Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 64 of 218
Found at i:19272619 original size:18 final size:18
Alignment explanation
Indices: 19272596--19272630 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19272586 TGTATTTTGT
19272596 ATTTGTATATGGGATGAG
1 ATTTGTATATGGGATGAG
* *
19272614 ATTTGTTTATTGGATGA
1 ATTTGTATATGGGATGA
19272631 AGTATTCTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.46
Consensus pattern (18 bp):
ATTTGTATATGGGATGAG
Found at i:19276268 original size:16 final size:16
Alignment explanation
Indices: 19276249--19276279 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19276239 AAAAGAAGTT
19276249 GTTAAGGTTGTTAGCA
1 GTTAAGGTTGTTAGCA
*
19276265 GTTAGGGTTGTTAGC
1 GTTAAGGTTGTTAGC
19276280 TGCAGCTAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.06, G:0.35, T:0.39
Consensus pattern (16 bp):
GTTAAGGTTGTTAGCA
Found at i:19277129 original size:13 final size:13
Alignment explanation
Indices: 19277111--19277135 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19277101 TAAAAGAGTT
19277111 ATTAATTAAAAAG
1 ATTAATTAAAAAG
19277124 ATTAATTAAAAA
1 ATTAATTAAAAA
19277136 TAAAAAACTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAG
Found at i:19277994 original size:14 final size:14
Alignment explanation
Indices: 19277975--19278001 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19277965 TAAGTACCCA
19277975 ACCCAAAAATAAAT
1 ACCCAAAAATAAAT
19277989 ACCCAAAAATAAA
1 ACCCAAAAATAAA
19278002 AATCAAATTC
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:0.67, C:0.22, G:0.00, T:0.11
Consensus pattern (14 bp):
ACCCAAAAATAAAT
Found at i:19278504 original size:24 final size:24
Alignment explanation
Indices: 19278472--19278533 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 24
19278462 GCAACATTTA
* *
19278472 ATTACAAGCCTAAACTCATCGTTTC
1 ATTA-AAGCATAAACTCACCGTTTC
* *
19278497 ATTTAAGCATAAACTCACCGTTTT
1 ATTAAAGCATAAACTCACCGTTTC
*
19278521 ATTAAAGCTTAAA
1 ATTAAAGCATAAA
19278534 ACCAATTACT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
24 28 0.90
25 3 0.10
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.34
Consensus pattern (24 bp):
ATTAAAGCATAAACTCACCGTTTC
Found at i:19284541 original size:22 final size:23
Alignment explanation
Indices: 19284489--19284534 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
19284479 TTAACCAAAA
* *
19284489 CTCTCTT-CTCTCCTTTTCTTTT
1 CTCTCTTGTTCTCCTTATCTTTT
19284511 CTCTCTTGTTCTCCTTAT-TTTT
1 CTCTCTTGTTCTCCTTATCTTTT
19284533 CT
1 CT
19284535 TTTTTGTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.02, C:0.33, G:0.02, T:0.63
Consensus pattern (23 bp):
CTCTCTTGTTCTCCTTATCTTTT
Found at i:19289075 original size:12 final size:12
Alignment explanation
Indices: 19289058--19289082 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19289048 ATTGATTTTC
19289058 TCATAATCATAG
1 TCATAATCATAG
19289070 TCATAATCATAG
1 TCATAATCATAG
19289082 T
1 T
19289083 AATGTTGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (12 bp):
TCATAATCATAG
Found at i:19290601 original size:15 final size:15
Alignment explanation
Indices: 19290581--19290615 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
19290571 TACGTTTTAA
19290581 GGGTTATTTATTTTC
1 GGGTTATTTATTTTC
19290596 GGGTTATTTATTTTC
1 GGGTTATTTATTTTC
19290611 GGGTT
1 GGGTT
19290616 TCGTGGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.11, C:0.06, G:0.26, T:0.57
Consensus pattern (15 bp):
GGGTTATTTATTTTC
Found at i:19300117 original size:3 final size:3
Alignment explanation
Indices: 19300109--19300161 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
19300099 GTGAACAAAC
19300109 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
19300157 AAT AA
1 AAT AA
19300162 AGCATCACAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:19301007 original size:10 final size:10
Alignment explanation
Indices: 19300992--19301018 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
19300982 AACACGCGCG
19300992 TTTGCGTGCA
1 TTTGCGTGCA
19301002 TTTGCGTGCA
1 TTTGCGTGCA
19301012 TTTGCGT
1 TTTGCGT
19301019 ACGGCTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.07, C:0.19, G:0.30, T:0.44
Consensus pattern (10 bp):
TTTGCGTGCA
Found at i:19320669 original size:23 final size:24
Alignment explanation
Indices: 19320617--19320669 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
19320607 AAAATCATGG
*
19320617 TATATTATTGTTTCAAAGTTACTA
1 TATATTATTATTTCAAAGTTACTA
*
19320641 TGTATTATTATTT-AAAGTTATCT-
1 TATATTATTATTTCAAAGTTA-CTA
19320664 TATATT
1 TATATT
19320670 TATTGTATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 12 0.48
24 13 0.52
ACGTcount: A:0.32, C:0.06, G:0.08, T:0.55
Consensus pattern (24 bp):
TATATTATTATTTCAAAGTTACTA
Found at i:19324283 original size:27 final size:27
Alignment explanation
Indices: 19324245--19324324 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
19324235 AACAAGTCGA
*
19324245 GAAAGAAAAGCCTTTGTGGCGAAATGT
1 GAAAGAAAAGCCTTTGTGGCGAAATAT
* *
19324272 GAAAGAAAAGCCTTTTTGGTGAAATAT
1 GAAAGAAAAGCCTTTGTGGCGAAATAT
* * *
19324299 GAAAGGAATGCCTTTGTGTC-AAATAT
1 GAAAGAAAAGCCTTTGTGGCGAAATAT
19324325 TGAATGGATC
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 6 0.13
27 39 0.87
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.28
Consensus pattern (27 bp):
GAAAGAAAAGCCTTTGTGGCGAAATAT
Found at i:19325329 original size:19 final size:19
Alignment explanation
Indices: 19325305--19325342 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
19325295 TATCAGATGT
19325305 GTGGTAATAAGTTGTTTAA
1 GTGGTAATAAGTTGTTTAA
19325324 GTGGTAATAAGTTGTTTAA
1 GTGGTAATAAGTTGTTTAA
19325343 CATATATTTC
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:0.32, C:0.00, G:0.26, T:0.42
Consensus pattern (19 bp):
GTGGTAATAAGTTGTTTAA
Found at i:19332849 original size:13 final size:13
Alignment explanation
Indices: 19332831--19332860 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
19332821 AAACTAGATT
*
19332831 TTAACTAAGTAAA
1 TTAACTAAGAAAA
19332844 TTAACTAAGAAAA
1 TTAACTAAGAAAA
19332857 TTAA
1 TTAA
19332861 AAGGTAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (13 bp):
TTAACTAAGAAAA
Found at i:19334701 original size:16 final size:16
Alignment explanation
Indices: 19334680--19334713 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19334670 TTACCAATGA
* *
19334680 AATTCTTTTATTTCTC
1 AATTCTTTCACTTCTC
19334696 AATTCTTTCACTTCTC
1 AATTCTTTCACTTCTC
19334712 AA
1 AA
19334714 GCTAAGATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTCTTTCACTTCTC
Found at i:19337102 original size:29 final size:29
Alignment explanation
Indices: 19337069--19337203 Score: 144
Period size: 29 Copynumber: 4.7 Consensus size: 29
19337059 TAGAGTCTCA
* *
19337069 CCACAAAGGCATCTTTTTAACAGAGATAG
1 CCACAAAGGCTTCCTTTTAACAGAGATAG
* * **
19337098 CCACAAAGGTTTCCTTTTAACATAGACCG
1 CCACAAAGGCTTCCTTTTAACAGAGATAG
* * *
19337127 CCACAAATGCTTCCTTTTAATAGAGAAAG
1 CCACAAAGGCTTCCTTTTAACAGAGATAG
* * * *
19337156 CTACAAAGGCTTCCTTGTAATAAAGATAG
1 CCACAAAGGCTTCCTTTTAACAGAGATAG
*
19337185 CCACAAAGGCATCCTTTTA
1 CCACAAAGGCTTCCTTTTA
19337204 TGAAATTTGG
Statistics
Matches: 86, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 86 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.27
Consensus pattern (29 bp):
CCACAAAGGCTTCCTTTTAACAGAGATAG
Found at i:19337145 original size:58 final size:58
Alignment explanation
Indices: 19337069--19337203 Score: 162
Period size: 58 Copynumber: 2.3 Consensus size: 58
19337059 TAGAGTCTCA
* * * * * *
19337069 CCACAAAGGCATCTTTTTAACAGAGATAGCCACAAAGGTTTCCTTTTAACATAGACCG
1 CCACAAAGGCATCCTTTTAACAGAGAAAGCCACAAAGGCTTCCTTGTAACAAAGACAG
* * * * * *
19337127 CCACAAATGCTTCCTTTTAATAGAGAAAGCTACAAAGGCTTCCTTGTAATAAAGATAG
1 CCACAAAGGCATCCTTTTAACAGAGAAAGCCACAAAGGCTTCCTTGTAACAAAGACAG
19337185 CCACAAAGGCATCCTTTTA
1 CCACAAAGGCATCCTTTTA
19337204 TGAAATTTGG
Statistics
Matches: 63, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
58 63 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.27
Consensus pattern (58 bp):
CCACAAAGGCATCCTTTTAACAGAGAAAGCCACAAAGGCTTCCTTGTAACAAAGACAG
Found at i:19340229 original size:31 final size:31
Alignment explanation
Indices: 19340181--19340350 Score: 145
Period size: 31 Copynumber: 5.5 Consensus size: 31
19340171 TAAGTTGCCG
* *
19340181 AAATGATTCGTATATGGTTGA-ACATTGCTGA
1 AAATAATTTGTATATGGTT-ATACATTGCTGA
* *
19340212 AAATAATTTTTATATGGTTATTCATTGCTGA
1 AAATAATTTGTATATGGTTATACATTGCTGA
*
19340243 AATTGAA-TTGTATAT-GTATATA-AGTTGCTG-
1 AAAT-AATTTGTATATGGT-TATACA-TTGCTGA
* *
19340273 AAATGATTCGTATATGGTTGA-ACATTGCTGA
1 AAATAATTTGTATATGGTT-ATACATTGCTGA
* *
19340304 AAATAATTTTTATATGGTTATACATTGTTGA
1 AAATAATTTGTATATGGTTATACATTGCTGA
* * *
19340335 AATTAAATTGTTTATG
1 AAATAATTTGTATATG
19340351 AATATAGGAT
Statistics
Matches: 111, Mismatches: 18, Indels: 20
0.74 0.12 0.13
Matches are distributed among these distances:
29 1 0.01
30 23 0.21
31 85 0.77
32 2 0.02
ACGTcount: A:0.34, C:0.06, G:0.18, T:0.43
Consensus pattern (31 bp):
AAATAATTTGTATATGGTTATACATTGCTGA
Found at i:19340291 original size:92 final size:92
Alignment explanation
Indices: 19340135--19340356 Score: 356
Period size: 92 Copynumber: 2.4 Consensus size: 92
19340125 AAATTGTTTT
* * *
19340135 TGGTTATACATTGCTGATATTGGATTGTATAT-TACATAAGTTGCCGAAATGATTCGTATATGGT
1 TGGTTATACATTGCTGAAATTGAATTGTATATGTATATAAGTTGCCGAAATGATTCGTATATGGT
19340199 TGAACATTGCTGAAAATAATTTTTATA
66 TGAACATTGCTGAAAATAATTTTTATA
* *
19340226 TGGTTATTCATTGCTGAAATTGAATTGTATATGTATATAAGTTGCTGAAATGATTCGTATATGGT
1 TGGTTATACATTGCTGAAATTGAATTGTATATGTATATAAGTTGCCGAAATGATTCGTATATGGT
19340291 TGAACATTGCTGAAAATAATTTTTATA
66 TGAACATTGCTGAAAATAATTTTTATA
* * * *
19340318 TGGTTATACATTGTTGAAATTAAATTGTTTATGAATATA
1 TGGTTATACATTGCTGAAATTGAATTGTATATGTATATA
19340357 GGATGTCGAA
Statistics
Matches: 120, Mismatches: 10, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
91 29 0.24
92 91 0.76
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (92 bp):
TGGTTATACATTGCTGAAATTGAATTGTATATGTATATAAGTTGCCGAAATGATTCGTATATGGT
TGAACATTGCTGAAAATAATTTTTATA
Found at i:19340400 original size:31 final size:32
Alignment explanation
Indices: 19340363--19340497 Score: 102
Period size: 31 Copynumber: 4.3 Consensus size: 32
19340353 TATAGGATGT
19340363 CGAATTTGATTTGTATAT-GATTATACATTGC
1 CGAATTTGATTTGTATATCGATTATACATTGC
* * *
19340394 CAAATTTGATTCT-TATAT-GGTTATATATTGC
1 CGAATTTGATT-TGTATATCGATTATACATTGC
* * * * *
19340425 CGAA-TTGCTTGGCATATCGA-TATTCATTGT
1 CGAATTTGATTTGTATATCGATTATACATTGC
* * *
19340455 CGAATTTGATTCGTATATGGATATATATATTGC
1 CGAATTTGATTTGTATATCGAT-TATACATTGC
*
19340488 TGAA-TTGATT
1 CGAATTTGATT
19340498 GGAGCATTAG
Statistics
Matches: 79, Mismatches: 19, Indels: 11
0.72 0.17 0.10
Matches are distributed among these distances:
30 20 0.25
31 42 0.53
32 7 0.09
33 10 0.13
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.44
Consensus pattern (32 bp):
CGAATTTGATTTGTATATCGATTATACATTGC
Found at i:19356065 original size:22 final size:22
Alignment explanation
Indices: 19356040--19356085 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
19356030 AGAACATTAG
*
19356040 TGGGTGAGGAAATTGAGAGTAA
1 TGGGCGAGGAAATTGAGAGTAA
19356062 TGGGCGAGGAAATTGAGAGTAA
1 TGGGCGAGGAAATTGAGAGTAA
19356084 TG
1 TG
