATATA
131 TAAAATGAAATTATAGCTAATCAAACTAAATAAAAATGTTGAATAAAATATCCCATTTTCATATA
* *
18877617 AAGCAATATTTATAAAATTCTACGTAAAAAATTATTGTAGCGTAGTAACAAAATAAATTTATATA
196 AAGCAATATTTATAAAATTCTACGTAAAAAATTATTGTAGCGAAATAACAAAATAAATTTATATA
*
18877682 CATAATAGCACACAGCGCCAGGGTATACAAAAATATTCTACAATGACTTGTGAGCCCCAAAATAA
261 CATAATAGCACACAGCGCCAGGGTATACAAAAATATTCTACAATGACATGTGAGCCCCAAAATAA
18877747 CAAAAATAAAA
326 CAAAAATAAAA
* * *
18877758 NAATTTCTATCGCACAGGGGTATTTTGATCTTTTTACTCGAAAATTTTGAAA-TCTGCTAAAAAT
1 -AATTTCTACCACACAGGGGTATTTTGATC-TTTTACCCGAAAATTTTGAAACT-TGCTAAAAAT
*
18877822 ATAATATATAAATGAAAAATATACATTTCATATCAAAAAATAAATTTAGGTATCTGAATCATCCC
63 ATAACATATAAATGAAAAATATACATTTCATATCAAAAAATAAATTTAGGTATCTGAATCATCCC
18877887 TTTTAAAATGAAATTATAGCTAATCAAACTAAATAAAAATGTTGAATAAAATATCCCATTTTCAT
128 TTTTAAAATGAAATTATAGCTAATCAAACTAAATAAAAATGTTGAATAAAATATCCCATTTTCAT
*
18877952 ATAAAGCAATATTTATAAAATTCTACGTAAACAATTATTGTAGCGAAATAACAAAATAAATTTAT
193 ATAAAGCAATATTTATAAAATTCTACGTAAAAAATTATTGTAGCGAAATAACAAAATAAATTTAT
*
18878017 ATACATAATAGCACACAGCGCCAGGGTATACAAAAATATTTTACAATGACATGTGAGCCCCAAAA
258 ATACATAATAGCACACAGCGCCAGGGTATACAAAAATATTCTACAATGACATGTGAGCCCCAAAA
18878082 TAACAAAAATAAA
323 TAACAAAAATAAA
18878095 CAGGATTGTA
Statistics
Matches: 319, Mismatches: 15, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
337 27 0.08
338 292 0.92
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (336 bp):
AATTTCTACCACACAGGGGTATTTTGATCTTTTACCCGAAAATTTTGAAACTTGCTAAAAATATA
ACATATAAATGAAAAATATACATTTCATATCAAAAAATAAATTTAGGTATCTGAATCATCCCTTT
TAAAATGAAATTATAGCTAATCAAACTAAATAAAAATGTTGAATAAAATATCCCATTTTCATATA
AAGCAATATTTATAAAATTCTACGTAAAAAATTATTGTAGCGAAATAACAAAATAAATTTATATA
CATAATAGCACACAGCGCCAGGGTATACAAAAATATTCTACAATGACATGTGAGCCCCAAAATAA
CAAAAATAAAA
Found at i:18883126 original size:19 final size:19
Alignment explanation
Indices: 18883102--18883139 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
18883092 CCATTTGACT
18883102 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
18883121 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
18883140 GTTTAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:18885619 original size:24 final size:24
Alignment explanation
Indices: 18885590--18885635 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
18885580 ATTAAAGTGG
18885590 TATTAGAGCTTTTGGTTTTAAAGA
1 TATTAGAGCTTTTGGTTTTAAAGA
* *
18885614 TATTAGGGCTTTTTGTTTTAAA
1 TATTAGAGCTTTTGGTTTTAAA
18885636 ATTGTTTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.04, G:0.20, T:0.50
Consensus pattern (24 bp):
TATTAGAGCTTTTGGTTTTAAAGA
Found at i:18888220 original size:19 final size:19
Alignment explanation
Indices: 18888193--18888249 Score: 105
Period size: 19 Copynumber: 3.0 Consensus size: 19
18888183 CCATTTGACT
18888193 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
*
18888212 TATTAGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
18888231 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
18888250 GTTTAGAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:18896228 original size:45 final size:45
Alignment explanation
Indices: 18896170--18896263 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 45
18896160 ATTAAATTTA
* *
18896170 AATAATACTAAATAATATTCTTTATTACATTTATTATAGTTAAAT
1 AATAATACTAAATAATATTCTTTATAACATTTATTATACTTAAAT
* *
18896215 AATAATATTAAATAATATTCTTTATAATATTTATTATACTTAAAT
1 AATAATACTAAATAATATTCTTTATAACATTTATTATACTTAAAT
18896260 AATA
1 AATA
18896264 TTAATATATT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.47
Consensus pattern (45 bp):
AATAATACTAAATAATATTCTTTATAACATTTATTATACTTAAAT
Found at i:18896230 original size:10 final size:10
Alignment explanation
Indices: 18896215--18896293 Score: 58
Period size: 10 Copynumber: 7.9 Consensus size: 10
18896205 ATAGTTAAAT
18896215 AATAATATTA
1 AATAATATTA
*
18896225 AATAATATTCTT
1 AATAATA-T-TA
*
18896237 TATAATATT-
1 AATAATATTA
* *
18896246 TATTATACTTA
1 AATAATA-TTA
18896257 AATAATATT-
1 AATAATATTA
18896266 AAT-ATATTA
1 AATAATATTA
18896275 AATAATATTTA
1 AATAATA-TTA
18896286 AAT-ATATT
1 AATAATATT
18896294 CATTTTCTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
8 5 0.09
9 14 0.25
10 18 0.32
11 13 0.23
12 7 0.12
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (10 bp):
AATAATATTA
Found at i:18896282 original size:12 final size:11
Alignment explanation
Indices: 18896209--18896293 Score: 58
Period size: 9 Copynumber: 8.1 Consensus size: 11
18896199 TTTATTATAG
18896209 TTAAATAATAAT
1 TTAAATAAT-AT
18896221 ATTAAATAATAT
1 -TTAAATAATAT
**
18896233 TCTTTATAATAT
1 T-TAAATAATAT
* *
18896245 TT--ATTATAC
1 TTAAATAATAT
18896254 TTAAATAATA-
1 TTAAATAATAT
18896264 TT-AAT-ATA-
1 TTAAATAATAT
18896272 TTAAATAATAT
1 TTAAATAATAT
18896283 TTAAAT-ATAT
1 TTAAATAATAT
18896293 T
1 T
18896294 CATTTTCTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
8 5 0.08
9 13 0.21
10 10 0.16
11 13 0.21
12 11 0.18
13 9 0.15
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.48
Consensus pattern (11 bp):
TTAAATAATAT
Found at i:18896291 original size:20 final size:19
Alignment explanation
Indices: 18896238--18896293 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 19
18896228 AATATTCTTT
*
18896238 ATAATATTTATTATACTTAA
1 ATAATATTTAATATA-TTAA
18896258 ATAATA-TTAATATATTAA
1 ATAATATTTAATATATTAA
18896276 ATAATATTTAAATATATT
1 ATAATATTT-AATATATT
18896294 CATTTTCTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 10 0.30
19 9 0.27
20 14 0.42
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
ATAATATTTAATATATTAA
Found at i:18896666 original size:13 final size:13
Alignment explanation
Indices: 18896648--18896672 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18896638 TTAATTTAAC
18896648 CATTCTTGCATTG
1 CATTCTTGCATTG
18896661 CATTCTTGCATT
1 CATTCTTGCATT
18896673 ATTCGCATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.24, G:0.12, T:0.48
Consensus pattern (13 bp):
CATTCTTGCATTG
Found at i:18900377 original size:22 final size:23
Alignment explanation
Indices: 18900325--18900382 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 23
18900315 GATTGGTATC
*
18900325 AGAGCTTTTGGTTTTAAAGATCA
1 AGAGCTTTTGGATTTAAAGATCA
18900348 A-AGCTTTTGGATTTAAAGAT-A
1 AGAGCTTTTGGATTTAAAGATCA
*
18900369 AGAG-TTTTTGATTT
1 AGAGCTTTTGGATTT
18900383 TGAAGTTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 11 0.34