19356086 TACCTTCGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.35, C:0.02, G:0.41, T:0.22
Consensus pattern (22 bp):
TGGGCGAGGAAATTGAGAGTAA
Found at i:19358058 original size:27 final size:27
Alignment explanation
Indices: 19358015--19358335 Score: 340
Period size: 27 Copynumber: 11.9 Consensus size: 27
19358005 AAAATGTCTG
* *
19358015 AATACTCTCGAAAGGTAAAATGACCGA
1 AATACCCTCGAAGGGTAAAATGACCGA
* * *
19358042 AATACCC-CTGAATGGTAAAATAACTGA
1 AATACCCTC-GAAGGGTAAAATGACCGA
* *
19358069 AATACCCCCGAAGGGTAAAATGACCAA
1 AATACCCTCGAAGGGTAAAATGACCGA
* * **
19358096 AATACTCTCGAAAGGTAAAATGACTAA
1 AATACCCTCGAAGGGTAAAATGACCGA
* * * **
19358123 AATACCCCCGAAGGGTAAGATAACTAA
1 AATACCCTCGAAGGGTAAAATGACCGA
19358150 AATACCCTCGAAGGGTAAAATGACCGA
1 AATACCCTCGAAGGGTAAAATGACCGA
*
19358177 AATACCCTCGAAGGGTAAAATGACCAA
1 AATACCCTCGAAGGGTAAAATGACCGA
* * **
19358204 AATACCCCCGAAGGGTAAAATAATTGA
1 AATACCCTCGAAGGGTAAAATGACCGA
* * * * *
19358231 AATACCCTAGAAAGGTTAAATAACTGA
1 AATACCCTCGAAGGGTAAAATGACCGA
*
19358258 AATACCCTCAAAGGGTAAAATGACCGA
1 AATACCCTCGAAGGGTAAAATGACCGA
* * *
19358285 AATACCCCCGAA-GGTACAATGACCAA
1 AATACCCTCGAAGGGTAAAATGACCGA
*
19358311 AATACCTTCGAAGGGTAAAATGACC
1 AATACCCTCGAAGGGTAAAATGACC
19358336 ATTATACCCC
Statistics
Matches: 245, Mismatches: 46, Indels: 6
0.82 0.15 0.02
Matches are distributed among these distances:
26 23 0.09
27 221 0.90
28 1 0.00
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.17
Consensus pattern (27 bp):
AATACCCTCGAAGGGTAAAATGACCGA
Found at i:19358153 original size:81 final size:81
Alignment explanation
Indices: 19358015--19358336 Score: 405
Period size: 81 Copynumber: 4.0 Consensus size: 81
19358005 AAAATGTCTG
* * * * * *
19358015 AATACTCTCGAAAGGTAAAATGACCGAAATACCCCTGAATGGTAAAATAACTGAAATACCCCCGA
1 AATACCCTCGAAAGGTAAAATGACCAAAATACCCCCGAAGGGTAAAATAACTAAAATACCCTCGA
19358080 AGGGTAAAATGACCAA
66 AGGGTAAAATGACCAA
* * *
19358096 AATACTCTCGAAAGGTAAAATGACTAAAATACCCCCGAAGGGTAAGATAACTAAAATACCCTCGA
1 AATACCCTCGAAAGGTAAAATGACCAAAATACCCCCGAAGGGTAAAATAACTAAAATACCCTCGA
*
19358161 AGGGTAAAATGACCGA
66 AGGGTAAAATGACCAA
* * * *
19358177 AATACCCTCGAAGGGTAAAATGACCAAAATACCCCCGAAGGGTAAAATAATTGAAATACCCTAGA
1 AATACCCTCGAAAGGTAAAATGACCAAAATACCCCCGAAGGGTAAAATAACTAAAATACCCTCGA
* * * **
19358242 AAGGTTAAATAACTGA
66 AGGGTAAAATGACCAA
* * * * *
19358258 AATACCCTC-AAAGGGTAAAATGACCGAAATACCCCCGAA-GGTACAATGACCAAAATACCTTCG
1 AATACCCTCGAAA-GGTAAAATGACCAAAATACCCCCGAAGGGTAAAATAACTAAAATACCCTCG
19358321 AAGGGTAAAATGACCA
65 AAGGGTAAAATGACCA
19358337 TTATACCCCT
Statistics
Matches: 207, Mismatches: 33, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
80 30 0.14
81 177 0.86
ACGTcount: A:0.44, C:0.21, G:0.18, T:0.17
Consensus pattern (81 bp):
AATACCCTCGAAAGGTAAAATGACCAAAATACCCCCGAAGGGTAAAATAACTAAAATACCCTCGA
AGGGTAAAATGACCAA
Found at i:19358739 original size:28 final size:28
Alignment explanation
Indices: 19358694--19358783 Score: 108
Period size: 28 Copynumber: 3.2 Consensus size: 28
19358684 ATTGCATTGT
* ** *
19358694 ACTGATTACTGAATTGGGCTAAGGGTCAT
1 ACTG-TTACTGTATTGGGCTAAGGCCCAC
*
19358723 ATTGTTACTGTATTGGGCTAAGGCCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
* *
19358751 ACTGTTACTGTAATGGGCTAAGACCCAC
1 ACTGTTACTGTATTGGGCTAAGGCCCAC
19358779 ACTGT
1 ACTGT
19358784 ACTTTTACTG
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 50 0.94
29 3 0.06
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (28 bp):
ACTGTTACTGTATTGGGCTAAGGCCCAC
Found at i:19361144 original size:31 final size:32
Alignment explanation
Indices: 19361100--19361159 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 32
19361090 AGACTTTGTG
** *
19361100 CAAACTTTTCTTTGCTCTTT-ATTCTTTTGAA
1 CAAACTTACCTTTGCTCTTTCATTATTTTGAA
*
19361131 CAAACTTACCTTTGTTCTTTCATTATTTT
1 CAAACTTACCTTTGCTCTTTCATTATTTT
19361160 TTTTCTCTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
31 17 0.71
32 7 0.29
ACGTcount: A:0.20, C:0.20, G:0.05, T:0.55
Consensus pattern (32 bp):
CAAACTTACCTTTGCTCTTTCATTATTTTGAA
Found at i:19361603 original size:20 final size:21
Alignment explanation
Indices: 19361565--19361603 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
19361555 GCATTCCATC
*
19361565 ACTTAAGATAACATAAGAATA
1 ACTTAAGATAAAATAAGAATA
*
19361586 ACTT-AGATAAAATTAGAA
1 ACTTAAGATAAAATAAGAA
19361604 ATCATGTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.56, C:0.08, G:0.10, T:0.26
Consensus pattern (21 bp):
ACTTAAGATAAAATAAGAATA
Found at i:19375324 original size:35 final size:35
Alignment explanation
Indices: 19375285--19375381 Score: 140
Period size: 35 Copynumber: 2.7 Consensus size: 35
19375275 TCGGTTGGAC
* * *
19375285 TAGCTCTTATGAGCATTAGTGTGTTTTGGAGGGAT
1 TAGCTCTTATGAGCATTGGTGTGTTTCGGAGGAAT
*
19375320 TAGCTCTTATGAGCATTGGTGTGTTTCGGATGAAT
1 TAGCTCTTATGAGCATTGGTGTGTTTCGGAGGAAT
*
19375355 TGGCTCTTATGAGCATCTGGTGTGTTT
1 TAGCTCTTATGAGCAT-TGGTGTGTTT
19375382 GGGTGGTTTG
Statistics
Matches: 56, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
35 46 0.82
36 10 0.18
ACGTcount: A:0.18, C:0.11, G:0.30, T:0.41
Consensus pattern (35 bp):
TAGCTCTTATGAGCATTGGTGTGTTTCGGAGGAAT
Found at i:19377970 original size:109 final size:109
Alignment explanation
Indices: 19377734--19377930 Score: 376
Period size: 109 Copynumber: 1.8 Consensus size: 109
19377724 AGTCATAAAT
19377734 ATGAAAATGTTGTGTGTAAATGCAAATGAATATATAAGCTAGACTTGTGGGTCATTAAAGCATGA
1 ATGAAAATGTTGTGTGTAAATGCAAATGAATATATAAGCTAGACTTGTGGGTCATTAAAGCATGA
*
19377799 ATACGTTGTTTTGTCTTGATGAAATATCATTAATAGATTAATAC
66 ATACGTTGTTTTGGCTTGATGAAATATCATTAATAGATTAATAC
*
19377843 ATGAAAATGTTGTGTGTAAATGCATATGAATATATAAGCTAGACTTGTGGGTCATTAAAGCATGA
1 ATGAAAATGTTGTGTGTAAATGCAAATGAATATATAAGCTAGACTTGTGGGTCATTAAAGCATGA
19377908 ATACGTTGTTTTGGCTTGATGAA
66 ATACGTTGTTTTGGCTTGATGAA
19377931 TTATTGTTAA
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
109 86 1.00
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (109 bp):
ATGAAAATGTTGTGTGTAAATGCAAATGAATATATAAGCTAGACTTGTGGGTCATTAAAGCATGA
ATACGTTGTTTTGGCTTGATGAAATATCATTAATAGATTAATAC
Found at i:19380194 original size:25 final size:25
Alignment explanation
Indices: 19380163--19380245 Score: 123
Period size: 25 Copynumber: 3.3 Consensus size: 25
19380153 ATGTGCTAAA
** *
19380163 CAGAGAGCACTGACATGCTAA-ATAT
1 CAGAGAGCACCAACGTGCTAATA-AT
19380188 CAGAGAGCACCAACGTGCTAATAAT
1 CAGAGAGCACCAACGTGCTAATAAT
19380213 CAGAGAGCACCAACGTGCTAATAAT
1 CAGAGAGCACCAACGTGCTAATAAT
19380238 CAGAGAGC
1 CAGAGAGC
19380246 GCGCTAAATT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
25 53 0.98
26 1 0.02
ACGTcount: A:0.40, C:0.23, G:0.22, T:0.16
Consensus pattern (25 bp):
CAGAGAGCACCAACGTGCTAATAAT
Found at i:19380589 original size:42 final size:43
Alignment explanation
Indices: 19380513--19380594 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 43
19380503 TAAAAAATTT
*
19380513 TAAAACAAATATTAAAACAAAAAATAAATAAAAAA-ATAAGAC
1 TAAAACAAATATTAAAACAAAAAACAAATAAAAAATATAAGAC
* * * * *
19380555 TAAAACAATTCTTAAAACAATACACAAATTAAAAATATAA
1 TAAAACAAATATTAAAACAAAAAACAAATAAAAAATATAA
19380595 TAAAAAGTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
42 29 0.88
43 4 0.12
ACGTcount: A:0.68, C:0.10, G:0.01, T:0.21
Consensus pattern (43 bp):
TAAAACAAATATTAAAACAAAAAACAAATAAAAAATATAAGAC
Found at i:19381198 original size:13 final size:14
Alignment explanation
Indices: 19381172--19381200 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
19381162 TAATATAGGC
19381172 ATTTAAATAAAATA
1 ATTTAAATAAAATA
19381186 ATTTAAA-AAAATA
1 ATTTAAATAAAATA
19381199 AT
1 AT
19381201 CTTGTAGTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
ATTTAAATAAAATA
Found at i:19384497 original size:21 final size:22
Alignment explanation
Indices: 19384473--19384514 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
19384463 TTATTAAATA
19384473 AAAATAAAAAAAT-ATTTTTCG
1 AAAATAAAAAAATAATTTTTCG
*
19384494 AAAATAAAATAATAATTTTTC
1 AAAATAAAAAAATAATTTTTC
19384515 AAAGTGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (22 bp):
AAAATAAAAAAATAATTTTTCG
Found at i:19385310 original size:18 final size:18
Alignment explanation
Indices: 19385278--19385323 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
19385268 AATTTATATG
19385278 TTTA-ATTTTTAATTT-A
1 TTTATATTTTTAATTTAA
*
19385294 TTTCTATTTTATAATTTAA
1 TTTATATTTT-TAATTTAA
19385313 TTTATATTTTT
1 TTTATATTTTT
19385324 TTATATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 3 0.12
17 5 0.20
18 7 0.28
19 10 0.40
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTATATTTTTAATTTAA
Found at i:19385313 original size:30 final size:30
Alignment explanation
Indices: 19385278--19385339 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
19385268 AATTTATATG
* *
19385278 TTTAATTTTTAATTTATTTCTA-TTTTATAA
1 TTTAATTTAT-ATTTATTTATATTTTTATAA
*
19385308 TTTAATTTATATTTTTTTATATTTTTATAA
1 TTTAATTTATATTTATTTATATTTTTATAA
19385338 TT
1 TT
19385340 CTTTAAAGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 9 0.32
30 19 0.68
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (30 bp):
TTTAATTTATATTTATTTATATTTTTATAA
Found at i:19385334 original size:23 final size:24
Alignment explanation
Indices: 19385269--19385334 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 24
19385259 TAATAAAAAA
*
19385269 ATTTATATGTTTA-ATTTTTAATTT
1 ATTTCTAT-TTTATATTTTTAATTT
*
19385293 ATTTCTATTTTATA-ATTTAATTT
1 ATTTCTATTTTATATTTTTAATTT
19385316 ATATT-T-TTTTATATTTTTA
1 AT-TTCTATTTTATATTTTTA
19385335 TAATTCTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
22 7 0.19
23 19 0.53
24 10 0.28
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (24 bp):
ATTTCTATTTTATATTTTTAATTT
Found at i:19393833 original size:21 final size:22
Alignment explanation
Indices: 19393778--19393928 Score: 81
Period size: 21 Copynumber: 7.3 Consensus size: 22
19393768 GCTCTTACGG
19393778 GCTTCTGTTTAACTC-ATATGA
1 GCTTCTGTTTAACTCTATATGA
* * *
19393799 GTTTCCGTTCAACTCTAT-TGA
1 GCTTCTGTTTAACTCTATATGA
* *
19393820 GCTTCTATTTAACTCT-TATGG
1 GCTTCTGTTTAACTCTATATGA
* * * *
19393841 GTTTCTATTCAGCTCT-TATGA
1 GCTTCTGTTTAACTCTATATGA
* * *
19393862 GCTTCCGTTCAAAC-CT-TATGG
1 GCTTCTGTT-TAACTCTATATGA
* *
19393883 GTTTCTGTTTAGCTC-A-ATGA
1 GCTTCTGTTTAACTCTATATGA
*
19393903 GCTTCTGTTTAGC-CT-T-TGA
1 GCTTCTGTTTAACTCTATATGA
19393922 GCTTCTG
1 GCTTCTG
19393929 ATAACGATGT
Statistics
Matches: 99, Mismatches: 24, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
19 11 0.11
20 18 0.18
21 66 0.67
22 4 0.04
ACGTcount: A:0.18, C:0.21, G:0.17, T:0.44
Consensus pattern (22 bp):
GCTTCTGTTTAACTCTATATGA
Found at i:19393863 original size:42 final size:41
Alignment explanation
Indices: 19393778--19393913 Score: 139
Period size: 42 Copynumber: 3.3 Consensus size: 41
19393768 GCTCTTACGG
* * ** *
19393778 GCTTCTGTTTAACTCATATGAGTTTCCGTTCAACTCTATTGA
1 GCTTCTGTTTAACTCTTATGGGTTTCTATTCAGCTCTA-TGA
*
19393820 GCTTCTATTTAACTCTTATGGGTTTCTATTCAGCTCTTATGA
1 GCTTCTGTTTAACTCTTATGGGTTTCTATTCAGCTC-TATGA
* * * * *
19393862 GCTTCCGTTCAAAC-CTTATGGGTTTCTGTTTAGCTCAATGA
1 GCTTCTGTT-TAACTCTTATGGGTTTCTATTCAGCTCTATGA
19393903 GCTTCTGTTTA
1 GCTTCTGTTTA
19393914 GCCTTTGAGC
Statistics
Matches: 78, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
40 1 0.01
41 12 0.15
42 60 0.77
43 5 0.06
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.44
Consensus pattern (41 bp):
GCTTCTGTTTAACTCTTATGGGTTTCTATTCAGCTCTATGA
Found at i:19393924 original size:19 final size:20
Alignment explanation
Indices: 19393885--19393928 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
19393875 CCTTATGGGT
19393885 TTCTGTTTAGCTCAATGAGC
1 TTCTGTTTAGCTCAATGAGC
**
19393905 TTCTGTTTAGC-CTTTGAGC
1 TTCTGTTTAGCTCAATGAGC
19393924 TTCTG
1 TTCTG
19393929 ATAACGATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.45
Consensus pattern (20 bp):
TTCTGTTTAGCTCAATGAGC
Found at i:19397542 original size:51 final size:51
Alignment explanation
Indices: 19397391--19397630 Score: 306
Period size: 51 Copynumber: 4.7 Consensus size: 51
19397381 TAAAAGTGAA
* * * * *
19397391 AGTGATGCTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-
1 AGTGATGGTCACATGTGTAGTACTATGTGTAGGCTACGACGTGTATCGGAT
* * * * * *
19397441 A-TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAT
1 AGTGAT-GGTCACATGTGTAGTACTATGTGTAGGCTACGACGTGTATCGGAT
* * * *
19397492 AGCT-TTGATCACGTGTGTAGTACTATATGTAGGCTACGACGTGTATCGGAT
1 AG-TGATGGTCACATGTGTAGTACTATGTGTAGGCTACGACGTGTATCGGAT
19397543 AGTGATGGTCACATGTGTAGTACTATGTGTAGGCTACGACGTGTATCGGAT
1 AGTGATGGTCACATGTGTAGTACTATGTGTAGGCTACGACGTGTATCGGAT
19397594 AGTGATGGTCACATGTGTAGTACTATGTGTAGGCTAC
1 AGTGATGGTCACATGTGTAGTACTATGTGTAGGCTAC
19397631 TATGTGAACC
Statistics
Matches: 166, Mismatches: 19, Indels: 9
0.86 0.10 0.05
Matches are distributed among these distances:
49 4 0.02
50 41 0.25
51 119 0.72
52 1 0.01
53 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (51 bp):
AGTGATGGTCACATGTGTAGTACTATGTGTAGGCTACGACGTGTATCGGAT
Found at i:19397612 original size:25 final size:25
Alignment explanation
Indices: 19397532--19397612 Score: 71
Period size: 25 Copynumber: 3.2 Consensus size: 25
19397522 AGGCTACGAC
19397532 GTGTATCGGATAGTGATGGTCACAT
1 GTGTATCGGATAGTGATGGTCACAT
* *
19397557 GTGTA--GTACTATGTG-TAGG-CTACGAC
1 GTGTATCGGA-TA-GTGAT-GGTC-AC-AT
19397583 GTGTATCGGATAGTGATGGTCACAT
1 GTGTATCGGATAGTGATGGTCACAT
19397608 GTGTA
1 GTGTA
19397613 GTACTATGTG
Statistics
Matches: 43, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
23 2 0.05
24 4 0.09
25 18 0.42
26 13 0.30
27 4 0.09
28 2 0.05
ACGTcount: A:0.23, C:0.12, G:0.32, T:0.32
Consensus pattern (25 bp):
GTGTATCGGATAGTGATGGTCACAT
Found at i:19397729 original size:46 final size:43
Alignment explanation
Indices: 19397638--19397736 Score: 110
Period size: 46 Copynumber: 2.2 Consensus size: 43
19397628 TACTATGTGA
* *
19397638 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCTGATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTAATCCC
* *
19397681 ACCGGATATCATTGATTAGAAAGGGTGGTTGCTGTGTGCTAAAT-CC
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCT-AATCCC
19397727 ACCGTGTATC
1 ACCG-GTATC
19397737 TGTTATTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
43 5 0.11
44 11 0.23
45 2 0.04
46 26 0.55
47 3 0.06
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTAATCCC
Found at i:19404455 original size:42 final size:42
Alignment explanation
Indices: 19404386--19404524 Score: 111
Period size: 42 Copynumber: 3.3 Consensus size: 42
19404376 TAGCTCTCAC
* * * * *
19404386 GAGCTTATATTTAACTCATATGAGTTTCTGTTCAGCTCTATT
1 GAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTATT
* ** *
19404428 GAGCTTTTGTTTAACCCTTATGGGTTTCCATTCAGCTAT-TAT
1 GAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTAT-T
* * * * * *
19404470 AAGCTTCCGTTCAACCTTTATGGATTTCTGTTTAGCTCTCA-T
1 GAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCT-ATT
19404512 GAGCTTCTGTTTA
1 GAGCTTCTGTTTA
19404525 GCCTTCGGGC
Statistics
Matches: 73, Mismatches: 21, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
41 1 0.01
42 72 0.99
ACGTcount: A:0.20, C:0.19, G:0.16, T:0.45
Consensus pattern (42 bp):
GAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTATT
Found at i:19405995 original size:19 final size:18
Alignment explanation
Indices: 19405956--19405997 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
19405946 ACACTCGCCG
* *
19405956 ATCA-CAACAATCTCCAC
1 ATCATCAACAATCTCAAA
19405973 ATCATCAACAATTCTCAAA
1 ATCATCAACAA-TCTCAAA
19405992 ATCATC
1 ATCATC
19405998 CTCTTAGTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 4 0.19
18 6 0.29
19 11 0.52
ACGTcount: A:0.43, C:0.33, G:0.00, T:0.24
Consensus pattern (18 bp):
ATCATCAACAATCTCAAA
Found at i:19407614 original size:37 final size:37
Alignment explanation
Indices: 19407557--19407627 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
19407547 GTTTACAGAT
*
19407557 CAAATATAATTCAATCGTATCATTTACTATTCATATC
1 CAAATATAATTAAATCGTATCATTTACTATTCATATC
*
19407594 CAAATATAATTAAATTGTATCATTTACTATTCAT
1 CAAATATAATTAAATCGTATCATTTACTATTCAT
19407628 GCATATTCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.39, C:0.15, G:0.03, T:0.42
Consensus pattern (37 bp):
CAAATATAATTAAATCGTATCATTTACTATTCATATC
Found at i:19419913 original size:21 final size:20
Alignment explanation
Indices: 19419880--19419919 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
19419870 CCTTTTTAAT
19419880 ATAAAACCAAATAGAAACCA
1 ATAAAACCAAATAGAAACCA
* *
19419900 ATAAATCCTAAATATAAACC
1 ATAAAACC-AAATAGAAACC
19419920 CACAAAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.60, C:0.20, G:0.03, T:0.17
Consensus pattern (20 bp):
ATAAAACCAAATAGAAACCA
Found at i:19420595 original size:32 final size:32
Alignment explanation
Indices: 19420554--19420617 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
19420544 TATTTGAAGA
*
19420554 TAATGAATATTTTTTATTAAGTAAGGCTCTGC
1 TAATGAATATTTCTTATTAAGTAAGGCTCTGC
*
19420586 TAATGAATATTTCTTATTAAGTTAGGCTCTGC
1 TAATGAATATTTCTTATTAAGTAAGGCTCTGC
19420618 AAACGTAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.44
Consensus pattern (32 bp):
TAATGAATATTTCTTATTAAGTAAGGCTCTGC
Found at i:19426993 original size:221 final size:219
Alignment explanation
Indices: 19426585--19427028 Score: 610
Period size: 221 Copynumber: 2.0 Consensus size: 219
19426575 AGTTTAAATC
* * *
19426585 CCTTAGGACTCTCATCTTGCAGATAGACACTAATCTCAGCCACTGATGTAATTCAATCTGTACCG
1 CCTTAGGAATCTCATATTGCAGATAAACACTAATCTCAGCCACTGATGTAATTCAATCTGTACCG
* * * * * *
19426650 TTGGATTTGGGGGAGCTCAACTAAATAGAGGTCTTCTCCCTCATTTGTAATCACTTAGTTATTCC
66 TTGGATCTGGGAGAGATCAACTAAATAGAGGTCTTCCCCCTCATTTGTAATCACTCAGTTAATCC
* *
19426715 TTCTAAGTAATAGAATATTTTTTAGAACATTTACTCAAACACTTGGTGTGTTATTATTCTCTTTT
131 TTCTAAGTAATAGAATATTTTTTAGAACATTTACTCAAACACTTGGTGTGCTATTATTCTCTTTC
19426780 GGC-TTTTCTGTTCAATACAAGTT
196 GGCTTTTTCTGTTCAATACAAGTT
* * * *
19426803 CCTTAGGAATCTCATATTGTAGATAAACACTAATC-CTAGTCATTGATGTAATTCAATTTGTACC
1 CCTTAGGAATCTCATATTGCAGATAAACACTAATCTC-AGCCACTGATGTAATTCAATCTGTACC
19426867 GTTGGATCT-GGAGAGATCAACTATAAATAGA-GTCCTTCCCCCTCATTTGTAATCACTCAGTTG
65 GTTGGATCTGGGAGAGATCAAC--TAAATAGAGGT-CTTCCCCCTCATTTGTAATCACTCAG-T-
**
19426930 TAATCCTTC-ATAGTAATAGAATATTTTTTAGAGTATTTACTCAAACACTTGGTGTGCTATTATT
125 TAATCCTTCTA-AGTAATAGAATATTTTTTAGAACATTTACTCAAACACTTGGTGTGCTATTATT
* * *
19426994 TTCTTTCGGCTTTTTTTGTTCAATATAAGTT
189 CTCTTTCGGCTTTTTCTGTTCAATACAAGTT
19427025 CCTT
1 CCTT
19427029 TGTATTTTCG
Statistics
Matches: 198, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
217 11 0.06
218 65 0.33
219 32 0.16
220 2 0.01
221 66 0.33
222 22 0.11
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (219 bp):
CCTTAGGAATCTCATATTGCAGATAAACACTAATCTCAGCCACTGATGTAATTCAATCTGTACCG
TTGGATCTGGGAGAGATCAACTAAATAGAGGTCTTCCCCCTCATTTGTAATCACTCAGTTAATCC
TTCTAAGTAATAGAATATTTTTTAGAACATTTACTCAAACACTTGGTGTGCTATTATTCTCTTTC
GGCTTTTTCTGTTCAATACAAGTT
Found at i:19427609 original size:26 final size:26
Alignment explanation
Indices: 19427580--19427638 Score: 66
Period size: 29 Copynumber: 2.2 Consensus size: 26
19427570 CCAAGTACGA
*
19427580 TTTCT-AGCCTTCATTGCTGATTATTT
1 TTTCTAAGCCTTCATTGC-CATTATTT
*
19427606 TTTCACTAAGCCTTCATTGCCATTTTTT
1 TTT--CTAAGCCTTCATTGCCATTATTT
19427634 TTTCT
1 TTTCT
19427639 TTCAAACCTC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
26 5 0.18
28 11 0.39
29 12 0.43
ACGTcount: A:0.15, C:0.22, G:0.08, T:0.54
Consensus pattern (26 bp):
TTTCTAAGCCTTCATTGCCATTATTT
Found at i:19454854 original size:61 final size:61
Alignment explanation
Indices: 19454746--19454895 Score: 167
Period size: 61 Copynumber: 2.4 Consensus size: 61
19454736 ATTTACACAT
* * * *
19454746 TCTATCAATTT-GATCCTAAATATAAAAAATAATAATAAATTTAGCCCTCAATATAAACAAAA
1 TCTATCAATTTAG-TCCTAAATCTAAAATAT-TTAATAAATTTAGCCCTCAAAATAAACAAAA
* * * * * * **
19454808 TTTGTCATTTTAGTTCTAATTCTAAAATATTTAATAAATTTGGCCCTCAAAATTTACAAAA
1 TCTATCAATTTAGTCCTAAATCTAAAATATTTAATAAATTTAGCCCTCAAAATAAACAAAA
19454869 TCTATCAATTTAGTCCTAAATCTAAAA
1 TCTATCAATTTAGTCCTAAATCTAAAA
19454896 ATTAAAATTA
Statistics
Matches: 70, Mismatches: 17, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
61 48 0.69
62 21 0.30
63 1 0.01
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.37
Consensus pattern (61 bp):
TCTATCAATTTAGTCCTAAATCTAAAATATTTAATAAATTTAGCCCTCAAAATAAACAAAA
Found at i:19457290 original size:32 final size:32
Alignment explanation
Indices: 19457254--19457315 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
19457244 AGCTTTTGGT
19457254 TTTTTCATGTTGGCAAAGAGTTGAACAATGGA
1 TTTTTCATGTTGGCAAAGAGTTGAACAATGGA
** *
19457286 TTTTTTGTGTTGTCAAAGAGTTGAACAATG
1 TTTTTCATGTTGGCAAAGAGTTGAACAATG
19457316 AAAATAGATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (32 bp):
TTTTTCATGTTGGCAAAGAGTTGAACAATGGA
Found at i:19457679 original size:4 final size:4
Alignment explanation
Indices: 19457670--19457784 Score: 230
Period size: 4 Copynumber: 28.8 Consensus size: 4
19457660 ACAACGATCA
19457670 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
19457718 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
19457766 TATC TATC TATC TATC TAT
1 TATC TATC TATC TATC TAT
19457785 ATGTCGGTCT
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 111 1.00
ACGTcount: A:0.25, C:0.24, G:0.00, T:0.50
Consensus pattern (4 bp):
TATC
Found at i:19461872 original size:53 final size:53
Alignment explanation
Indices: 19461808--19461924 Score: 218
Period size: 53 Copynumber: 2.2 Consensus size: 53
19461798 AAATTTTAAA
*
19461808 TTTTAAATTTGAATATTGATATGTTAATATGTATTTAAAAATATATTGTTATC
1 TTTTAAATTTGAATATTGATATGTTAATATGTATTTAAAAATATACTGTTATC
19461861 TTTTAAATTTGAATATTGATATGTTAATATGTATTTAAAAATATACTGTTATC
1 TTTTAAATTTGAATATTGATATGTTAATATGTATTTAAAAATATACTGTTATC
19461914 TTTT-AATTTGA
1 TTTTAAATTTGA
19461925 TTGAAAGATG
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
52 7 0.11
53 56 0.89
ACGTcount: A:0.37, C:0.03, G:0.09, T:0.51
Consensus pattern (53 bp):
TTTTAAATTTGAATATTGATATGTTAATATGTATTTAAAAATATACTGTTATC
Found at i:19473743 original size:27 final size:27
Alignment explanation
Indices: 19473703--19473768 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 27
19473693 CAGCAGAGCT
19473703 ACCAGT-ACAGTATATGTGGCAAAGCC
1 ACCAGTAACAGTATATGTGGCAAAGCC
* *
19473729 ACGAGTAACAGTATATGTGGCAGAGCC
1 ACCAGTAACAGTATATGTGGCAAAGCC
*
19473756 ACCCGTAACAGTA
1 ACCAGTAACAGTA
19473769 CTTTCTCCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
26 5 0.14
27 30 0.86
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (27 bp):
ACCAGTAACAGTATATGTGGCAAAGCC
Found at i:19474022 original size:27 final size:27
Alignment explanation
Indices: 19473971--19474022 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