22 20 0.62
23 1 0.03
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (23 bp):
AGAGCTTTTGGATTTAAAGATCA
Found at i:18927637 original size:17 final size:17
Alignment explanation
Indices: 18927615--18927649 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
18927605 AATAAAATAT
18927615 GCACACACTAAGGGGGA
1 GCACACACTAAGGGGGA
*
18927632 GCACACACTTAGGGGGA
1 GCACACACTAAGGGGGA
18927649 G
1 G
18927650 GTAAACTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.23, G:0.37, T:0.09
Consensus pattern (17 bp):
GCACACACTAAGGGGGA
Found at i:18929216 original size:22 final size:22
Alignment explanation
Indices: 18929185--18929232 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
18929175 GAAGGGAAAG
* *
18929185 GAAGAGAGGAAGCGACGGTGGT
1 GAAGAAAGGAAGCCACGGTGGT
18929207 GAAGAAAGGAAGCCACGGTGGT
1 GAAGAAAGGAAGCCACGGTGGT
18929229 GAAG
1 GAAG
18929233 GGAGTGACGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.35, C:0.10, G:0.46, T:0.08
Consensus pattern (22 bp):
GAAGAAAGGAAGCCACGGTGGT
Found at i:18929292 original size:16 final size:17
Alignment explanation
Indices: 18929271--18929308 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
18929261 CGTGGAGGAG
18929271 AGAAAAAGAAA-GAAAA
1 AGAAAAAGAAATGAAAA
*
18929287 AG-AAAAGAAATGAAAT
1 AGAAAAAGAAATGAAAA
18929303 AGAAAA
1 AGAAAA
18929309 TAAGTGGGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 8 0.42
16 8 0.42
17 3 0.16
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.05
Consensus pattern (17 bp):
AGAAAAAGAAATGAAAA
Found at i:18929341 original size:31 final size:32
Alignment explanation
Indices: 18929298--18929357 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
18929288 GAAAAGAAAT
* *
18929298 GAAATAGAAAATAAGTGGGCATGGCCCAACAG
1 GAAATAGAAAATAAATGGGCATAGCCCAACAG
*
18929330 GAAATA-AAAATAAATGGGCTTAGCCCAA
1 GAAATAGAAAATAAATGGGCATAGCCCAA
18929358 ATAAGAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 19 0.76
32 6 0.24
ACGTcount: A:0.47, C:0.15, G:0.23, T:0.15
Consensus pattern (32 bp):
GAAATAGAAAATAAATGGGCATAGCCCAACAG
Found at i:18931554 original size:13 final size:13
Alignment explanation
Indices: 18931536--18931560 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18931526 TTCCAGAAAA
18931536 TTTATAAAATCAT
1 TTTATAAAATCAT
18931549 TTTATAAAATCA
1 TTTATAAAATCA
18931561 CAATTTCTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:18949822 original size:180 final size:180
Alignment explanation
Indices: 18949497--18949822 Score: 378
Period size: 181 Copynumber: 1.8 Consensus size: 180
18949487 CTGTATCTTT
* *
18949497 AGGAATTTAATTCCAATAAAATTTATCCTGATAGATAACTCATGGAACTATTCCAGAATAAATTT
1 AGGAATTTAATTCCAATAAAATTTATCCTGATAGAAAACTCATGGAACAATTCCAGAATAAATTT
* *** * *
18949562 TCAGGATTTTAGGAGGTGTTTTTGGCTGTCAAAAAAAAATCAAAATCGTGACCTTTATCTGTAGA
66 TCAAGATTTTAGGAACAGTTTTTAGCTGTCAAAAAAAAATCAAAACCGTGACCTTTATCTGTAGA
****
18949627 GGCAGTTTTAGTTTTGTCTTTCTTTCAAAGCTATTTGGTGGCATAAAATC
131 GGCAGCAACAGTTTTGTCTTTCTTTCAAAGCTATTTGGTGGCATAAAATC
* * * *
18949677 AGGAATTTAATTCCCAATTAAATTT-TCCTTGATAGAAAACTTATGGAACAATTCCATAGT-AAT
1 AGGAATTTAATT-CCAATAAAATTTATCC-TGATAGAAAACTCATGGAACAATTCCAGAATAAAT
* *
18949740 TTTCCAAGATTTTAGGAAACAG-TTTTAGCTGTC-AAAAAAATTCAAAACCGTG-GC-TTA-CTG
64 TTT-CAAGATTTTAGG-AACAGTTTTTAGCTGTCAAAAAAAAATCAAAACCGTGACCTTTATCTG
18949800 CTACAGAGGCAGCAACAGTTTTG
127 -T--AGAGGCAGCAACAGTTTTG
18949823 ACTCCACCAA
Statistics
Matches: 121, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
177 3 0.02
178 4 0.03
179 1 0.01
180 53 0.44
181 58 0.48
182 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (180 bp):
AGGAATTTAATTCCAATAAAATTTATCCTGATAGAAAACTCATGGAACAATTCCAGAATAAATTT
TCAAGATTTTAGGAACAGTTTTTAGCTGTCAAAAAAAAATCAAAACCGTGACCTTTATCTGTAGA
GGCAGCAACAGTTTTGTCTTTCTTTCAAAGCTATTTGGTGGCATAAAATC
Found at i:18954286 original size:15 final size:14
Alignment explanation
Indices: 18954266--18954316 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 14
18954256 TTCTTAAAAC
18954266 AACTTTAAAATCGAA
1 AACTTTAAAATC-AA
18954281 AACTTTAAAATCCAA
1 AACTTTAAAAT-CAA
*
18954296 AGCTTTAAAATCAA
1 AACTTTAAAATCAA
18954310 AATCTTT
1 AA-CTTT
18954317 GATCTTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 4 0.12
15 27 0.84
16 1 0.03
ACGTcount: A:0.49, C:0.16, G:0.04, T:0.31
Consensus pattern (14 bp):
AACTTTAAAATCAA
Found at i:18958067 original size:2 final size:2
Alignment explanation
Indices: 18958060--18958086 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18958050 TGGATGTTTT
18958060 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
18958087 CTTTCCATAA
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:18962169 original size:34 final size:35
Alignment explanation
Indices: 18962132--18962243 Score: 147
Period size: 34 Copynumber: 3.2 Consensus size: 35
18962122 TGGTTGTCAA
* *
18962132 TTTTGAGGGTGAAATGAGCAGCTTTGGTTGCTGATT
1 TTTTGAGGGTAAAATGAGCAGCTTTGGCTGCTGA-T
* * *
18962168 TTTTG-GGCTAAAATGAGCAGCTTTGGCTGTTAAT
1 TTTTGAGGGTAAAATGAGCAGCTTTGGCTGCTGAT
*
18962202 TTTTG-GGCTAAAATGAGCAGCTTTGGCTGCTGAT
1 TTTTGAGGGTAAAATGAGCAGCTTTGGCTGCTGAT
18962236 TTTTGAGG
1 TTTTGAGG
18962244 TTGAAAGGAG
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
34 38 0.56
35 25 0.37
36 5 0.07
ACGTcount: A:0.21, C:0.11, G:0.30, T:0.38
Consensus pattern (35 bp):
TTTTGAGGGTAAAATGAGCAGCTTTGGCTGCTGAT
Found at i:18962189 original size:35 final size:35
Alignment explanation
Indices: 18962143--18962239 Score: 160
Period size: 34 Copynumber: 2.8 Consensus size: 35
18962133 TTTGAGGGTG
*
18962143 AAATGAGCAGCTTTGGTTGCTGATTTTTTGGGCTA
1 AAATGAGCAGCTTTGGCTGCTGATTTTTTGGGCTA
* *
18962178 AAATGAGCAGCTTTGGCTG-TTAATTTTTGGGCTA
1 AAATGAGCAGCTTTGGCTGCTGATTTTTTGGGCTA
18962212 AAATGAGCAGCTTTGGCTGCTGATTTTT
1 AAATGAGCAGCTTTGGCTGCTGATTTTT
18962240 GAGGTTGAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
34 32 0.57
35 24 0.43
ACGTcount: A:0.22, C:0.12, G:0.27, T:0.39
Consensus pattern (35 bp):
AAATGAGCAGCTTTGGCTGCTGATTTTTTGGGCTA
Found at i:18962342 original size:14 final size:14
Alignment explanation
Indices: 18962323--18962360 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
18962313 TGTAAGGAAG
18962323 GAAAAGAAAAAGAA
1 GAAAAGAAAAAGAA
*
18962337 GAAAAGAAAGAGAA
1 GAAAAGAAAAAGAA
18962351 G-AAAGAAAAA
1 GAAAAGAAAAA
18962361 AGAAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
GAAAAGAAAAAGAA
Found at i:18963642 original size:41 final size:41
Alignment explanation
Indices: 18963586--18963698 Score: 156
Period size: 41 Copynumber: 2.8 Consensus size: 41
18963576 TGGCACTAGC
18963586 TGTGCACGATGTGGGGGGATGCACATGATGATGATATCGCT
1 TGTGCACGATGTGGGGGGATGCACATGATGATGATATCGCT
* * * * *
18963627 TGTGCACGATTTGGGGGGATGCATA-AAGCGATGATATTGCT
1 TGTGCACGATGTGGGGGGATGCACATGA-TGATGATATCGCT
*
18963668 TGTGCATGATGTGGGGGGATGCACATGATGA
1 TGTGCACGATGTGGGGGGATGCACATGATGA
18963699 CTTTGGCTAT
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
40 1 0.02
41 58 0.97
42 1 0.02
ACGTcount: A:0.23, C:0.12, G:0.37, T:0.27
Consensus pattern (41 bp):
TGTGCACGATGTGGGGGGATGCACATGATGATGATATCGCT
Found at i:18964465 original size:2 final size:2
Alignment explanation
Indices: 18964458--18964487 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
18964448 ATTTGTTAAA
*
18964458 AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
18964488 TATGGTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18967823 original size:43 final size:43
Alignment explanation
Indices: 18967665--18967824 Score: 149
Period size: 43 Copynumber: 3.7 Consensus size: 43
18967655 GTAATGACAT
* * * * *** *
18967665 TGACTCAGCTATGTGCGAGTAAGGAGTGCACATGGGCCGAGGA
1 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCATAACCCGATGA
* ** * *
18967708 TGACCCGGTTATGTGCGAGTACGGAGTGTGCATAACCCGATGA
1 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCATAACCCGATGA
** * * *
18967751 TGACCCAGTTATGTGTGAGTAGGGAGTGCGCATAACTCGGTGA
1 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCATAACCCGATGA
*
18967794 TGACCTAGCCATGTGCGAGTAGGGAGTGCGC
1 TGACCCAGCCATGTGCGAGTAGGGAGTGCGC
18967825 TTGAGCTGGG
Statistics
Matches: 97, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 97 1.00
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.22
Consensus pattern (43 bp):
TGACCCAGCCATGTGCGAGTAGGGAGTGCGCATAACCCGATGA
Found at i:18967844 original size:3 final size:3
Alignment explanation
Indices: 18967836--18967899 Score: 55
Period size: 3 Copynumber: 22.0 Consensus size: 3
18967826 TGAGCTGGGA
* *
18967836 ATG ATG ATG ATG -TG ATG GTG -TG TATG ATG ATG ATG ATG ATG -GG
1 ATG ATG ATG ATG ATG ATG ATG ATG -ATG ATG ATG ATG ATG ATG ATG
*
18967879 ATG GTG -TG CATG ATG ATG ATG
1 ATG ATG ATG -ATG ATG ATG ATG
18967900 GGTATATGGT
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
2 7 0.14
3 40 0.78
4 4 0.08
ACGTcount: A:0.25, C:0.02, G:0.39, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:18967876 original size:29 final size:29
Alignment explanation
Indices: 18967836--18967899 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
18967826 TGAGCTGGGA
* *
18967836 ATGATGATGATGTGATGGTGTGTATGATG
1 ATGATGATGATGGGATGGTGTGCATGATG
18967865 ATGATGATGATGGGATGGTGTGCATGATG
1 ATGATGATGATGGGATGGTGTGCATGATG
18967894 ATGATG
1 ATGATG
18967900 GGTATATGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.25, C:0.02, G:0.39, T:0.34
Consensus pattern (29 bp):
ATGATGATGATGGGATGGTGTGCATGATG
Found at i:18971953 original size:92 final size:91
Alignment explanation
Indices: 18971789--18972023 Score: 283
Period size: 92 Copynumber: 2.6 Consensus size: 91
18971779 GAAAGAAAAG
** *
18971789 GCTAATTTTTTAAGGCTAAAAGGAGCAGCTTTGGCTGCTGATTTTTGAGGTTTTGGTTGCCGGTT
1 GCTAA-TTTTTAAGGCTAAAAGGAGCAGCTTTGGCTATTGATTTTTGAGGTTTTGGTTGCCGATT
* *
18971854 TTGAGGGTGAGATGAACAGCTTTGGCTA
65 TTGAGGGTGAAATGAACAACTTTGGC-A
* * *
18971882 -CTAATTTTTAAAGGTTGAAAGGAGCAGCTTTGGCTATTGATTTTTGAGGTTTTGGTTGTCGATT
1 GCTAATTTTT-AAGGCTAAAAGGAGCAGCTTTGGCTATTGATTTTTGAGGTTTTGGTTGCCGATT
* *
18971946 TTTAGGGTGAAATGAGCAACTTTGGCA
65 TTGAGGGTGAAATGAACAACTTTGGCA
* ** * * * *
18971973 GCTGATTTTTGGGGCTAAAATGAGCAACTTTGGTTATTTATTTTTGAGGTT
1 GCTAATTTTTAAGGCTAAAAGGAGCAGCTTTGGCTATTGATTTTTGAGGTT
18972024 GAAATGAGCA
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
91 39 0.32
92 82 0.68
ACGTcount: A:0.22, C:0.10, G:0.29, T:0.40
Consensus pattern (91 bp):
GCTAATTTTTAAGGCTAAAAGGAGCAGCTTTGGCTATTGATTTTTGAGGTTTTGGTTGCCGATTT
TGAGGGTGAAATGAACAACTTTGGCA
Found at i:18972029 original size:35 final size:35
Alignment explanation
Indices: 18971942--18972033 Score: 98
Period size: 35 Copynumber: 2.7 Consensus size: 35
18971932 TTTGGTTGTC
*
18971942 GATTTTT-AGGGTGAAATGAGCAACTTTGGCAGCT
1 GATTTTTGAGGCTGAAATGAGCAACTTTGGCAGCT
* * * *
18971976 GATTTTTGGGGCTAAAATGAGCAACTTTGGTTA-TT
1 GATTTTTGAGGCTGAAATGAGCAACTTTGG-CAGCT
* *
18972011 TATTTTTGAGGTTGAAATGAGCA
1 GATTTTTGAGGCTGAAATGAGCA
18972034 GAAATTTGCT
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
34 7 0.15
35 39 0.83
36 1 0.02
ACGTcount: A:0.27, C:0.09, G:0.27, T:0.37
Consensus pattern (35 bp):
GATTTTTGAGGCTGAAATGAGCAACTTTGGCAGCT
Found at i:18973329 original size:38 final size:40
Alignment explanation
Indices: 18973286--18973437 Score: 145
Period size: 41 Copynumber: 3.8 Consensus size: 40
18973276 TGATATTGCC
18973286 CTTGTGCACGATGTGGGGGGATGCACACGATG-GCAT-TAG
1 CTTGTGCACGATGTGGGGGGATGCACACGATGAG-ATATAG
* * *
18973325 -TTGTGCACTATGT-GGAGGATGCACACGATGATGATATCG
1 CTTGTGCACGATGTGGGGGGATGCACACGATGA-GATATAG
* *
18973364 CTTGTGCACGATGTGGGGGGATGCATAAAGCGAT--GATATTG
1 CTTGTGCACGATGTGGGGGGATGC--ACA-CGATGAGATATAG
* * *
18973405 CTTGTGCATGATGTTGAGGGATGCACACGATGA
1 CTTGTGCACGATGTGGGGGGATGCACACGATGA
18973438 CTCCAGCTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 19
0.75 0.09 0.16
Matches are distributed among these distances:
37 16 0.17
38 18 0.20
39 5 0.05
40 12 0.13
41 35 0.38
43 2 0.02
44 4 0.04
ACGTcount: A:0.24, C:0.15, G:0.35, T:0.26
Consensus pattern (40 bp):
CTTGTGCACGATGTGGGGGGATGCACACGATGAGATATAG
Found at i:18973503 original size:54 final size:53
Alignment explanation
Indices: 18973439--18973598 Score: 216
Period size: 54 Copynumber: 3.0 Consensus size: 53
18973429 ACACGATGAC
* *
18973439 TCCAGCTATGTGCATC-ATGTGGGCAGATGCACATGAGCTAGGTGAGATGGGGTG
1 TCCAGCTATGTGCA-CAATGTGGG-GGATGCACATGAGCTGGGTGAGATGGGGTG
* *
18973493 TCCAGCTATGTGCACGATGTGGGGGAATGCACATGAGCTGGGTGAGACGGGGTG
1 TCCAGCTATGTGCACAATGTGGGGG-ATGCACATGAGCTGGGTGAGATGGGGTG
*
18973547 TCC-GACTATGTGCACAATATGGGGGGATGCACATGAGCTGGGTGAGATGGGG
1 TCCAG-CTATGTGCACAATGT-GGGGGATGCACATGAGCTGGGTGAGATGGGG
18973599 GTGTATGTGC
Statistics
Matches: 96, Mismatches: 6, Indels: 8
0.87 0.05 0.07
Matches are distributed among these distances:
53 3 0.03
54 88 0.92