19473961 ATGGTCATTT
* **
19473971 TACCCTACAAGGGTATTTCGGTAATCC
1 TACCCTACAAAGGTATTTCAATAATCC
19473998 TACCCTACAAAGGTATTTCAATAAT
1 TACCCTACAAAGGTATTTCAATAAT
19474023 TTCACAAACC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.33, C:0.23, G:0.13, T:0.31
Consensus pattern (27 bp):
TACCCTACAAAGGTATTTCAATAATCC
Found at i:19474063 original size:27 final size:27
Alignment explanation
Indices: 19474009--19474145 Score: 98
Period size: 27 Copynumber: 5.0 Consensus size: 27
19473999 ACCCTACAAA
** **
19474009 GGTATTTCAATAATTTCACAAACCAGG
1 GGTATTTTGATAATTTCACAAATTAGG
*
19474036 GTTATTTTGATAATTTCACAAATTAGG
1 GGTATTTTGATAATTTCACAAATTAGG
* * * * *
19474063 GGTGTTTCGGTAATTTTACAAATTACG
1 GGTATTTTGATAATTTCACAAATTAGG
* * * **
19474090 GGTA-TTTCAGTAATTTTACACA-CCGG
1 GGTATTTTGA-TAATTTCACAAATTAGG
19474116 AGGTATTTTGATAATTTCACAAATTTAGG
1 -GGTATTTTGATAATTTCACAAA-TTAGG
19474145 G
1 G
19474146 TCTCGGTGAC
Statistics
Matches: 81, Mismatches: 24, Indels: 9
0.71 0.21 0.08
Matches are distributed among these distances:
26 3 0.04
27 71 0.88
28 5 0.06
29 2 0.02
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.38
Consensus pattern (27 bp):
GGTATTTTGATAATTTCACAAATTAGG
Found at i:19482465 original size:14 final size:14
Alignment explanation
Indices: 19482446--19482481 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
19482436 ATTACGTTAG
19482446 AAATTAAAGTATAT
1 AAATTAAAGTATAT
19482460 AAATTAAAGTATAT
1 AAATTAAAGTATAT
19482474 AAATTAAA
1 AAATTAAA
19482482 TCAGAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (14 bp):
AAATTAAAGTATAT
Found at i:19484309 original size:35 final size:35
Alignment explanation
Indices: 19484263--19484363 Score: 114
Period size: 35 Copynumber: 2.9 Consensus size: 35
19484253 GGCCAGATCG
* *
19484263 GGCATGTGGGCCACAAGGGCACGTGGGCTCACACA
1 GGCATGTGGGCCACACGGGCATGTGGGCTCACACA
* * * *
19484298 GGCATATGGGCCAGACGGGTATGTGGGC-CAGACA
1 GGCATGTGGGCCACACGGGCATGTGGGCTCACACA
* *
19484332 GACGTGTGGGCCCACACGGGCATGTGGGCTCA
1 GGCATGTGGG-CCACACGGGCATGTGGGCTCA
19484364 TAATTCTGAA
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
34 12 0.23
35 39 0.74
36 2 0.04
ACGTcount: A:0.21, C:0.26, G:0.40, T:0.14
Consensus pattern (35 bp):
GGCATGTGGGCCACACGGGCATGTGGGCTCACACA
Found at i:19484326 original size:17 final size:17
Alignment explanation
Indices: 19484253--19484360 Score: 90
Period size: 17 Copynumber: 6.2 Consensus size: 17
19484243 ACACGAGCTA
19484253 GGCCAGATCGGGCATGTG
1 GGCCAGA-CGGGCATGTG
* * *
19484271 GGCCACAAGGGCACGTG
1 GGCCAGACGGGCATGTG
* * *
19484288 GGCTCACACAGGCATATG
1 GGC-CAGACGGGCATGTG
*
19484306 GGCCAGACGGGTATGTG
1 GGCCAGACGGGCATGTG
* * *
19484323 GGCCAGACAGACGTGTG
1 GGCCAGACGGGCATGTG
*
19484340 GGCCCACACGGGCATGTG
1 GG-CCAGACGGGCATGTG
19484358 GGC
1 GGC
19484361 TCATAATTCT
Statistics
Matches: 69, Mismatches: 19, Indels: 5
0.74 0.20 0.05
Matches are distributed among these distances:
17 37 0.54
18 32 0.46
ACGTcount: A:0.20, C:0.26, G:0.41, T:0.13
Consensus pattern (17 bp):
GGCCAGACGGGCATGTG
Found at i:19490689 original size:296 final size:296
Alignment explanation
Indices: 19490155--19490747 Score: 1055
Period size: 296 Copynumber: 2.0 Consensus size: 296
19490145 ATTCACATTA
*
19490155 ATATCATTTGTATTTGTCCTTAATGGTTTTTGCACTCAAAACAAAATGTAAGCAAATATTTGCTC
1 ATATCATTTGTATTTGTCCTTAATGGTTTTTGCACTCAAAACAAAATGTAAGAAAATATTTGCTC
* *
19490220 ATTGATTACCTAAATTTTAACTGATACTAAGTTATATTACGTTGTTGGATCGGAATGTAAGAAGA
66 ATTGATTACCTAAATTTTAACTAATACTAAGTTATATTACGTTGTTGGATCAGAATGTAAGAAGA
19490285 CAACTTGTATTAGTAGGTAATCTAAAAGGTCTATAGTCTAAAAGGACTATTATGTCGTCTATCAA
131 CAACTTGTATTAGTAGGTAATCTAAAAGGTCTATAGTCTAAAAGGACTATTATGTCGTCTATCAA
* * *
19490350 GTCCAAATAGGTGGATACCTTATCTTGGATATTAGAATGATTTACTCCCAGAAGATAGAGACATA
196 GTCCAAATAGGGGGATACATTATCTTGGATATTAGAATGATTTACTCCCAAAAGATAGAGACATA
19490415 AATATTATTTTCTAGACTAACAATACATTAGACATG
261 AATATTATTTTCTAGACTAACAATACATTAGACATG
19490451 ATATCATTTGTATTTGTCCTTAATGGTTTTTGCACTCAAAACAAAATGTAAGAAAATATTTGCTC
1 ATATCATTTGTATTTGTCCTTAATGGTTTTTGCACTCAAAACAAAATGTAAGAAAATATTTGCTC
* *
19490516 ATTGATTACCTAAATTTTAACTAATATTAAGTTGTATTACGTTGTCT-GATCAGAATGTAAGAAG
66 ATTGATTACCTAAATTTTAACTAATACTAAGTTATATTACGTTGT-TGGATCAGAATGTAAGAAG
19490580 ACAACTTGTATTAGTAGGTAATCTAAAAGGTCTATAGTCTAAAAGGACTATTATGTCGTCTATCA
130 ACAACTTGTATTAGTAGGTAATCTAAAAGGTCTATAGTCTAAAAGGACTATTATGTCGTCTATCA
* *
19490645 AGTCCAAAT-GGGGAGATGCATTATCTTGGATATTAGAGTGATTTACTCCCAAAAGATAGAGACA
195 AGTCCAAATAGGGG-GATACATTATCTTGGATATTAGAATGATTTACTCCCAAAAGATAGAGACA
*
19490709 TAAATGTTATTTTCTAGACTAACAATACATTAGACATG
259 TAAATATTATTTTCTAGACTAACAATACATTAGACATG
19490747 A
1 A
19490748 CCCAAGTTGA
Statistics
Matches: 284, Mismatches: 11, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
295 3 0.01
296 280 0.99
297 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (296 bp):
ATATCATTTGTATTTGTCCTTAATGGTTTTTGCACTCAAAACAAAATGTAAGAAAATATTTGCTC
ATTGATTACCTAAATTTTAACTAATACTAAGTTATATTACGTTGTTGGATCAGAATGTAAGAAGA
CAACTTGTATTAGTAGGTAATCTAAAAGGTCTATAGTCTAAAAGGACTATTATGTCGTCTATCAA
GTCCAAATAGGGGGATACATTATCTTGGATATTAGAATGATTTACTCCCAAAAGATAGAGACATA
AATATTATTTTCTAGACTAACAATACATTAGACATG
Found at i:19491407 original size:13 final size:13
Alignment explanation
Indices: 19491389--19491420 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
19491379 TTTCCAGGAT
*
19491389 CCACACAGGATGG
1 CCACACAGAATGG
19491402 CCACACAGAATGG
1 CCACACAGAATGG
19491415 CCACAC
1 CCACAC
19491421 GCCCGTGTGA
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:0.34, C:0.38, G:0.22, T:0.06
Consensus pattern (13 bp):
CCACACAGAATGG
Found at i:19492580 original size:18 final size:17
Alignment explanation
Indices: 19492557--19492590 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
19492547 ATTGCTTTTT
19492557 ATTTTTGGTTTTAGTTTA
1 ATTTTT-GTTTTAGTTTA
*
19492575 ATTTTTGTTTTTGTTT
1 ATTTTTGTTTTAGTTT
19492591 TCTAATTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.12, C:0.00, G:0.15, T:0.74
Consensus pattern (17 bp):
ATTTTTGTTTTAGTTTA
Found at i:19495538 original size:17 final size:17
Alignment explanation
Indices: 19495513--19495546 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
19495503 TGTCCCATGC
*
19495513 TGTGACCCATACAACCT
1 TGTGACCCACACAACCT
*
19495530 TGTGGCCCACACAACCT
1 TGTGACCCACACAACCT
19495547 AAACACACGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.38, G:0.15, T:0.21
Consensus pattern (17 bp):
TGTGACCCACACAACCT
Found at i:19496698 original size:20 final size:20
Alignment explanation
Indices: 19496656--19496698 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
19496646 ATTTTCTTTG
* *
19496656 TTTTTATTTTATTTATTTAT
1 TTTTTATTTTAGTTACTTAT
*
19496676 TTTTTATTTTAGTTACTTCT
1 TTTTTATTTTAGTTACTTAT
19496696 TTT
1 TTT
19496699 CTTGGTGTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTTTATTTTAGTTACTTAT
Found at i:19496780 original size:15 final size:15
Alignment explanation
Indices: 19496737--19496784 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
19496727 TTTTAGATTC
*
19496737 TTTTATT-TTAGTAT
1 TTTTATTGTTATTAT
*
19496751 TTTTATTTTTATTAT
1 TTTTATTGTTATTAT
* *
19496766 TTTTCTTGTTCTTAT
1 TTTTATTGTTATTAT
19496781 TTTT
1 TTTT
19496785 TTCATTTTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 7 0.24
15 22 0.76
ACGTcount: A:0.15, C:0.04, G:0.04, T:0.77
Consensus pattern (15 bp):
TTTTATTGTTATTAT
Found at i:19498531 original size:6 final size:6
Alignment explanation
Indices: 19498434--19498483 Score: 82
Period size: 6 Copynumber: 8.3 Consensus size: 6
19498424 AGTTTATTTC
* *
19498434 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATG TTTATT GTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
19498482 TT
1 TT
19498484 CTTAGATTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:19501228 original size:14 final size:14
Alignment explanation
Indices: 19501205--19501235 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
19501195 TGTTGCGTTC
*
19501205 TTAGTTAATTTAGA
1 TTAGTAAATTTAGA
19501219 TTAGTAAATTTAGA
1 TTAGTAAATTTAGA
19501233 TTA
1 TTA
19501236 AAAATAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
TTAGTAAATTTAGA
Found at i:19505318 original size:26 final size:26
Alignment explanation
Indices: 19505263--19505333 Score: 90
Period size: 26 Copynumber: 2.7 Consensus size: 26
19505253 TCATCCCTAT
** *
19505263 TTTACCCCCAGTAAAATTTTGATAGT
1 TTTACCCCTGGTAAAATTTTGATAGA
19505289 TTTACCCCTGGTAAAATTTTGAT-GAA
1 TTTACCCCTGGTAAAATTTTGATAG-A
*
19505315 TTTACCCCTGATAAAATTT
1 TTTACCCCTGGTAAAATTT
19505334 CAAGAAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 1 0.03
26 39 0.98
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.39
Consensus pattern (26 bp):
TTTACCCCTGGTAAAATTTTGATAGA
Found at i:19513520 original size:5 final size:5
Alignment explanation
Indices: 19513510--19513538 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
19513500 ATAACATTTT
19513510 TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATA
19513539 TTTATATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:19515588 original size:20 final size:20
Alignment explanation
Indices: 19515560--19515604 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
19515550 AGGTATTAGC
*
19515560 TTTTACAAGCTTTTAGAGAA
1 TTTTGCAAGCTTTTAGAGAA
19515580 TTTTGCAAGCTTTTAGAGAA
1 TTTTGCAAGCTTTTAGAGAA
19515600 TTTTG
1 TTTTG
19515605 TGTGGGTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.29, C:0.09, G:0.18, T:0.44
Consensus pattern (20 bp):
TTTTGCAAGCTTTTAGAGAA
Found at i:19519822 original size:133 final size:134
Alignment explanation
Indices: 19519583--19519844 Score: 312
Period size: 133 Copynumber: 2.0 Consensus size: 134
19519573 GTGTTTACTT
* ** * ** *
19519583 CTTGTCTTACTACACCTATCAAAATGGCATTGAGATGGTACAACTTTTAGCCATATATTTAGGAT
1 CTTGTCTTACTACACCTATCAAAATGACATCAAGATGGTAAAACTTCAAGCCATATAATTAGGAT
* * * * ** * *
19519648 GACGTGTATTTTTCATTTGGGAAATGTTCTCCTTTTTGGTATCCATGCTGTATATAAATCATGAC
66 CACGTGTATTTTTCATTTGGGAAATATTCGCCTTCTTGGTATCCACACTCTAGATAAATCATGAC
19519713 ATGA
131 ATGA
* * * *
19519717 CTTGTCTTACTA-ACCTATCAAGATGACATCAAGGTGGTAAAACTTCAAGCCTTGTAATTAGGAT
1 CTTGTCTTACTACACCTATCAAAATGACATCAAGATGGTAAAACTTCAAGCCATATAATTAGGAT
* *
19519781 CATGTGTAGTTTTT-ATTTGGGAAATATTGGCCTTCTTGGTATCCACACTCTAGATAAATCATGA
66 CACGTGTA-TTTTTCATTTGGGAAATATTCGCCTTCTTGGTATCCACACTCTAGATAAATCATGA
19519845 GAATGCATCT
Statistics
Matches: 106, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
133 89 0.84
134 17 0.16
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.37
Consensus pattern (134 bp):
CTTGTCTTACTACACCTATCAAAATGACATCAAGATGGTAAAACTTCAAGCCATATAATTAGGAT
CACGTGTATTTTTCATTTGGGAAATATTCGCCTTCTTGGTATCCACACTCTAGATAAATCATGAC
ATGA
Found at i:19524637 original size:5 final size:6
Alignment explanation
Indices: 19524626--19524669 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
19524616 GTTTTTTCTC
* *
19524626 CCCCCA -CCCCA -CCCCA GCCCCA GCCCCA CCCCCA CCCCCA CCCC
1 CCCCCA CCCCCA CCCCCA CCCCCA CCCCCA CCCCCA CCCCCA CCCC
19524670 TTCTATTTTT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
5 10 0.28
6 26 0.72
ACGTcount: A:0.16, C:0.80, G:0.05, T:0.00
Consensus pattern (6 bp):
CCCCCA
Found at i:19530493 original size:85 final size:85
Alignment explanation
Indices: 19530348--19530518 Score: 209