55 5 0.05
ACGTcount: A:0.22, C:0.16, G:0.40, T:0.22
Consensus pattern (53 bp):
TCCAGCTATGTGCACAATGTGGGGGATGCACATGAGCTGGGTGAGATGGGGTG
Found at i:18976903 original size:21 final size:21
Alignment explanation
Indices: 18976877--18976933 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
18976867 AGAAGGTTTC
18976877 TCGCTGCAGCGAAATTCAATA
1 TCGCTGCAGCGAAATTCAATA
*
18976898 TCGCTGCAGCGAAATTCAATC
1 TCGCTGCAGCGAAATTCAATA
18976919 TCGCTGCAGCGAAAT
1 TCGCTGCAGCGAAAT
18976934 CGCAACCCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (21 bp):
TCGCTGCAGCGAAATTCAATA
Found at i:18976957 original size:81 final size:82
Alignment explanation
Indices: 18976817--18976990 Score: 214
Period size: 81 Copynumber: 2.1 Consensus size: 82
18976807 AGAAAGTTTT
** * * * *
18976817 TCGCTGCAGC-AAGATTCTTTCTCGCTGCGACGAAATTGTAACCCAGAAACAGAAGGTTTCTCGC
1 TCGCTGCAGCGAAGATTCAATCTCGCTGCGACGAAATCGCAACCCAAAAACAGAAAGTTTCTCGC
*
18976881 TGCAGCGA-AAT-TCAATA
66 TGCAACGAGAATGT--ATA
18976898 TCGCTGCAGCGAA-ATTCAATCTCGCTGC-AGCGAAATCGCAACCCAAAAACAGAAAGTTTCTCG
1 TCGCTGCAGCGAAGATTCAATCTCGCTGCGA-CGAAATCGCAACCCAAAAACAGAAAGTTTCTCG
*
18976961 CTGCAACGAGAATGTATT
65 CTGCAACGAGAATGTATA
18976979 TCGCTGCAGCGA
1 TCGCTGCAGCGA
18976991 GAAGCTACAG
Statistics
Matches: 81, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
80 1 0.01
81 74 0.91
82 5 0.06
83 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (82 bp):
TCGCTGCAGCGAAGATTCAATCTCGCTGCGACGAAATCGCAACCCAAAAACAGAAAGTTTCTCGC
TGCAACGAGAATGTATA
Found at i:18977389 original size:43 final size:43
Alignment explanation
Indices: 18977342--18977449 Score: 128
Period size: 43 Copynumber: 2.5 Consensus size: 43
18977332 ACTAGCTCAC
** * **
18977342 GCGCACTCCCTACTCGCACATGGCTGGGTCAT-CTCCGGGTTAT
1 GCGCACTCCCTACTCGCACATAACAGGGTCATCCT-CGGCCTAT
* *
18977385 GCGCACTCTCTATTCGCACATAACAGGGTCATCCTCGGCCTAT
1 GCGCACTCCCTACTCGCACATAACAGGGTCATCCTCGGCCTAT
*
18977428 GCGCACTCCTTACTCGCACATA
1 GCGCACTCCCTACTCGCACATA
18977450 GCCGAGTCAA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 52 0.96
44 2 0.04
ACGTcount: A:0.19, C:0.36, G:0.20, T:0.25
Consensus pattern (43 bp):
GCGCACTCCCTACTCGCACATAACAGGGTCATCCTCGGCCTAT
Found at i:18980046 original size:35 final size:35
Alignment explanation
Indices: 18979978--18980059 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 35
18979968 AATGACGTCA
** *
18979978 AATGTAACCTTTGCAACATGCCTTTAAATAAGATC
1 AATGTAACCTTCACAACATGCCTTTAAACAAGATC
* **
18980013 AATGTAACCTTCATAACATGCCTTTTCACAAGATC
1 AATGTAACCTTCACAACATGCCTTTAAACAAGATC
*
18980048 AAGCGTAACCTT
1 AA-TGTAACCTT
18980060 AACCAAAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
35 31 0.79
36 8 0.21
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.30
Consensus pattern (35 bp):
AATGTAACCTTCACAACATGCCTTTAAACAAGATC
Found at i:18980679 original size:63 final size:63
Alignment explanation
Indices: 18980576--18980709 Score: 164
Period size: 63 Copynumber: 2.1 Consensus size: 63
18980566 ATGAGTTGTC
*
18980576 GGTTCTTCATAAAGTCTGGAACTTTTTATCATTAAAGAATCAATTCTTCTTTTCTGAA-ATGTT
1 GGTTCTTCATAAAGTCTGGAACTTTTTATCATTAAAGAATCAATTCTTCTTTCCT-AAGATGTT
* * ** * *
18980639 GGTTCTTCATAAAGTCTGGAACTTTTTGT-TTCTAGGGAATCCATTTTTCTTTCCTAAGATGTT
1 GGTTCTTCATAAAGTCTGGAACTTTTTATCAT-TAAAGAATCAATTCTTCTTTCCTAAGATGTT
*
18980702 AGTTCTTC
1 GGTTCTTC
18980710 CTCAACTTAG
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
62 3 0.05
63 58 0.95
ACGTcount: A:0.24, C:0.16, G:0.15, T:0.46
Consensus pattern (63 bp):
GGTTCTTCATAAAGTCTGGAACTTTTTATCATTAAAGAATCAATTCTTCTTTCCTAAGATGTT
Found at i:19002770 original size:20 final size:20
Alignment explanation
Indices: 19002745--19002790 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
19002735 TTTTGACCCC
19002745 ATTTGACTTATT-AGAGTATA
1 ATTTGACTTATTGA-AGTATA
*
19002765 ATTTGACTTATTGAAGTATG
1 ATTTGACTTATTGAAGTATA
19002785 ATTTGA
1 ATTTGA
19002791 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGAAGTATA
Found at i:19002866 original size:28 final size:27
Alignment explanation
Indices: 19002835--19002887 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
19002825 TTTGGAGTAT
*
19002835 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTT-CCACCTC
*
19002863 AGGGGCAAAATTGTAATTTTCCACC
1 AGGGGCAAAATGGTAATTTTCCACC
19002888 ACCAGGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (27 bp):
AGGGGCAAAATGGTAATTTTCCACCTC
Found at i:19002893 original size:28 final size:28
Alignment explanation
Indices: 19002835--19002893 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
19002825 TTTGGAGTAT
* *
19002835 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTTGCCACCCC
*
19002863 AGGGGCAAAATTGTAATTTT-CCACCACC
1 AGGGGCAAAATGGTAATTTTGCCACC-CC
19002891 AGG
1 AGG
19002894 ATATTTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (28 bp):
AGGGGCAAAATGGTAATTTTGCCACCCC
Found at i:19007075 original size:36 final size:36
Alignment explanation
Indices: 19007009--19007139 Score: 190
Period size: 36 Copynumber: 3.6 Consensus size: 36
19006999 TGGTGGTGTA
19007009 CGGTGTGGGAGTGCACACGATGATGATATATGCCATGTG
1 CGGTGTGGGAGTG--CAC-ATGATGATATATGCCATGTG
* *
19007048 CGCTGTGGCAGTGCACATGATGATATATGCCATGTG
1 CGGTGTGGGAGTGCACATGATGATATATGCCATGTG
* * *
19007084 CGGTTTGGGAGTGCACATGATGATATTTGCCATGTA
1 CGGTGTGGGAGTGCACATGATGATATATGCCATGTG
19007120 CGGTGTGGGAGTGCACATGA
1 CGGTGTGGGAGTGCACATGA
19007140 GCTGAGTTGA
Statistics
Matches: 84, Mismatches: 8, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
36 70 0.83
37 3 0.04
39 11 0.13
ACGTcount: A:0.22, C:0.16, G:0.34, T:0.27
Consensus pattern (36 bp):
CGGTGTGGGAGTGCACATGATGATATATGCCATGTG
Found at i:19007812 original size:28 final size:29
Alignment explanation
Indices: 19007771--19007830 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
19007761 GTCTATGGGC
*
19007771 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
19007799 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
19007829 AA
1 AA
19007831 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:19014465 original size:30 final size:28
Alignment explanation
Indices: 19014416--19014472 Score: 78
Period size: 30 Copynumber: 2.0 Consensus size: 28
19014406 TATGGGCAAA
*
19014416 TTTTCAATTTTTTGGGCAAAAATGTAAT
1 TTTTCAATTTTTGGGGCAAAAATGTAAT
*
19014444 TTTTCAATTTTATGGGGGCAAAAGTGTAA
1 TTTTCAATTTT-T-GGGGCAAAAATGTAA