Period size: 85 Copynumber: 2.0 Consensus size: 85
19530338 AACGCTCCAC
* * * * * * *
19530348 ATACTTGTGTTGTTGCAAGTATGTTACAGGATCATCTGGAATTGGATTTTGACCTAATCTCTGAC
1 ATACTTGTGTTGTTGCAAGTATGTCACAAGATCATCTGAAATTGGATTCTAACATAATCTCTAAC
* * *
19530413 ATTGTCTTACTTATTTTGAA
66 ATTATCTTACCTATGTTGAA
* * *
19530433 ATACTTGTGTTGTTGCAGGTATGTCACAAGATCA-CTCGAAATTGGATTCTAAGATGATCTCTAA
1 ATACTTGTGTTGTTGCAAGTATGTCACAAGATCATCT-GAAATTGGATTCTAACATAATCTCTAA
19530497 CATTATCTTACCTATGTTGAA
65 CATTATCTTACCTATGTTGAA
19530518 A
1 A
19530519 GCGAGTCCTA
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
84 2 0.03
85 70 0.97
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.39
Consensus pattern (85 bp):
ATACTTGTGTTGTTGCAAGTATGTCACAAGATCATCTGAAATTGGATTCTAACATAATCTCTAAC
ATTATCTTACCTATGTTGAA
Found at i:19531661 original size:5 final size:5
Alignment explanation
Indices: 19531653--19531698 Score: 56
Period size: 5 Copynumber: 8.8 Consensus size: 5
19531643 CCTAATCTAA
* *
19531653 AAAAG AAAAG AAAAAG AAAAAG AGAAG AGAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG -AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
19531699 AGCCCTAACC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 27 0.71
6 11 0.29
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:19536043 original size:25 final size:26
Alignment explanation
Indices: 19536015--19536063 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
19536005 CAACAAAACT
*
19536015 AAAATCTAACCT-AAAAAGAAAAGAG
1 AAAACCTAACCTAAAAAAGAAAAGAG
*
19536040 AAAACCTAATCTAAAAAAGAAAAG
1 AAAACCTAACCTAAAAAAGAAAAG
19536064 TAAAAGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.65, C:0.12, G:0.10, T:0.12
Consensus pattern (26 bp):
AAAACCTAACCTAAAAAAGAAAAGAG
Found at i:19536068 original size:25 final size:24
Alignment explanation
Indices: 19536009--19536068 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
19535999 AGGAAACAAC
* *
19536009 AAAACTAAAATCTAACCTAAAAAG
1 AAAAGTAAAACCTAACCTAAAAAG
* *
19536033 AAAAGAGAAAACCTAATCTAAAAAAG
1 AAAAG-TAAAACCTAACCT-AAAAAG
19536059 AAAAGTAAAA
1 AAAAGTAAAA
19536069 GAAAAGAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 4 0.14
25 14 0.48
26 11 0.38
ACGTcount: A:0.67, C:0.12, G:0.08, T:0.13
Consensus pattern (24 bp):
AAAAGTAAAACCTAACCTAAAAAG
Found at i:19538230 original size:81 final size:76
Alignment explanation
Indices: 19538129--19538419 Score: 319
Period size: 75 Copynumber: 3.8 Consensus size: 76
19538119 TTTTCATTGC
* * * * *
19538129 TTTTA-TTTTTTGGTAAATTGTAAATAAGTATATATTATTGATGTAAAATATAGTAGGATATAAT
1 TTTTATTTTTTTCGTAGATTGTAAATAAGTATATATTATTGATATAAAATACAATA-GA-ATAA-
*
19538193 ATAAACAAATTTTTT
63 AT-AACAAATTATTT
* *
19538208 TTTTCATTTTTTTCGTATATTGTAAATAAGTATATATTATTGATATAAAATACAATAAAATAAA-
1 TTTT-ATTTTTTTCGTAGATTGTAAATAAGTATATATTATTGATATAAAATACAATAGAATAAAT
*
19538272 ATACAAA-TAATT
65 A-ACAAATTATTT
** *
19538284 TTTTAAATTTTTCGTAGATTGTAAATAAATATATATTATTGATATAAAATACAATAGAATACAAT
1 TTTTATTTTTTTCGTAGATTGTAAATAAGTATATATTATTGATATAAAATACAATAGAATA-AAT
*
19538349 -ACAAATAATTT
65 AACAAATTATTT
* *
19538360 TTCTATTGTTTTT-GTAGATTGTAAATAAG--TATATTATTGATGTAAAATACAATAG-ATAAA
1 TTTTATT-TTTTTCGTAGATTGTAAATAAGTATATATTATTGATATAAAATACAATAGAATAAA
19538420 CTTTTTTTTG
Statistics
Matches: 185, Mismatches: 20, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
72 2 0.01
73 3 0.02
74 25 0.14
75 57 0.31
76 32 0.17
77 10 0.05
78 1 0.01
79 8 0.04
80 2 0.01
81 45 0.24
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.44
Consensus pattern (76 bp):
TTTTATTTTTTTCGTAGATTGTAAATAAGTATATATTATTGATATAAAATACAATAGAATAAATA
ACAAATTATTT
Found at i:19543266 original size:16 final size:16
Alignment explanation
Indices: 19543245--19543275 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19543235 TGGCAGTTTG
19543245 ATAGTTAATTGAAATT
1 ATAGTTAATTGAAATT
*
19543261 ATAGTTGATTGAAAT
1 ATAGTTAATTGAAAT
19543276 GGATTGAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (16 bp):
ATAGTTAATTGAAATT
Found at i:19543352 original size:16 final size:16
Alignment explanation
Indices: 19543333--19543366 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
19543323 AAATGAATGT
* *
19543333 ATGTGTAAATGTGATA
1 ATGTGCAAATATGATA
19543349 ATGTGCAAATATGATA
1 ATGTGCAAATATGATA
19543365 AT
1 AT
19543367 TGGATATTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGTGCAAATATGATA
Found at i:19549298 original size:14 final size:12
Alignment explanation
Indices: 19549279--19549317 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
19549269 CAACTTTTAT
19549279 ATATTATTATGTAA
1 ATATTATTAT-T-A
*
19549293 ATATTATTATTT
1 ATATTATTATTA
19549305 ATATTATTATTA
1 ATATTATTATTA
19549317 A
1 A
19549318 GTTTTTCTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 12 0.52
13 1 0.04
14 10 0.43
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (12 bp):
ATATTATTATTA
Found at i:19549310 original size:12 final size:13
Alignment explanation
Indices: 19549275--19549316 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
19549265 ATTTCAACTT
19549275 TTATATATTATTA
1 TTATATATTATTA
*
19549288 TGTAAATATTATTA
1 T-TATATATTATTA
19549302 TT-TATATTATTA
1 TTATATATTATTA
19549314 TTA
1 TTA
19549317 AGTTTTTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 11 0.44
13 2 0.08
14 12 0.48
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (13 bp):
TTATATATTATTA
Found at i:19556067 original size:50 final size:50
Alignment explanation
Indices: 19556008--19556572 Score: 317
Period size: 50 Copynumber: 11.3 Consensus size: 50
19555998 GTAGTGAAAC
*
19556008 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCAGCATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCAGCATTGCAGTTAAAA
* ** * * ** *
19556058 AGATTAAAGCCAAAATAGCGAATCTTAC-TCCCCAGGCGA-TGCAGCGAAAC
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCA-GC-ATTGCAGTTAAAA
*
19556108 AGATTAAAGCCACAACGGTGAATCTTGTTTCCCC-GACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCAG-CATTGCAGTTAAAA
* * * * * * * * ** *
19556158 AGATTAAAGCTACAGCAGCGAATCTTACCT-CTCAGGCAGTGCA-ACAGAAC
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCA-GCATTGCAGTTA-AAA
** *
19556208 AGATTAAAGCCACAACATTGAATCTTGC--CTCCATGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCA-G-CATTGCAGTTAAAA
* ** * * * *** *
19556258 AGATTAAAGCTACAATAGCGAATCTTACTT-CCCAGGCGA-TGTAGCGGAAC
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCA-GC-ATTGCAGTTAAAA
*
19556308 ATATTAAAGCCACAACGGTGAATCTTGCTTCCCC-GACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCAG-CATTGCAGTTAAAA
* * * * * * ** ** * **
19556358 AGACTAAAGCCACATCGGCGAGTGTTACTTCCCTGGCAACGCAGTGAAGC
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCAGCATTGCAGTTAAAA
* * *
19556408 AGACTAAAGCCACAACGTTGAATCTTGCTTCCCC-GACATTGTAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCAG-CATTGCAGTTAAAA
* * * * * * * ** ** * **
19556458 ATACTAAAGCCACAGCGGCGAGTGTTACTTCCCTGGCAACGCAGTGAAGC
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCAGCATTGCAGTTAAAA
* *
19556508 AGACTAAAGCCACAACGGTGAATCTTGCTTTCCC-GACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCAG-CATTGCAGTTAAAA
* *
19556558 GGATTAAAGTCACAA
1 AGATTAAAGCCACAA
19556573 TGACGAATCT
Statistics
Matches: 373, Mismatches: 121, Indels: 42
0.70 0.23 0.08
Matches are distributed among these distances:
49 18 0.05
50 337 0.90
51 18 0.05
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.22
Consensus pattern (50 bp):
AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCAGCATTGCAGTTAAAA
Found at i:19556152 original size:100 final size:100
Alignment explanation
Indices: 19555979--19556667 Score: 658
Period size: 100 Copynumber: 6.9 Consensus size: 100
19555969 AGAATTACAG
* * * *
19555979 ATCTTA-TCTCCCAAGCGATGTAGTGAAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCC-
1 ATCTTACTC-CCCAGGCGATGCAGCGAAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCG
*
19556042 AGCATTGCAGTTAAAAAGATTAAAGCCAAAATAGCGA
65 A-CATTGCAGTTAAAAAGATTAAAGCCACAATAGCGA
*
19556079 ATCTTACTCCCCAGGCGATGCAGCGAAACAGATTAAAGCCACAACGGTGAATCTTGTTTCCCCGA
1 ATCTTACTCCCCAGGCGATGCAGCGAAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGA
* **
19556144 CATTGCAGTTAAAAAGATTAAAGCTACAGCAGCGA
66 CATTGCAGTTAAAAAGATTAAAGCCACAATAGCGA
* * ** * *
19556179 ATCTTAC-CTCTCAGGC-AGTGCAAC-AGAACAGATTAAAGCCACAACATTGAATCTTGCCTCCA
1 ATCTTACTC-CCCAGGCGA-TGCAGCGA-AACAGATTAAAGCCACAACGGTGAATCTTGCTTCCC
* *
19556241 TGACATTGCAGTTAAAAAGATTAAAGCTACAATAGCGA
63 CGACATTGCAGTTAAAAAGATTAAAGCCACAATAGCGA
* * * *
19556279 ATCTTACTTCCCAGGCGATGTAGCGGAACATATTAAAGCCACAACGGTGAATCTTGCTTCCCCGA
1 ATCTTACTCCCCAGGCGATGCAGCGAAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGA
* *
19556344 CATTGCAGTTAAAAAGACTAAAGCCAC-ATCGGCGA
66 CATTGCAGTTAAAAAGATTAAAGCCACAAT-AGCGA
* * * * * * * * * *
19556379 GTGTTACTTCCCTGGCAACGCAGTGAAGCAGACTAAAGCCACAACGTTGAATCTTGCTTCCCCGA
1 ATCTTACTCCCCAGGCGATGCAGCGAAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGA
* * * ***
19556444 CATTGTAGTTAAAAATACTAAAGCCACAGCGGCGA
66 CATTGCAGTTAAAAAGATTAAAGCCACAATAGCGA
* * * * * * * * * *
19556479 GTGTTACTTCCCTGGCAACGCAGTGAAGCAGACTAAAGCCACAACGGTGAATCTTGCTTTCCCGA
1 ATCTTACTCCCCAGGCGATGCAGCGAAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGA
* *
19556544 CATTGCAGTTAAAAGGATTAAAGTCACAAT-GACGA
66 CATTGCAGTTAAAAAGATTAAAGCCACAATAG-CGA
* * * * * * * * *
19556579 ATCTTACTCTCTCA-GCTAGTGCA-CTAGAGCAGATTGAAGCTACAACGGCGAATCTTGATTCCT
1 ATCTTACTC-CCCAGGCGA-TGCAGCGA-AACAGATTAAAGCCACAACGGTGAATCTTGCTTCCC
** *
19556642 CGACATCACAGTTAAACAGATTAAAG
63 CGACATTGCAGTTAAAAAGATTAAAG
19556668 TAACGTGTTA
Statistics
Matches: 497, Mismatches: 78, Indels: 27
0.83 0.13 0.04
Matches are distributed among these distances:
99 6 0.01
100 431 0.87
101 60 0.12
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (100 bp):
ATCTTACTCCCCAGGCGATGCAGCGAAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGA
CATTGCAGTTAAAAAGATTAAAGCCACAATAGCGA
Found at i:19559397 original size:5 final size:6
Alignment explanation
Indices: 19559346--19559402 Score: 60
Period size: 6 Copynumber: 9.2 Consensus size: 6
19559336 ACCAATTTAG
* * * *
19559346 TTTATC TTTATT TTTCTT TTTATT TCTATT TGTAGTGT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTA-T-T TTTATT TTTATT
19559396 TTTATT T
1 TTTATT T
19559403 GAATTCCAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
6 37 0.86
7 2 0.05
8 4 0.09
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:19559436 original size:3 final size:3
Alignment explanation
Indices: 19559428--19559502 Score: 123
Period size: 3 Copynumber: 25.0 Consensus size: 3
19559418 TTTTAATCCC
***
19559428 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT CCC ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
19559476 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
19559503 TCTTCTTTAT
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:19559618 original size:23 final size:22
Alignment explanation
Indices: 19559591--19559671 Score: 60
Period size: 23 Copynumber: 3.6 Consensus size: 22
19559581 TGACATTACC
*
19559591 TTTAAACTTATTATTATTATAAT
1 TTTAAA-TTATTATTACTATAAT
* *
19559614 TTTAAAATGTAATA-TACTATTAT
1 TTT-AAAT-TATTATTACTATAAT
*
19559637 TTTAAATTATTATTCAC-AT-GT
1 TTTAAATTATTATT-ACTATAAT
19559658 TTTAAATTTATTAT
1 TTTAAA-TTATTAT
19559672 ACATTTTTAT
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
21 11 0.23
22 14 0.29
23 16 0.33
24 7 0.15
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.54
Consensus pattern (22 bp):
TTTAAATTATTATTACTATAAT
Found at i:19563980 original size:6 final size:6
Alignment explanation
Indices: 19563971--19564004 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
19563961 AAGAAAAAGA
*
19563971 AAAATC AAAATC AAAATC AAAATC AAAATG AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
19564005 ATAAAAAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.71, C:0.12, G:0.03, T:0.15
Consensus pattern (6 bp):
AAAATC
Found at i:19564005 original size:51 final size:51
Alignment explanation
Indices: 19563926--19564025 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
19563916 AGCTCAAAAA
* * *
19563926 AAAATCCAAATCCAAATCCAAATCAAAAAAAAAAGAAGA-AAAAGAAAAATC
1 AAAATCAAAATCAAAATCAAAATCAAAAAAAAAA-AAGAGAAAAGAAAAATC
* * *
19563977 AAAATCAAAATCAAAATCAAAATGAAAAATAAAAAAGAGAGAAGAAAAA
1 AAAATCAAAATCAAAATCAAAATCAAAAAAAAAAAAGAGAAAAGAAAAA
19564026 AGGAGAGGCC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 4 0.10
51 38 0.90
ACGTcount: A:0.71, C:0.11, G:0.08, T:0.10
Consensus pattern (51 bp):
AAAATCAAAATCAAAATCAAAATCAAAAAAAAAAAAGAGAAAAGAAAAATC
Found at i:19564010 original size:18 final size:18
Alignment explanation
Indices: 19563965--19564011 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
19563955 AAAAAGAAGA
*
19563965 AAAAGAAAAATCAAAATC
1 AAAATAAAAATCAAAATC
* *
19563983 AAAATCAAAATCAAAATGA
1 AAAATAAAAATCAAAAT-C
19564002 AAAATAAAAA
1 AAAATAAAAA
19564012 AGAGAGAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.74, C:0.09, G:0.04, T:0.13
Consensus pattern (18 bp):
AAAATAAAAATCAAAATC
Found at i:19564882 original size:22 final size:21
Alignment explanation
Indices: 19564841--19564901 Score: 50
Period size: 22 Copynumber: 2.7 Consensus size: 21
19564831 TGAAAAATAA
* *
19564841 AAAAATAAAAAAAGAGAAAAACG
1 AAAAAT-AAAAATGA-AAAAAGG
* *
19564864 GAAAAATAAAAATGAAAAAATG
1 AAAAA-TAAAAATGAAAAAAGG
19564886 AAAAAGTAAAAATGAA
1 AAAAA-TAAAAATGAA
19564902 GAGGCTAAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
22 20 0.62
23 11 0.34
24 1 0.03
ACGTcount: A:0.75, C:0.02, G:0.13, T:0.10
Consensus pattern (21 bp):
AAAAATAAAAATGAAAAAAGG
Found at i:19564896 original size:14 final size:15
Alignment explanation
Indices: 19564841--19564901 Score: 54
Period size: 14 Copynumber: 4.1 Consensus size: 15
19564831 TGAAAAATAA
* *
19564841 AAAAATAAAAAAAGAG
1 AAAAATGAAAAAA-TG
* *
19564857 AAAAACGGAAAAAT-
1 AAAAATGAAAAAATG
19564871 AAAAATGAAAAAATG
1 AAAAATGAAAAAATG
*
19564886 AAAAA-GTAAAAATG
1 AAAAATGAAAAAATG
19564900 AA
1 AA
19564902 GAGGCTAAGG
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
14 22 0.59
15 5 0.14
16 10 0.27
ACGTcount: A:0.75, C:0.02, G:0.13, T:0.10
Consensus pattern (15 bp):
AAAAATGAAAAAATG
Found at i:19566281 original size:44 final size:44
Alignment explanation
Indices: 19566199--19566665 Score: 240
Period size: 44 Copynumber: 10.2 Consensus size: 44
19566189 ACCTTCAAGT
* * *
19566199 TGGAGCAGATTGAAAGCCAGAAATCTTATCTCCTTGAGATTACAG
1 TGGAGTAGATTG-AAGCTAGAAATCTTATCTCCCTGAGATTACAG
* * *
19566244 CGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAG
1 TGGAGTAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAG
** ** *
19566288 TGGAGCGGATT-AAAATA-AAGGATCTTATCTCTCTGA-AGTTACAG
1 TGGAGTAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTACAG
*
19566332 TAGAGTAGACCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAG
1 T---G--GA--G--T-AGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAG
* * *
19566386 CGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAG
1 TGGAGTAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAG
* ** *
19566430 TGGA-TCGGATT-AAAATA-AAGGATCTTATCTCTCTGA-AGTTACAG
1 TGGAGT-AGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTACAG
*
19566474 TAGAGTAGATCGCATCAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAG
1 T---G--GA--G--T-AGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAG
* * * *
19566528 TGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTATAG
1 TGGAGTAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAG
* * ** *
19566572 TGGAATGGATT-AAAATA-AAGGATCTTATCTCTCTGA-AGTTACAG
1 TGGAGTAGATTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTACAG
* * * * * *
19566616 TAGAGTAGATCGCATC-AG--GTCTTATCTCCCTGAGATTACGG
1 TGGAGTAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAG
*
19566657 TGGAATAGA
1 TGGAGTAGA
19566666 CCGAAGAATT
Statistics
Matches: 321, Mismatches: 62, Indels: 82
0.69 0.13 0.18
Matches are distributed among these distances:
41 25 0.08
42 4 0.01
43 16 0.05
44 186 0.58
45 12 0.04
47 4 0.01
49 8 0.02
51 3 0.01
54 51 0.16
55 8 0.02
56 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (44 bp):
TGGAGTAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAG
Found at i:19566428 original size:98 final size:97
Alignment explanation
Indices: 19566250--19566430 Score: 213
Period size: 98 Copynumber: 1.8 Consensus size: 97
19566240 ACAGCGGAGT
* * * * * *
19566250 AGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTA
1 AGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAAT-AAGAATCCTA
*
19566315 TCTCTCTGAAGTTACAGTAGAGTAGACCGCATC
65 TCTCCCTGAAGTTACAGTAGAGTAGACCGCATC
* * **
19566348 AGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCT-AGTAATCCT
1 AGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATT-AAAATAAG-AATCCT
19566412 ATCTCCCTG-AGATTACAGT
64 ATCTCCCTGAAG-TTACAGT
19566431 GGATCGGATT
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
97 4 0.06
98 62 0.90
99 3 0.04
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (97 bp):
AGATTGAAGCCAGAAATCCTATCTCCCTGAGATTACAGCGGAGCAGATTAAAATAAGAATCCTAT
CTCCCTGAAGTTACAGTAGAGTAGACCGCATC
Found at i:19566468 original size:142 final size:142
Alignment explanation
Indices: 19566204--19566633 Score: 781
Period size: 142 Copynumber: 3.0 Consensus size: 142
19566194 CAAGTTGGAG
*
19566204 CAGATTGAAAGCCAGAAATCTTATCTCCTTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCC
1 CAGATTG-AAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCC
*
19566269 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
65 TATCTCCCTGAGATTACAGTGGATCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
*
19566334 GAGTAGACCGCAT
130 GAGTAGATCGCAT
19566347 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
19566412 ATCTCCCTGAGATTACAGTGGATCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCCCTGAGATTACAGTGGATCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
19566477 AGTAGATCGCAT
131 AGTAGATCGCAT
* *
19566489 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
*
19566554 ATCTCCCTGAGATTATAGTGGAAT-GGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
66 ATCTCCCTGAGATTACAGTGG-ATCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
19566618 GAGTAGATCGCAT
130 GAGTAGATCGCAT
19566631 CAG
1 CAG
19566634 GTCTTATCTC
Statistics
Matches: 280, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
142 271 0.97
143 9 0.03
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (142 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCT
ATCTCCCTGAGATTACAGTGGATCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
AGTAGATCGCAT
Found at i:19566790 original size:50 final size:50
Alignment explanation
Indices: 19566709--19567379 Score: 238
Period size: 50 Copynumber: 13.6 Consensus size: 50
19566699 GCAGTGGAAC
* * * * *
19566709 AGATTAAAGCCACAAC-GATGAATTTTGCCTCCCTGACATTGCAATTAAAA
1 AGATTAAAGCTACAGCAG-TGAATCTTACCTCCCTGACATTGCAGTTAAAA
* ** * ** *
19566759 AGATTAAAGCTACAGCAGCGAATCTTACCTCCCTGGTAGTGCAGTGGAAC
1 AGATTAAAGCTACAGCAGTGAATCTTACCTCCCTGACATTGCAGTTAAAA
* * * * *
19566809 AGATTAAAGCCATATCGGTGAATCTTGCCTCCCTGACATTGCAGTTAAAA
1 AGATTAAAGCTACAGCAGTGAATCTTACCTCCCTGACATTGCAGTTAAAA
* * * * **** *
19566859 AGATTAAAGCTACAGTAGTGTATCTTA-CTCCCCAGGCGA-TGCAACGGAAT
1 AGATTAAAGCTACAGCAGTGAATCTTACCT-CCCTGAC-ATTGCAGTTAAAA
* * * * *
19566909 AGATTAAAGCCACATCGGTGAATCTTGCCTCCCTAACATTGCAGTTAAAA
1 AGATTAAAGCTACAGCAGTGAATCTTACCTCCCTGACATTGCAGTTAAAA
* * * * * ** *** **
19566959 AGATTAAAGCTACAACAGCGAATCTTACTTCTC-AAGCGGTGCAGCGGAGC
1 AGATTAAAGCTACAGCAGTGAATCTTACCTCCCTGA-CATTGCAGTTAAAA
* * * * * * *
19567009 AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG--A---CA-TT--AC
1 AGATTAAAGCTACAGCAGTGAATCTTACCTCCCTGACATTGCAGTTAAAA
* * * * * * * * ** *
19567051 AGATTAAAGCCACAGCGGCGAATCCTACTTCCTTGGCGA-TGCCGTGGAAC
1 AGATTAAAGCTACAGCAGTGAATCTTACCTCCCTGAC-ATTGCAGTTAAAA
* * * * * **
19567101 AGATTAAAGCCACAACGGTGAATCTTGCTTCCTCTG-TGTTGCAGTTAAAA
1 AGATTAAAGCTACAGCAGTGAATCTTACCTCC-CTGACATTGCAGTTAAAA
* * * * ** ** *
19567151 AGATTAAAGCTACAACAGCGAATCTTACCTCCCAGACAGTATAGTGGAAC
1 AGATTAAAGCTACAGCAGTGAATCTTACCTCCCTGACATTGCAGTTAAAA
* * * * *
19567201 AGATTAAAGCCACAACGGTGAATCTTGCCTCCATGACATTGCAGTTAAAA
1 AGATTAAAGCTACAGCAGTGAATCTTACCTCCCTGACATTGCAGTTAAAA
* * * * * * * * * * **
19567251 TGATTAAAGCTATAACGGCGAATCTTACATTCCCAGGCAGTGCAGTGAAGC
1 AGATTAAAGCTACAGCAGTGAATCTTAC-CTCCCTGACATTGCAGTTAAAA
* * * * *
19567302 AGATTAAAGCCACAACGGTGAATCTTGCTTCCAC-GACATTGCAGTTAAAA
1 AGATTAAAGCTACAGCAGTGAATCTTACCTCC-CTGACATTGCAGTTAAAA
* ***
19567352 AGATTAAAGCCACAATGGTGAATCTTAC
1 AGATTAAAGCTACAGCAGTGAATCTTAC
19567380 TTTCCAAATG
Statistics
Matches: 454, Mismatches: 147, Indels: 40
0.71 0.23 0.06
Matches are distributed among these distances:
42 30 0.07
45 3 0.01
47 1 0.00
48 1 0.00
49 7 0.02
50 368 0.81
51 44 0.10
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (50 bp):
AGATTAAAGCTACAGCAGTGAATCTTACCTCCCTGACATTGCAGTTAAAA
Found at i:19566857 original size:100 final size:100
Alignment explanation
Indices: 19566692--19567366 Score: 748
Period size: 100 Copynumber: 6.8 Consensus size: 100
19566682 CTTACCACTT
* * * *
19566692 AGGCGGTGCAGTGGAACAGATTAAAGCCACAACGATGAATTTTGCCTCCCTGACATTGCAATTAA
1 AGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCAGTTAA
*
19566757 AAAGATTAAAGCTACAGCAGCGAATCTTACCTCCC
66 AAAGATTAAAGCTACAACAGCGAATCTTACCTCCC
* * * *
19566792 TGGTAGTGCAGTGGAACAGATTAAAGCCATATCGGTGAATCTTGCCTCCCTGACATTGCAGTTAA
1 AGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCAGTTAA
** * *
19566857 AAAGATTAAAGCTACAGTAGTGTATCTTA-CTCCCC
66 AAAGATTAAAGCTACAACAGCGAATCTTACCT-CCC
** * * *
19566892 AGGC-GATGCAACGGAATAGATTAAAGCCACATCGGTGAATCTTGCCTCCCTAACATTGCAGTTA
1 AGGCAG-TGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCAGTTA
* *
19566956 AAAAGATTAAAGCTACAACAGCGAATCTTACTTCTC
65 AAAAGATTAAAGCTACAACAGCGAATCTTACCTCCC
* * * * * * *
19566992 AAGCGGTGCAGCGGAGCAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG--A---CA-TT--
1 AGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCAGTTAA
* * * * * * *
19567049 ACAGATTAAAGCCACAGCGGCGAATCCTACTTCCT
66 AAAGATTAAAGCTACAACAGCGAATCTTACCTCCC
* * * **
19567084 TGGC-GATGCCGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCTCTG-TGTTGCAGTT
1 AGGCAG-TGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCC-CTGACATTGCAGTT
19567147 AAAAAGATTAAAGCTACAACAGCGAATCTTACCTCCC
64 AAAAAGATTAAAGCTACAACAGCGAATCTTACCTCCC
* ** *
19567184 AGACAGTATAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCATGACATTGCAGTTAA
1 AGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCAGTTAA
* * * *
19567249 AATGATTAAAGCTATAACGGCGAATCTTACATTCCC