19014473 ATTTCAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 11 0.44
29 1 0.04
30 13 0.52
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (28 bp):
TTTTCAATTTTTGGGGCAAAAATGTAAT
Found at i:19014748 original size:26 final size:26
Alignment explanation
Indices: 19014692--19014750 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
19014682 GGCCGGCCAT
* *
19014692 AAGGAAAGAACAAGAGAGAAAATAGA
1 AAGGAAAGAACAAAAGAGAAAATACA
* *
19014718 GAGGAAAGGAAGAAAAGAGAAAA-ACA
1 AAGGAAA-GAACAAAAGAGAAAATACA
19014744 AAGGAAA
1 AAGGAAA
19014751 ACTAGAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.66, C:0.03, G:0.29, T:0.02
Consensus pattern (26 bp):
AAGGAAAGAACAAAAGAGAAAATACA
Found at i:19024636 original size:72 final size:72
Alignment explanation
Indices: 19024528--19024696 Score: 187
Period size: 72 Copynumber: 2.3 Consensus size: 72
19024518 AGCAAAATTT
* * * * * * * * **
19024528 CATTCTCGCTCCAGTGAGAAACTCTAGGGTGCTGGGGCTTGACTAGCTCATATTTTTGCTGTAGT
1 CATTCTCACTACAGCGAGAAACTCTAGAGTGCTGGGGCTTGACTAGCCCAGATTTTCGCTGCAAC
19024593 GAAAATG
66 GAAAATG
* * * *
19024600 CATTCTC-CTTGCAGCGAGAAACTCTCGAGTGTTGGGGTTTGACTAGCCCAGATTTTCGCTGCAA
1 CATTCTCAC-TACAGCGAGAAACTCTAGAGTGCTGGGGCTTGACTAGCCCAGATTTTCGCTGCAA
19024664 CGAAAATG
65 CGAAAATG
*
19024672 CATTCTCACTACAGCAAGAAACTCT
1 CATTCTCACTACAGCGAGAAACTCT
19024697 TAGGTGGTTG
Statistics
Matches: 81, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
71 1 0.01
72 79 0.98
73 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (72 bp):
CATTCTCACTACAGCGAGAAACTCTAGAGTGCTGGGGCTTGACTAGCCCAGATTTTCGCTGCAAC
GAAAATG
Found at i:19042072 original size:5 final size:5
Alignment explanation
Indices: 19042062--19042086 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
19042052 CTTGTTATTG
19042062 TAAAT TAAAT TAAAT TAAAT TAAAT
1 TAAAT TAAAT TAAAT TAAAT TAAAT
19042087 ATTTTGGCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAAAT
Found at i:19042618 original size:22 final size:22
Alignment explanation
Indices: 19042590--19042652 Score: 108
Period size: 22 Copynumber: 2.9 Consensus size: 22
19042580 TATTGGTACC
19042590 AGAGCTTTTGGTTTTAAAGATA
1 AGAGCTTTTGGTTTTAAAGATA
19042612 AGAGCTTTTGGTTTTAAAGATA
1 AGAGCTTTTGGTTTTAAAGATA
* *
19042634 AGAGTTTTTTGTTTTAAAG
1 AGAGCTTTTGGTTTTAAAG
19042653 TGGTTTTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.30, C:0.03, G:0.22, T:0.44
Consensus pattern (22 bp):
AGAGCTTTTGGTTTTAAAGATA
Found at i:19070648 original size:28 final size:29
Alignment explanation
Indices: 19070607--19070666 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
19070597 GTCTATGGGC
*
19070607 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
19070635 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
19070665 AA
1 AA
19070667 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:19090957 original size:43 final size:42
Alignment explanation
Indices: 19090882--19091008 Score: 173
Period size: 43 Copynumber: 3.0 Consensus size: 42
19090872 TTGTGTGGTA
* *
19090882 ATGATGACCCAGCTATGTGCGTGTGGGAGTGCACATGAGTTG
1 ATGATGACCCAGTTATGTGCGTGTGGGAGTGCACATGAGCTG
* *
19090924 ATGATGACCCAGTTTTGTGTGCTGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAGTTATGTGCG-TGTGGGAGTGCACATGAGCTG
** *
19090967 ATGATGAGTCAGTTATGTGCGAGTAGGGAGTGCACATGAGCT
1 ATGATGACCCAGTTATGTGCGTGT-GGGAGTGCACATGAGCT
19091009 AAAGATAATG
Statistics
Matches: 74, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
42 20 0.27
43 54 0.73
ACGTcount: A:0.22, C:0.15, G:0.35, T:0.28
Consensus pattern (42 bp):
ATGATGACCCAGTTATGTGCGTGTGGGAGTGCACATGAGCTG
Found at i:19091048 original size:2 final size:2
Alignment explanation
Indices: 19091041--19091073 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
19091031 TGATGATGTG
19091041 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19091074 GTGTGTGTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19099490 original size:28 final size:27
Alignment explanation
Indices: 19099458--19099511 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
19099448 ATATGGAGTA
*
19099458 TAGGGGCGAAATGGTAATTTTGCCACCT
1 TAGGGGCAAAATGGTAATTTT-CCACCT
*
19099486 TAGGGGCAAAATTGTAATTTTCCACC
1 TAGGGGCAAAATGGTAATTTTCCACC
19099512 ACCAGGACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.30
Consensus pattern (27 bp):
TAGGGGCAAAATGGTAATTTTCCACCT
Found at i:19105252 original size:20 final size:21
Alignment explanation
Indices: 19105210--19105252 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
19105200 ACATATATAT
*
19105210 ATGAATATATGTTGTCCATTG
1 ATGAATATATGTTGTCCAATG
*
19105231 ATGAATA-ATGTTGTGCAATG
1 ATGAATATATGTTGTCCAATG
19105251 AT
1 AT
19105253 ATCGACCCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.40
Consensus pattern (21 bp):
ATGAATATATGTTGTCCAATG
Found at i:19108556 original size:68 final size:68
Alignment explanation
Indices: 19108408--19108715 Score: 353
Period size: 68 Copynumber: 4.6 Consensus size: 68
19108398 TAAGGTAAAG
* * *
19108408 GGAATTTACATCATATACATAATCTCATGGCATT--T-ATGCTTACCTAATCACCTCA-GTAGTA
1 GGAATTTACATCATATACATAATCTCATGGCATTAATCATGCATACTTAATCACCTCATATAGTA
19108469 TAT
66 TAT
* * * * *
19108472 AGAATATACATCATATACATATTCTCATGGCATTAATCATGCATACTTAATCATCTCATGTAGTA
1 GGAATTTACATCATATACATAATCTCATGGCATTAATCATGCATACTTAATCACCTCATATAGTA
19108537 TAT
66 TAT
* * * *
19108540 GGAATATACATCATATACATATTCTCATGGCATTAATCATGCATACATAATCACCTCATATGGTA
1 GGAATTTACATCATATACATAATCTCATGGCATTAATCATGCATACTTAATCACCTCATATAGTA
19108605 TAT
66 TAT
* * * *
19108608 GGAATTTACATCATATACACAATC-CTAT-AC-TATACATCATGCATACTTGATCATCTCATAT-
1 GGAATTTACATCATATACATAATCTC-ATGGCAT-TA-ATCATGCATACTTAATCACCTCATATA
19108669 GATATAT
63 G-TATAT
* * *
19108676 GGAATTTACATCATATACATAATCTTATGGAATTCATCAT
1 GGAATTTACATCATATACATAATCTCATGGCATTAATCAT
19108716 ACCAACATGG
Statistics
Matches: 210, Mismatches: 23, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
64 31 0.15
66 2 0.01
67 22 0.10
68 153 0.73
69 1 0.00
70 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (68 bp):
GGAATTTACATCATATACATAATCTCATGGCATTAATCATGCATACTTAATCACCTCATATAGTA
TAT
Found at i:19109951 original size:16 final size:16
Alignment explanation
Indices: 19109909--19109953 Score: 76
Period size: 15 Copynumber: 2.9 Consensus size: 16
19109899 ATAAAAATAT
19109909 CAAAA-AATCAAAATC
1 CAAAAGAATCAAAATC
19109924 CAAAAG-ATCAAAATC
1 CAAAAGAATCAAAATC