66 AAAGATTAAAGCTACAACAGCGAATCTTAC-CTCCC
*
19567285 AGGCAGTGCAGT-GAAGCAGATTAAAGCCACAACGGTGAATCTTGCTTCCAC-GACATTGCAGTT
1 AGGCAGTGCAGTGGAA-CAGATTAAAGCCACAACGGTGAATCTTGCCTCC-CTGACATTGCAGTT
*
19567348 AAAAAGATTAAAGCCACAA
64 AAAAAGATTAAAGCTACAA
19567367 TGGTGAATCT
Statistics
Matches: 483, Mismatches: 74, Indels: 35
0.82 0.12 0.06
Matches are distributed among these distances:
91 1 0.00
92 69 0.14
93 2 0.00
94 2 0.00
95 2 0.00
97 2 0.00
98 3 0.01
99 5 0.01
100 321 0.66
101 76 0.16
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (100 bp):
AGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCAGTTAA
AAAGATTAAAGCTACAACAGCGAATCTTACCTCCC
Found at i:19567211 original size:292 final size:292
Alignment explanation
Indices: 19566759--19567350 Score: 782
Period size: 292 Copynumber: 2.0 Consensus size: 292
19566749 GCAATTAAAA
* * * * *
19566759 AGATTAAAGCTACAGCAGCGAATCTTACCTCCCTGGTAGTGCAGTGGAACAGATTAAAGCCATAT
1 AGATTAAAGCCACAGCAGCGAATCCTACCTCCCTGGGAGTGCAGTGGAACAGATTAAAGCCACAA
** * *
19566824 CGGTGAATCTTGCCTCCCTGACATTGCAGTTAAAAAGATTAAAGCTACAGTAGTGTATCTTACTC
66 CGGTGAATCTTGCCTCCCTGACATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTC
* * * *
19566889 CCCAGGCGATGCAACGGAATAGATTAAAGCCACATCGGTGAATCTTGCCTCCCTAACATTGCAGT
131 CCCAGACGAT-CAACGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCATAACATTGCAGT
* * *
19566954 TAAAAAGATTAAAGCTACAACAGCGAATCTTAC-TTCTCAAGCGGTGCAGCGGAGCAGATTAAAG
195 TAAAAAGATTAAAGCTACAACAGCGAATCTTACATTCCCAAGCAGTGCAGCGAAGCAGATTAAAG
* *
19567018 CCACATCGGTGAATCTTGCTTCCCCGACATTAC
260 CCACAACGGTGAATCTTGCTTCCACGACATTAC
* * * *
19567051 AGATTAAAGCCACAGCGGCGAATCCTACTTCCTTGGCGA-TGCCGTGGAACAGATTAAAGCCACA
1 AGATTAAAGCCACAGCAGCGAATCCTACCTCCCTGG-GAGTGCAGTGGAACAGATTAAAGCCACA
* **
19567115 ACGGTGAATCTTGCTTCCTCTG-TGTTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTAC
65 ACGGTGAATCTTGCCTCC-CTGACATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTAC
** *
19567179 -CTCCCAGACAGTAT-AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCATGACATTG
129 TC-CCCAGAC-G-ATCAACGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCATAACATTG
* * * * *
19567242 CAGTTAAAATGATTAAAGCTATAACGGCGAATCTTACATTCCCAGGCAGTGCAGTGAAGCAGATT
191 CAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACATTCCCAAGCAGTGCAGCGAAGCAGATT
*
19567307 AAAGCCACAACGGTGAATCTTGCTTCCACGACATTGC
256 AAAGCCACAACGGTGAATCTTGCTTCCACGACATTAC
19567344 AG-TTAAA
1 AGATTAAA
19567351 AAGATTAAAG
Statistics
Matches: 260, Mismatches: 34, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
291 1 0.00
292 194 0.75
293 63 0.24
294 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.24
Consensus pattern (292 bp):
AGATTAAAGCCACAGCAGCGAATCCTACCTCCCTGGGAGTGCAGTGGAACAGATTAAAGCCACAA
CGGTGAATCTTGCCTCCCTGACATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTC
CCCAGACGATCAACGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCATAACATTGCAGTT
AAAAAGATTAAAGCTACAACAGCGAATCTTACATTCCCAAGCAGTGCAGCGAAGCAGATTAAAGC
CACAACGGTGAATCTTGCTTCCACGACATTAC
Found at i:19567328 original size:101 final size:100
Alignment explanation
Indices: 19567094--19567381 Score: 400
Period size: 101 Copynumber: 2.9 Consensus size: 100
19567084 TGGCGATGCC
* **
19567094 GTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCTCTG-TGTTGCAGTTAAAAAGATTAA
1 GTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCC-ATGACATTGCAGTTAAAAAGATTAA
* * *
19567158 AGCTACAACAGCGAATCTTACCTCCCAGACAGTATA
65 AGCTACAACGGCGAATCTTACTTCCCAGACAGTACA
* *
19567194 GTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCATGACATTGCAGTTAAAATGATTAAA
1 GTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCATGACATTGCAGTTAAAAAGATTAAA
* * *
19567259 GCTATAACGGCGAATCTTACATTCCCAGGCAGTGCA
66 GCTACAACGGCGAATCTTAC-TTCCCAGACAGTACA
*
19567295 GT-GAAGCAGATTAAAGCCACAACGGTGAATCTTGCTTCCACGACATTGCAGTTAAAAAGATTAA
1 GTGGAA-CAGATTAAAGCCACAACGGTGAATCTTGCTTCCATGACATTGCAGTTAAAAAGATTAA
* * *
19567359 AGCCACAATGGTGAATCTTACTT
65 AGCTACAACGGCGAATCTTACTT
19567382 TCCAAATGTT
Statistics
Matches: 167, Mismatches: 18, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
99 2 0.01
100 80 0.48
101 85 0.51
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (100 bp):
GTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCATGACATTGCAGTTAAAAAGATTAAA
GCTACAACGGCGAATCTTACTTCCCAGACAGTACA
Found at i:19568806 original size:5 final size:6
Alignment explanation
Indices: 19568755--19568811 Score: 60
Period size: 6 Copynumber: 9.2 Consensus size: 6
19568745 ACCAATTTAG
* * * *
19568755 TTTATC TTTATT TTTCTT TTTATT TCTATT TGTAGTGT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTA-T-T TTTATT TTTATT
19568805 TTTATT T
1 TTTATT T
19568812 GAATTCCAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
6 37 0.86
7 2 0.05
8 4 0.09
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:19568845 original size:3 final size:3
Alignment explanation
Indices: 19568837--19568926 Score: 153
Period size: 3 Copynumber: 30.0 Consensus size: 3
19568827 TTTTAATCCC
***
19568837 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT CCC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
19568885 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
19568927 TCTTCTTTAT
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 81 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:19569042 original size:23 final size:22
Alignment explanation
Indices: 19569015--19569074 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
19569005 TGACATTACC
*
19569015 TTTAAACTTATTATTATTATAAT
1 TTTAAA-TTATTATTACTATAAT
* *
19569038 TTTAAAATGTAATA-TACTATTAT
1 TTT-AAAT-TATTATTACTATAAT
19569061 TTTAAATTATTATT
1 TTTAAATTATTATT
19569075 CACATGTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
21 4 0.13
22 5 0.17
23 14 0.47
24 7 0.23
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTAAATTATTATTACTATAAT
Found at i:19570337 original size:15 final size:15
Alignment explanation
Indices: 19570313--19570348 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
19570303 GGTTTCGACA
*
19570313 ATTATCATTAGAATT
1 ATTATTATTAGAATT
*
19570328 ATTATTATTAGTATT
1 ATTATTATTAGAATT
19570343 ATTATT
1 ATTATT
19570349 TATATTAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.56
Consensus pattern (15 bp):
ATTATTATTAGAATT
Found at i:19570346 original size:18 final size:17
Alignment explanation
Indices: 19570333--19570369 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
19570323 GAATTATTAT
19570333 TATTAGTATTATTATTTA
1 TATTAGT-TTATTATTTA
19570351 TATTAGTTTATATATTTA
1 TATTAGTTTAT-TATTTA
19570369 T
1 T
19570370 CTACATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (17 bp):
TATTAGTTTATTATTTA
Found at i:19570649 original size:12 final size:13
Alignment explanation
Indices: 19570609--19570650 Score: 68
Period size: 14 Copynumber: 3.2 Consensus size: 13
19570599 ATTTCAACTT
19570609 TTATATATTATTA
1 TTATATATTATTA
19570622 TGTATATATTATTA
1 T-TATATATTATTA
19570636 TT-TATATTATTA
1 TTATATATTATTA
19570648 TTA
1 TTA
19570651 AGTTTTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 12 0.44
13 2 0.07
14 13 0.48
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (13 bp):
TTATATATTATTA
Found at i:19577677 original size:19 final size:19
Alignment explanation
Indices: 19577635--19577677 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
19577625 TTTTTTATTT
*
19577635 AATA-TTAATATAACTATA
1 AATATTTAATATAAATATA
**
19577653 TTTATTTAATATAAATATA
1 AATATTTAATATAAATATA
19577672 AATATT
1 AATATT
19577678 AAATTTATTG
Statistics
Matches: 19, Mismatches: 5, Indels: 1
0.76 0.20 0.04
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
AATATTTAATATAAATATA
Found at i:19584699 original size:20 final size:20
Alignment explanation
Indices: 19584674--19584714 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
19584664 GTAAGCATGA
19584674 ACCTAAGTAAATTTGAAGCT
1 ACCTAAGTAAATTTGAAGCT
19584694 ACCTAAGTAAATTTGAAGCT
1 ACCTAAGTAAATTTGAAGCT
19584714 A
1 A
19584715 TCTTCTCCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (20 bp):
ACCTAAGTAAATTTGAAGCT
Found at i:19585181 original size:56 final size:56
Alignment explanation
Indices: 19585069--19585182 Score: 165
Period size: 56 Copynumber: 2.0 Consensus size: 56
19585059 TTACGAGCTC
* ** * *
19585069 AATCTTTGGTTTTGAGGAGATTGTTAGCCTCTACACAAATGGTGAGAACTTCGAAG
1 AATCTTTGGTTTTGAGGAGATTATTAGCCTCTACACAAATGACGAGAACATAGAAG
* *
19585125 AATCTTTGGTTTTGAGGATATTATTAGCCTCTACACAAATGACGAGGACATAGAAG
1 AATCTTTGGTTTTGAGGAGATTATTAGCCTCTACACAAATGACGAGAACATAGAAG
19585181 AA
1 AA
19585183 ATAAAGAAAG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (56 bp):
AATCTTTGGTTTTGAGGAGATTATTAGCCTCTACACAAATGACGAGAACATAGAAG
Found at i:19590255 original size:7 final size:7
Alignment explanation
Indices: 19590243--19590278 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
19590233 AAATTTGTGT
19590243 GGTTTAG
1 GGTTTAG
19590250 GGTTTAG
1 GGTTTAG
19590257 GGTTTAG
1 GGTTTAG
*
19590264 GGTTCAG
1 GGTTTAG
19590271 GGTTTAG
1 GGTTTAG
19590278 G
1 G
19590279 AAAAGAACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.14, C:0.03, G:0.44, T:0.39
Consensus pattern (7 bp):
GGTTTAG
Found at i:19593896 original size:15 final size:15
Alignment explanation
Indices: 19593873--19593905 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
19593863 TTTTTATGCC
19593873 ATTGATGTATTTATT
1 ATTGATGTATTTATT
*
19593888 ATTGTTGTATTTATT
1 ATTGATGTATTTATT
19593903 ATT
1 ATT
19593906 ATAGCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (15 bp):
ATTGATGTATTTATT
Found at i:19600121 original size:26 final size:26
Alignment explanation
Indices: 19600092--19600144 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
19600082 CTATGCTCAG
19600092 AACCAACTTTATTCTTATCCATTGTT
1 AACCAACTTTATTCTTATCCATTGTT
19600118 AACCAACTTTATTCTTATCCATTGTT
1 AACCAACTTTATTCTTATCCATTGTT
19600144 A
1 A
19600145 TGACCTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.28, C:0.23, G:0.04, T:0.45
Consensus pattern (26 bp):
AACCAACTTTATTCTTATCCATTGTT
Found at i:19600988 original size:44 final size:43
Alignment explanation
Indices: 19600935--19601694 Score: 470
Period size: 44 Copynumber: 17.5 Consensus size: 43
19600925 AGATGGCAAG
19600935 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC-ATAA
* * *
19600979 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACC-TCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAT-A-A
* * * * * *
19601023 TCTTATCTCTCTAAAGTTGCAG-AGAGCAGA-T--CGCAACTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-TAA
* *
19601063 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG-CA-AG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTA--AAGCCATAA
* * * * *
19601107 TCTTATC-CTCTTGAAGTTGCAGTGGGGCAGACTGAAGATGGCA-AG
1 TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGA-TTAA-A-GCCATAA
* *
19601152 TCTTATCTCCCTGAAGCTGTAGTGGAGCAGATTAAAGCCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC-ATAA
* * *
19601196 TCCTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAACC-TCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAT-A-A
* * ** *** * *
19601240 TCTTATCTCTCTGAAGTTGCAG-AGAATAGATCGCA-TC-TAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCATAA
* * * * *