19109939 CAAAAGAATCAAAAT
1 CAAAAGAATCAAAAT
19109954 TTAAATTTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 20 0.71
16 8 0.29
ACGTcount: A:0.64, C:0.18, G:0.04, T:0.13
Consensus pattern (16 bp):
CAAAAGAATCAAAATC
Found at i:19111612 original size:55 final size:55
Alignment explanation
Indices: 19111525--19111680 Score: 204
Period size: 57 Copynumber: 2.8 Consensus size: 55
19111515 CAACCACCGG
* * *
19111525 TCATCAGCTCATGTGCACTCTCGCACCACACATAGCTGGAATCATCATCCTTCGA
1 TCATCAGCTCATGTGCACTCTCACACCACACATAGCTGGAATCATCACCCTCCGA
* * * * *
19111580 TCATCAGCTCATGTGCACTCCCATACCTCACATATAGCTGCAATCATCACCCTCCGG
1 TCATCAGCTCATGTGCACTCTCACA-C-CACACATAGCTGGAATCATCACCCTCCGA
* *
19111637 TCATCAACTCATGTGCACTCTCACACCACACATAGCTAGAATCA
1 TCATCAGCTCATGTGCACTCTCACACCACACATAGCTGGAATCA
19111681 CCCGTTATCA
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
55 37 0.44
56 2 0.02
57 46 0.54
ACGTcount: A:0.28, C:0.36, G:0.12, T:0.24
Consensus pattern (55 bp):
TCATCAGCTCATGTGCACTCTCACACCACACATAGCTGGAATCATCACCCTCCGA
Found at i:19119589 original size:2 final size:2
Alignment explanation
Indices: 19119582--19119613 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
19119572 GAGAACCAAG
19119582 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19119614 ACGTTCCCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19120176 original size:55 final size:52
Alignment explanation
Indices: 19120107--19120297 Score: 210
Period size: 55 Copynumber: 3.6 Consensus size: 52
19120097 CAACCACCGA
*
19120107 TCATCAGTTCATGTGCACTCCCACACCGCACATAGCTGGAAACATCATCCTCCGG
1 TCATCAGCTCATGTGCACTCCCACACCGCACATAGCT-GAAACATCA-CC-CCGG
* *
19120162 TCATCAGCTTATGTGCACTCCCACACCGCACATAGCTAGAATCATCACCCACCGG
1 TCATCAGCTCATGTGCACTCCCACACCGCACATAGCT-GAAACATCA-CC-CCGG
* * * *
19120217 TCATCAGCTCATATGCACTCCAACATCGTACATAGCT-AAA-ATCA-CCC-G
1 TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGAAACATCACCCCGG
* *
19120265 TCATCACCGACATGTGCACTCCCACACCGCACA
1 TCATCAGC-TCATGTGCACTCCCACACCGCACA
19120298 CGTGCGGTTA
Statistics
Matches: 117, Mismatches: 18, Indels: 8
0.82 0.13 0.06
Matches are distributed among these distances:
48 8 0.07
49 21 0.18
50 1 0.01
52 4 0.03
53 2 0.02
55 81 0.69
ACGTcount: A:0.28, C:0.38, G:0.14, T:0.20
Consensus pattern (52 bp):
TCATCAGCTCATGTGCACTCCCACACCGCACATAGCTGAAACATCACCCCGG
Found at i:19121193 original size:17 final size:17
Alignment explanation
Indices: 19121155--19121189 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
19121145 TTTGGTGCCC
*
19121155 AAGAAGTTAGGAAAAGA
1 AAGAAGTTAAGAAAAGA
19121172 AAGAAG-TAAGAAAAGA
1 AAGAAGTTAAGAAAAGA
19121188 AA
1 AA
19121190 AGAAATGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.66, C:0.00, G:0.26, T:0.09
Consensus pattern (17 bp):
AAGAAGTTAAGAAAAGA
Found at i:19124107 original size:28 final size:28
Alignment explanation
Indices: 19124073--19124287 Score: 209
Period size: 28 Copynumber: 7.3 Consensus size: 28
19124063 GGCAGTTTTT
19124073 ACATGTTTGTCTTAATTTAAACAAGAAA
1 ACATGTTTGTCTTAATTTAAACAAGAAA
* * * *
19124101 ATATGTTTATCTTAATTCAGACAAGAAAA
1 ACATGTTTGTCTTAATTTAAACAAG-AAA
*
19124130 CATGTTTCATGTTTGTCTTAATTTAGACAAGAAA
1 -A-----CATGTTTGTCTTAATTTAAACAAGAAA
* * *
19124164 ACGTGTTTGTTTTAATTTAGACAAGAAAA
1 ACATGTTTGTCTTAATTTAAACAAG-AAA
19124193 ACATGTTTGTCTTAATTTAAGACAAGAAA
1 ACATGTTTGTCTTAATTTAA-ACAAGAAA
*
19124222 A-ATAAGTTTTGTCTTAATCTAAACAAGAAA
1 ACAT--G-TTTGTCTTAATTTAAACAAGAAA
*
19124252 ACATGTTTGTCTCAATTTAAACAAGATAA
1 ACATGTTTGTCTTAATTTAAACAAGA-AA
19124281 A-ATGTTT
1 ACATGTTT
19124288 TGAATTAATT
Statistics
Matches: 158, Mismatches: 15, Indels: 28
0.79 0.07 0.14
Matches are distributed among these distances:
28 70 0.44
29 31 0.20
30 16 0.10
31 16 0.10
33 1 0.01
34 3 0.02
35 21 0.13
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (28 bp):
ACATGTTTGTCTTAATTTAAACAAGAAA
Found at i:19124142 original size:35 final size:35
Alignment explanation
Indices: 19124103--19124171 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
19124093 ACAAGAAAAT
19124103 ATGTTTATCTTAATTCAGACAAGAAAACATGTTTC
1 ATGTTTATCTTAATTCAGACAAGAAAACATGTTTC
* * *
19124138 ATGTTTGTCTTAATTTAGACAAGAAAACGTGTTT
1 ATGTTTATCTTAATTCAGACAAGAAAACATGTTT
19124172 GTTTTAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (35 bp):
ATGTTTATCTTAATTCAGACAAGAAAACATGTTTC
Found at i:19124179 original size:63 final size:57
Alignment explanation
Indices: 19124073--19124287 Score: 204
Period size: 63 Copynumber: 3.6 Consensus size: 57
19124063 GGCAGTTTTT
* *
19124073 ACATGTTTGTCTTAATTTAAACAAGAAAATATGTTTATCTTAATTCAGACAAGAAAA
1 ACATGTTTGTCTTAATTTAGACAAGAAAACATGTTTATCTTAATTCAGACAAGAAAA
* * * *
19124130 CATGTTTCATGTTTGTCTTAATTTAGACAAGAAAACGTGTTTGTTTTAATTTAGACAAGAAAA
1 -A-----CATGTTTGTCTTAATTTAGACAAGAAAACATGTTTATCTTAATTCAGACAAGAAAA
* *
19124193 ACATGTTTGTCTTAATTTAAGACAAGAAAA-ATAAGTTTTGTCTTAA-TCTAAACAAG-AAA
1 ACATGTTTGTCTTAATTT-AGACAAGAAAACAT--G-TTTATCTTAATTC-AGACAAGAAAA
* *
19124252 ACATGTTTGTCTCAATTTAAACAAGATAAA-ATGTTT
1 ACATGTTTGTCTTAATTTAGACAAGA-AAACATGTTT
19124288 TGAATTAATT
Statistics
Matches: 134, Mismatches: 12, Indels: 24
0.79 0.07 0.14
Matches are distributed among these distances:
56 3 0.02
57 19 0.14
58 19 0.14
59 27 0.20
60 15 0.11
62 1 0.01
63 50 0.37
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (57 bp):
ACATGTTTGTCTTAATTTAGACAAGAAAACATGTTTATCTTAATTCAGACAAGAAAA
Found at i:19124259 original size:88 final size:89
Alignment explanation
Indices: 19124073--19124307 Score: 262
Period size: 88 Copynumber: 2.6 Consensus size: 89
19124063 GGCAGTTTTT
* * *
19124073 ACATGTTTGTCTTAATTTAAACAAGAAAATATGTTTATCTTAA-TTCAGACAAGAAAACATGTTT
1 ACATGTTTGTCTTAATTTAAACAAGAAAAAATGTTTGTCTTAATTTAAGACAAGAAAACA---TT
* * *
19124137 CATGTTTGTCTTAATTTAGACAAGAAA
63 AATGTTTGTCTTAATCTAAACAAGAAA
* * *
19124164 ACGTGTTTGTTTTAATTTAGACAAGAAAAACATGTTTGTCTTAATTTAAGACAAGAAAA-A-TAA
1 ACATGTTTGTCTTAATTTAAACAAGAAAAA-ATGTTTGTCTTAATTTAAGACAAGAAAACATTAA
19124227 -GTTTTGTCTTAATCTAAACAAGAAA
65 TG-TTTGTCTTAATCTAAACAAGAAA
* * ** *
19124252 ACATGTTTGTCTCAATTTAAACAAGATAAAATGTTTTGAATTAATTAAAGACAAGA
1 ACATGTTTGTCTTAATTTAAACAAGAAAAAATG-TTTGTCTTAATTTAAGACAAGA
19124308 GCTGTCTTAA
Statistics
Matches: 123, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
87 4 0.03
88 67 0.54
91 26 0.21
92 13 0.11
93 13 0.11
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.36