19601280 TTTTATCTCTCTGAAGTTGTAGTGGAGCAGAATAAGTAAG-CA-AG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTA--AAGCCATAA
* * * *
19601324 TCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCA-AG
1 TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGA-TTAA-A-GCCATAA
19601369 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC-ATAA
* * * *
19601413 TCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCATA-A
* * *** * *
19601457 TCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCGCA-TC-TAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCATAA
* * * * *
19601497 TTTTATCTCCCTAAAGTTGTAGTGGAGCAGACTAAGTAAG-CA-AG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTA--AAGCCATAA
* * * *
19601541 TCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCA-AG
1 TCTTATCTC-CCTGAAGTTGCAGTGGAGCAGA-TTAA-A-GCCATAA
*
19601586 TCGTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC-ATAA
* * * * *
19601630 TCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGCCTTAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCATA-A
*
19601674 TCTTATCTCTCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCA
19601695 AAGAGTAGAT
Statistics
Matches: 566, Mismatches: 101, Indels: 98
0.74 0.13 0.13
Matches are distributed among these distances:
40 59 0.10
41 22 0.04
42 19 0.03
43 40 0.07
44 329 0.58
45 92 0.16
46 4 0.01
47 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (43 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCATAA
Found at i:19601176 original size:89 final size:86
Alignment explanation
Indices: 19601061--19601616 Score: 399
Period size: 89 Copynumber: 6.4 Consensus size: 86
19601051 GATCGCAACT
19601061 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCTTGAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCTTAT-CTCTTGAAGTTG
*
19601126 CAGTGGGGCAGACTGAAGATGGCA
64 CAGTGGAGCAGA-TGAAGATGGCA
* * * * *
19601150 AGTCTTATCTCCCTGAAGCTGTAGTGGAGCAGA-TTA-AAGCCGATAATCCTATCTCCTTGAAGT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-AGTCTTATCT-CTTGAAGT
* * ***
19601213 TGCAGTGGAGCAGATTAAAACCTC-
62 TGCAGTGGAGCAGATGAAGATGGCA
* * ** * * * * *
19601237 AGATCTTATCTCTCTGAAGTTGCAG-AGAATAGA-T-CGCATCTAGTTTTATCTCTCTGAAGTTG
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCTTATCTCT-TGAAGTTG
* *
19601299 TAGTGGAGCAGAAT-AAG-TAAGCA
64 CAGTGGAGCAG-ATGAAGAT-GGCA
* * *
19601322 AGTCTTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGT
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGA-AGCAAGTCTTATCT-CTTGAAGT
* *
19601386 TGCAGTGGAGCAGATTAA-A-GCCGA
62 TGCAGTGGAGCAGATGAAGATGGC-A
* * * * * *
19601410 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAA-AACCTTAGATCTTATCTCTCTGAAGT
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAG-TCTTATCTCT-TGAAGT
* * *
19601474 TGCAG-AGAGCAGATCG--CAT--CT
62 TGCAGTGGAGCAGAT-GAAGATGGCA
* * * *
19601495 AGTTTTATCTCCCTAAAGTTGTAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCTTAT-CTCTTGAAGTTG
*
19601560 CAGTGGGGCAGACTGAAGATGGCA
64 CAGTGGAGCAGA-TGAAGATGGCA
*
19601584 AGTCGTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
19601617 TTAAAGCCGA
Statistics
Matches: 356, Mismatches: 74, Indels: 74
0.71 0.15 0.15
Matches are distributed among these distances:
83 3 0.01
84 94 0.26
85 20 0.06
86 11 0.03
87 26 0.07
88 54 0.15
89 146 0.41
90 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (86 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCTTATCTCTTGAAGTTGCA
GTGGAGCAGATGAAGATGGCA
Found at i:19601297 original size:173 final size:172
Alignment explanation
Indices: 19601109--19601434 Score: 392
Period size: 173 Copynumber: 1.9 Consensus size: 172
19601099 TAAGCAAGTC
* * * *
19601109 TTATCCTCTTGAAGTTGCAGTGGGGCAGACTGAAG-ATGGCAAGTCTTAT-CTCCCTGAAGCTGT
1 TTATCCTCTTGAAGTTGCAGTGGAGCAGAAT-AAGTA-AGCAAGTCTTATCCT-CCTGAAGCTGC
* * * *
19601172 AGTGGAGCAGATTAAAGCCGATAA-TCCTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAACC-
63 AGTGGAGCAGACTAAAGACGACAAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCA
* *
19601235 TCAGATCTTATCTCTCTGAAGTTGCAGAGAATAGATCGCATCTAGTT
128 T-A-ATCCTATCTCCCTGAAGTTGCAGAGAATAGATCGCATCTAGTT
* *
19601282 TTAT-CTCTCTGAAGTTGTAGTGGAGCAGAATAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCAG
1 TTATCCTCT-TGAAGTTGCAGTGGAGCAGAATAAGTAAGCAAGTCTTATCCTCCTGAAGCTGCAG
* * * * * *
19601346 TGGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
65 TGGAGCAGACTAAAGACGACAAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACC-AT
19601411 AATCCTATCTCCCTGAAGTTGCAG
129 AATCCTATCTCCCTGAAGTTGCAG
19601435 TGGAGCGGAT
Statistics
Matches: 129, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
172 44 0.34
173 83 0.64
174 1 0.01
175 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (172 bp):
TTATCCTCTTGAAGTTGCAGTGGAGCAGAATAAGTAAGCAAGTCTTATCCTCCTGAAGCTGCAGT
GGAGCAGACTAAAGACGACAAGTCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACCATAA
TCCTATCTCCCTGAAGTTGCAGAGAATAGATCGCATCTAGTT
Found at i:19601298 original size:217 final size:217
Alignment explanation
Indices: 19600923--19601748 Score: 1409
Period size: 217 Copynumber: 3.8 Consensus size: 217
19600913 GAAGCAGATC
19600923 GAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTC
1 GAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTC
*
19600988 CCTGAAGTTGCAGTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGA
66 CCTGAAGTTGCAGTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGA
* *
19601053 TCGCAACTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCT
131 TCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCC
19601118 TGAAGTTGCAGTGGGGCAGACT
196 TGAAGTTGCAGTGGGGCAGACT
* *
19601140 GAAGATGGCAAGTCTTATCTCCCTGAAGCTGTAGTGGAGCAGATTAAAGCCGATAATCCTATCTC
1 GAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTC
* * **
19601205 CTTGAAGTTGCAGTGGAGCAGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAATAGA
66 CCTGAAGTTGCAGTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGA
* * * *
19601270 TCGCATCTAGTTTTATCTCTCTGAAGTTGTAGTGGAGCAGAATAAGTAAGCAAGTCTTATCCTCC
131 TCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCC
19601335 TGAAGTTGCAGTGGGGCAGACT
196 TGAAGTTGCAGTGGGGCAGACT
19601357 GAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTC
1 GAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTC
*
19601422 CCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGA
66 CCTGAAGTTGCAGTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGA
* * *
19601487 TCGCATCTAGTTTTATCTCCCTAAAGTTGTAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCC
131 TCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCC
19601552 TGAAGTTGCAGTGGGGCAGACT
196 TGAAGTTGCAGTGGGGCAGACT
*
19601574 GAAGATGGCAAGTCGTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTC
1 GAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTC
* * * * * *
19601639 CCTAAAGTTGTAGTGGAGCGGATTAAAGCCTTAGATCTTATCTCTCTGAAGTTGCAAAGAGTAGA
66 CCTGAAGTTGCAGTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGA
* * *
19601704 TCGCATTTAGTCTTATCTCCTTGAAGTTGCAGCGGAGCAGACTAA
131 TCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
19601749 AATAGCAAAT
Statistics
Matches: 574, Mismatches: 35, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
217 574 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (217 bp):
GAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTC
CCTGAAGTTGCAGTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGA
TCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCC
TGAAGTTGCAGTGGGGCAGACT
Found at i:19603751 original size:15 final size:15
Alignment explanation
Indices: 19603728--19603760 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
19603718 TTTTTATGCC
19603728 ATTGATGTATTTATT
1 ATTGATGTATTTATT
*
19603743 ATTGTTGTATTTATT
1 ATTGATGTATTTATT
19603758 ATT
1 ATT
19603761 ATAGCATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (15 bp):
ATTGATGTATTTATT
Found at i:19609977 original size:19 final size:18
Alignment explanation
Indices: 19609908--19609973 Score: 55
Period size: 19 Copynumber: 3.5 Consensus size: 18
19609898 TTTATTTTAT
19609908 TATA-TTAATATTAAAATTA
1 TATATTTAATA-T-AAATTA
* *
19609927 TACATTTTAATAGAATATTA
1 TATA-TTTAATATAA-ATTA
19609947 -ATATATTAATATAAATTA
1 TATAT-TTAATATAAATTA
19609965 TATATTTAA
1 TATATTTAA
19609974 ATATTTTGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
18 9 0.24
19 19 0.50
20 4 0.11
21 6 0.16
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (18 bp):
TATATTTAATATAAATTA
Found at i:19609992 original size:33 final size:33
Alignment explanation
Indices: 19609950--19610013 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
19609940 AATATTAATA
19609950 TATTAATATAAATTATA-TATTTAAATATTTTGT
1 TATTAATATAAA-TATAGTATTTAAATATTTTGT
* * *
19609983 TATTTATATAAATATAGTTTTTAATTATTTT
1 TATTAATATAAATATAGTATTTAAATATTTT
19610014 AGTAAATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 4 0.15
33 23 0.85
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (33 bp):
TATTAATATAAATATAGTATTTAAATATTTTGT
Found at i:19610276 original size:13 final size:13
Alignment explanation
Indices: 19610258--19610282 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19610248 GAAGAGTAAT
19610258 AAAAACAAAAAAC
1 AAAAACAAAAAAC
19610271 AAAAACAAAAAA
1 AAAAACAAAAAA
19610283 AAAGGAATAC
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:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAACAAAAAAC
Found at i:19610781 original size:110 final size:110
Alignment explanation
Indices: 19610588--19610801 Score: 383
Period size: 110 Copynumber: 1.9 Consensus size: 110
19610578 AGTCAATTAG
* * *
19610588 TTCGCTAAAGCGTATTATCCTCCTATTTATGGGTTGGGGAGGAACTATGAGTAGTTCTAGATATT
1 TTCGCTAAAGCGCATTATCCTCCTATTTATGAGTTGGGGAGGAACTATGAGTAGTTCTAGACATT
*
19610653 GTATCAAAAAGAGCAGATATGATCAAAACATATAATGAGTCTTAA
66 GTATCAAAAAGAGCAGATATAATCAAAACATATAATGAGTCTTAA
19610698 TTCGCTAAAGCGCATTATCCTCCTATTTATGAGTTGGGGAGGAACTATGAGTAGTTCTAGACATT
1 TTCGCTAAAGCGCATTATCCTCCTATTTATGAGTTGGGGAGGAACTATGAGTAGTTCTAGACATT
*
19610763 GTGTCAAAAAGAGCAGATATAATCAAAACATATAATGAG
66 GTATCAAAAAGAGCAGATATAATCAAAACATATAATGAG
19610802 ATTATTAAAA
Statistics
Matches: 99, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
110 99 1.00
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (110 bp):
TTCGCTAAAGCGCATTATCCTCCTATTTATGAGTTGGGGAGGAACTATGAGTAGTTCTAGACATT
GTATCAAAAAGAGCAGATATAATCAAAACATATAATGAGTCTTAA
Found at i:19616828 original size:20 final size:20
Alignment explanation
Indices: 19616800--19616855 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
19616790 CGCATAGTTA
* *
19616800 CATAACATATCATGT-GATGT
1 CATATCATATCATGTCGA-AT
*
19616820 CATATCATATCATATCGAAT
1 CATATCATATCATGTCGAAT
*
19616840 CATATCATAGCATGTC
1 CATATCATATCATGTC
19616856 CTACTCCCGT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 28 0.93
21 2 0.07
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.34
Consensus pattern (20 bp):
CATATCATATCATGTCGAAT
Found at i:19620638 original size:17 final size:17
Alignment explanation
Indices: 19620616--19620650 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
19620606 CAAGTGGAAG
19620616 TATGATTAATTAATTGT
1 TATGATTAATTAATTGT
19620633 TATGATTAATTAATTGT
1 TATGATTAATTAATTGT
19620650 T
1 T
19620651 TTGTAGGGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.54
Consensus pattern (17 bp):
TATGATTAATTAATTGT
Done.