Consensus pattern (89 bp):
ACATGTTTGTCTTAATTTAAACAAGAAAAAATGTTTGTCTTAATTTAAGACAAGAAAACATTAAT
GTTTGTCTTAATCTAAACAAGAAA
Found at i:19124269 original size:59 final size:61
Alignment explanation
Indices: 19124137--19124283 Score: 191
Period size: 59 Copynumber: 2.5 Consensus size: 61
19124127 AAACATGTTT
* * * *
19124137 CATGTTTGTCTTAATTT-AGACAAG--AAA-ACGTGTTTGTTTTAATTTAGACAAGAAAAA
1 CATGTTTGTCTTAATTTAAGACAAGAAAAATAAGTGTTTGTCTTAATCTAAACAAGAAAAA
19124194 CATGTTTGTCTTAATTTAAGACAAGAAAAATAAGT-TTTGTCTTAATCTAAACAAG-AAAA
1 CATGTTTGTCTTAATTTAAGACAAGAAAAATAAGTGTTTGTCTTAATCTAAACAAGAAAAA
*
19124253 CATGTTTGTCTCAATTTAA-ACAAGATAAAAT
1 CATGTTTGTCTTAATTTAAGACAAGA-AAAAT
19124284 GTTTTGAATT
Statistics
Matches: 80, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
57 17 0.21
58 13 0.16
59 27 0.34
60 20 0.25
61 3 0.04
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.35
Consensus pattern (61 bp):
CATGTTTGTCTTAATTTAAGACAAGAAAAATAAGTGTTTGTCTTAATCTAAACAAGAAAAA
Found at i:19134972 original size:31 final size:31
Alignment explanation
Indices: 19134936--19135099 Score: 267
Period size: 31 Copynumber: 5.3 Consensus size: 31
19134926 TCCCTAGACT
19134936 TTGTGACACGCCATGCATAACAAGTAAAATG
1 TTGTGACACGCCATGCATAACAAGTAAAATG
19134967 TTGTGACACGCCATGCATAACAAGTAAAACT-
1 TTGTGACACGCCATGCATAACAAGTAAAA-TG
19134998 TTGTGACACGCCATGCATAACAAGTAAAATG
1 TTGTGACACGCCATGCATAACAAGTAAAATG
* *
19135029 TTCTGACACGCCATGCATAACAAGTCAAATG
1 TTGTGACACGCCATGCATAACAAGTAAAATG
* *
19135060 TTGTCACACGCCATGCATATCAAGTAAAATG
1 TTGTGACACGCCATGCATAACAAGTAAAATG
*
19135091 TTGTCACAC
1 TTGTGACAC
19135100 TGACACAAAT
Statistics
Matches: 125, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
30 1 0.01
31 123 0.98
32 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.24
Consensus pattern (31 bp):
TTGTGACACGCCATGCATAACAAGTAAAATG
Found at i:19135671 original size:23 final size:24
Alignment explanation
Indices: 19135636--19135690 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
19135626 TGTCACAGTT
* *
19135636 GTGTCACATATTCT-AACCATGGC
1 GTGTCACAAATTCTGAACCATGCC
* *
19135659 GTGTCATAAATTCTGAACCCTGCC
1 GTGTCACAAATTCTGAACCATGCC
19135683 GTGTCACA
1 GTGTCACA
19135691 GTTGTGACAG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 12 0.46
24 14 0.54
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (24 bp):
GTGTCACAAATTCTGAACCATGCC
Found at i:19136012 original size:31 final size:31
Alignment explanation
Indices: 19135977--19136035 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
19135967 GCTAAGTTCA
*
19135977 AGTAGATGTATGTGGG-GACACACTGACTGGT
1 AGTAGATGTATG-GGGTCACACACTGACTGGT
*
19136008 AGTAGATTTATGGGGTCACACACTGACT
1 AGTAGATGTATGGGGTCACACACTGACT
19136036 TCTTGCGACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 3 0.12
31 22 0.88
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (31 bp):
AGTAGATGTATGGGGTCACACACTGACTGGT
Found at i:19136150 original size:14 final size:16
Alignment explanation
Indices: 19136120--19136166 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
19136110 TATAGGCAAA
19136120 AAAATTAATTGTGTAT
1 AAAATTAATTGTGTAT
19136136 AAAATTAA-T-TGTAT
1 AAAATTAATTGTGTAT
19136150 AAAA-TATATTGTGTAT
1 AAAATTA-ATTGTGTAT
19136166 A
1 A
19136167 CAAAAAGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 2 0.07
14 10 0.36
15 2 0.07
16 14 0.50
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.43
Consensus pattern (16 bp):
AAAATTAATTGTGTAT
Found at i:19136203 original size:52 final size:50
Alignment explanation
Indices: 19136104--19136273 Score: 195
Period size: 52 Copynumber: 3.4 Consensus size: 50
19136094 CATACAATTA
* *
19136104 ATTGTGTATAGGCAAAAAAATTAATTGTGTATAAAATTAATTGTATAAAATAT
1 ATTGTGTATA--CAAAAAAATTAATTGTATAT-AAATTAATTATATAAAATAT
* * * *
19136157 ATTGTGTATACAAAAAGAATTAATTCTATATGCAATGAATTATATAAAATAA
1 ATTGTGTATACAAAAA-AATTAATTGTATAT-AAATTAATTATATAAAATAT
19136209 ATTGTGTATACAAAAAAATT-A-TGTATA-AAATTAATTATATAAAA-AT
1 ATTGTGTATACAAAAAAATTAATTGTATATAAATTAATTATATAAAATAT
*
19136255 AATTCTGTATACAAAAAAA
1 -ATTGTGTATACAAAAAAA
19136274 ATGTACAAAC
Statistics
Matches: 103, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
46 1 0.01
47 32 0.31
49 5 0.05
50 1 0.01
51 10 0.10
52 44 0.43
53 10 0.10
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.35
Consensus pattern (50 bp):
ATTGTGTATACAAAAAAATTAATTGTATATAAATTAATTATATAAAATAT
Found at i:19136218 original size:16 final size:16
Alignment explanation
Indices: 19136199--19136265 Score: 66
Period size: 16 Copynumber: 4.2 Consensus size: 16
19136189 CAATGAATTA
*
19136199 TATAAAATAAATTGTG
1 TATAAAATAAATTATG
*
19136215 TATACAAAAAAATTATG
1 TATA-AAATAAATTATG
* *
19136232 TATAAAATTAATTATA
1 TATAAAATAAATTATG
*
19136248 TA-AAAAT-AATTCTG
1 TATAAAATAAATTATG
19136262 TATA
1 TATA
19136266 CAAAAAAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
14 7 0.17
15 6 0.14
16 15 0.36
17 14 0.33
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (16 bp):
TATAAAATAAATTATG
Found at i:19137842 original size:31 final size:31
Alignment explanation
Indices: 19137806--19138049 Score: 301
Period size: 31 Copynumber: 7.9 Consensus size: 31
19137796 TACCACAAAC
* *
19137806 CATAACCAGTAAAATGTTGTGACATGCCATG
1 CATAACAAGTAAAATGTTGTGACACGCCATG
* * *
19137837 GATAACAAGTAAAACGTTGTGACACGGCATG
1 CATAACAAGTAAAATGTTGTGACACGCCATG
* * * *
19137868 CATAACAAGCAAAATGTTCTAACACGGCATG
1 CATAACAAGTAAAATGTTGTGACACGCCATG
* *
19137899 CATTACAAGCAAAATGTTGTGACACGCCATG
1 CATAACAAGTAAAATGTTGTGACACGCCATG
* *
19137930 GATAACAAGCT-AAATGTTCTGACACGCCATG
1 CATAACAAG-TAAAATGTTGTGACACGCCATG
* * *
19137961 CATAACAAGTTAAACGTTGTGACATGCCATG
1 CATAACAAGTAAAATGTTGTGACACGCCATG
* *
19137992 CATAACAAGTAAATTGTTTTGACACGCCATG
1 CATAACAAGTAAAATGTTGTGACACGCCATG
*
19138023 CATAACAAGTAAAATGTTGTCACACGC
1 CATAACAAGTAAAATGTTGTGACACGC
19138050 TATTGCTGAC
Statistics
Matches: 181, Mismatches: 30, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
30 1 0.01
31 180 0.99
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.23
Consensus pattern (31 bp):
CATAACAAGTAAAATGTTGTGACACGCCATG
Found at i:19140406 original size:36 final size:37
Alignment explanation
Indices: 19140345--19140419 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 37
19140335 GTGACAGGCC
19140345 ATGCATATCAAGTAAAATGTTGTGACACGCCATGCAT
1 ATGCATATCAAGTAAAATGTTGTGACACGCCATGCAT
19140382 ATGCATATCAAGT-AAATGTTGTGACACGCCATGCAT
1 ATGCATATCAAGTAAAATGTTGTGACACGCCATGCAT
19140418 AT
1 AT
19140420 CAAGTCAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 25 0.66
37 13 0.34
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.28
Consensus pattern (37 bp):
ATGCATATCAAGTAAAATGTTGTGACACGCCATGCAT
Found at i:19140440 original size:31 final size:32
Alignment explanation
Indices: 19140235--19140441 Score: 228
Period size: 31 Copynumber: 6.5 Consensus size: 32
19140225 AATAAGGAAT
* * *
19140235 AAATGTTGTGAAATGACATGCATAACAAG-CA
1 AAATGTTGTGACACGCCATGCATAACAAGTCA
*
19140266 AAATGTTGTGACATGCCATGCATAACAAG-CA
1 AAATGTTGTGACACGCCATGCATAACAAGTCA
*
19140297 AAATGTTGTGGCACGCCATGCATAACAAGT-A
1 AAATGTTGTGACACGCCATGCATAACAAGTCA
* * *
19140328 AAATCTTGTGACAGGCCATGCATATCAAGT-A
1 AAATGTTGTGACACGCCATGCATAACAAGTCA
*
19140359 AAATGTTGTGACACGCCATGCATATGCATA-TCAA
1 AAATGTTGTGACACGCCATGCATA-ACA-AGTC-A
*
19140393 GTAAATGTTGTGACACGCCATGCATATCAAGTC-
1 --AAATGTTGTGACACGCCATGCATAACAAGTCA
*
19140426 AAATGTTGTCACACGC
1 AAATGTTGTGACACGC
19140442 TAATGCTGAC
Statistics
Matches: 155, Mismatches: 13, Indels: 16
0.84 0.07 0.09
Matches are distributed among these distances:
31 121 0.78
32 3 0.02
33 1 0.01
34 2 0.01
35 4 0.03
36 24 0.15
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (32 bp):
AAATGTTGTGACACGCCATGCATAACAAGTCA
Found at i:19151515 original size:73 final size:72
Alignment explanation
Indices: 19151415--19151631 Score: 213
Period size: 73 Copynumber: 2.9 Consensus size: 72
19151405 CAGATTGCGT
* * * * *
19151415 GACAGAGAAGATTTAATCAACTAAGAAGTATGGTTAGCCAACTAAAAGCTCACGGTTAAAAATTT
1 GACAAAGAAGACTTAATCGACTAAGAAGTATGGTTAGCC-ACTAAGAGCTCACTGTTAAAAATTT
**
19151480 AATT-GTG
65 AATTACAG
* * * * **
19151487 AGACAAAGAAGACTTAGTCGACTAAGAAGTATTGTTAACCACTAAGAGCTCATTGCCAGAAAATT
1 -GACAAAGAAGACTTAATCGACTAAGAAGTATGGTTAGCCACTAAGAGCTCACTGTTA-AAAATT
*
19151552 TGATTACAG
64 TAATTACAG
* *
19151561 GACAGAA-AAGACTTAATCGACTAAGAAGCATGGTTAGTCCACTAAGAGCACACTGTCTAAAAAT
1 GACA-AAGAAGACTTAATCGACTAAGAAGTATGGTTAG-CCACTAAGAGCTCACTGT-TAAAAAT
19151625 TTGAATT
63 TT-AATT
19151632 TGAATGCTTA
Statistics
Matches: 115, Mismatches: 23, Indels: 10
0.78 0.16 0.07
Matches are distributed among these distances:
72 13 0.11
73 73 0.63
74 25 0.22
75 4 0.03
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (72 bp):
GACAAAGAAGACTTAATCGACTAAGAAGTATGGTTAGCCACTAAGAGCTCACTGTTAAAAATTTA
ATTACAG
Found at i:19162322 original size:26 final size:29
Alignment explanation
Indices: 19162269--19162324 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
19162259 CAGCCATAAG
*
19162269 GAAAGAACAAGAGAGAAAACAGGGAGGAAA
1 GAAAGAACAAGAGAGAAAACA-GAAGGAAA
19162299 GAAAGAA-AAGAGA-AAAACA-AAGGAAA
1 GAAAGAACAAGAGAGAAAACAGAAGGAAA
19162325 ACTAAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 6 0.24
28 6 0.24
29 6 0.24
30 7 0.28
ACGTcount: A:0.66, C:0.05, G:0.29, T:0.00
Consensus pattern (29 bp):
GAAAGAACAAGAGAGAAAACAGAAGGAAA
Found at i:19176989 original size:22 final size:22
Alignment explanation
Indices: 19176963--19177009 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
19176953 AAAATGGATT
*
19176963 CTGATATGTTTATAATATTTTG
1 CTGATATGATTATAATATTTTG
**
19176985 CTGATATGATTATGGTATTTTG
1 CTGATATGATTATAATATTTTG
19177007 CTG
1 CTG
19177010 CTGATAACTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.06, G:0.19, T:0.51
Consensus pattern (22 bp):
CTGATATGATTATAATATTTTG
Found at i:19180845 original size:10 final size:9
Alignment explanation
Indices: 19180827--19180888 Score: 52
Period size: 10 Copynumber: 6.3 Consensus size: 9
19180817 TTATTTGGAT
19180827 ATAACAAAAA
1 ATAA-AAAAA
19180837 ATAATAAAAA
1 ATAA-AAAAA
*
19180847 ATACAATAAA
1 ATA-AAAAAA
19180857 ATANAAAAATA
1 ATA-AAAAA-A
19180868 ATAAAAAAA
1 ATAAAAAAA
* *
19180877 ATCAATAAA
1 ATAAAAAAA
19180886 ATA
1 ATA
19180889 TTCTATTTTC
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
9 10 0.23
10 28 0.65
11 5 0.12
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.18
Consensus pattern (9 bp):
ATAAAAAAA
Found at i:19180865 original size:28 final size:28
Alignment explanation
Indices: 19180832--19180888 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
19180822 TGGATATAAC
*
19180832 AAAAAATAATAAAAAATA-CAATAAAAT
1 AAAAAATAATAAAAAAAATCAATAAAAT
19180859 ANAAAAATAATAAAAAAAATCAATAAAAT
1 A-AAAAATAATAAAAAAAATCAATAAAAT
19180888 A
1 A
19180889 TTCTATTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 1 0.04
28 16 0.59
29 10 0.37
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.18
Consensus pattern (28 bp):
AAAAAATAATAAAAAAAATCAATAAAAT
Found at i:19180874 original size:29 final size:27
Alignment explanation
Indices: 19180832--19180888 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 27
19180822 TGGATATAAC
19180832 AAAAAATAAT-AAAAAATACAATAAAAT
1 AAAAAATAATAAAAAAAT-CAATAAAAT
19180859 ANAAAAATAATAAAAAAAATCAATAAAAT
1 A-AAAAATAAT-AAAAAAATCAATAAAAT
19180888 A
1 A
19180889 TTCTATTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 1 0.04
28 9 0.33
29 10 0.37
30 7 0.26
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.18
Consensus pattern (27 bp):
AAAAAATAATAAAAAAATCAATAAAAT
Found at i:19180877 original size:13 final size:13
Alignment explanation
Indices: 19180827--19180886 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
19180817 TTATTTGGAT
*
19180827 ATAACAAAAAATA
1 ATAAAAAAAAATA
19180840 ATAAAAAATACAATA
1 ATAAAAAA-A-AATA
*
19180855 A-AATANAAAAATA
1 ATAA-AAAAAAATA
19180868 AT-AAAAAAAATCA
1 ATAAAAAAAAAT-A
19180881 ATAAAA
1 ATAAAA
19180887 TATTCTATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
12 7 0.18
13 16 0.42
14 7 0.18
15 8 0.21
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.17
Consensus pattern (13 bp):
ATAAAAAAAAATA
Found at i:19187754 original size:28 final size:30
Alignment explanation
Indices: 19187700--19187759 Score: 79
Period size: 28 Copynumber: 2.1 Consensus size: 30
19187690 TTTTTGAAAT
19187700 TTACACTTTTTCCCCCATAAAAGTGAAAAA
1 TTACACTTTTTCCCCCATAAAAGTGAAAAA
* * *
19187730 TTACA-TTTTTGCCCTA-AAAATTGAAAAA
1 TTACACTTTTTCCCCCATAAAAGTGAAAAA
19187758 TT
1 TT
19187760 GCCCATAAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 13 0.48
29 9 0.33
30 5 0.19
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.35
Consensus pattern (30 bp):
TTACACTTTTTCCCCCATAAAAGTGAAAAA
Done.