Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold76
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: 2182696
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.29
Warning! 286211 characters in sequence are not A, C, G, or T
File 4 of 13
Found at i:782448 original size:155 final size:152
Alignment explanation
Indices: 782126--782750 Score: 518
Period size: 153 Copynumber: 4.1 Consensus size: 152
782116 TGAAAAACTT
* * * *
782126 AAAAATGAATCTAGAAGGATGAAACTATCCTAAACA-CATGCCTTTGGCATAAAAGCGA-CCTGA
1 AAAAAT-AATGTAAAAGGAT-AAACTATCCTAAA-AGCATACCTTTGGCATAAAAGCGACCCAGA
* * * *
782189 TGACTACTTAAGACTCGGTTTTAAG-AAATTACTAAAA-AGCCTCTAGGGTATACCTTCGACGTA
63 TG-CTACCTAAGACTCGGTTTTAGGAAAATTACCAAAATACCCT-TAGGGTATACCTTCGACGT-
* *
782252 AAAGTATTTCGGTAATCTTAAAGGACAC
125 AAAGTATTTCGGTAACCTTAAAAGACAC
* *
782280 GAAAATGATGTAAAAGGATAAACTTATCCTAAAAGCATACCTTTGGCATAAAAGCGACCCAG-TG
1 AAAAATAATGTAAAAGGATAAAC-TATCCTAAAAGCATACCTTTGGCATAAAAGCGACCCAGATG
* * * ** *
782344 ACTATCTAGGACTCGTTTTTAGGAAAGATTACCAAAATACCCTTATAGTATACCTTCGATGTAAA
65 -CTACCTAAGACTCGGTTTTAGGAAA-ATTACCAAAATACCCTTAGGGTATACCTTCGACGTAAA
*
782409 TGTATTTCGGTAACCCTAAAAGACAC
128 -GTATTTCGGTAACCTTAAAAGACAC
* * * * * *
782435 GAAAATAATGTAAAAGGATGAACCTATCCTAGAAGCATACTTTTGGCATAAAAGTGACCC-GTTG
1 AAAAATAATGTAAAAGGAT-AAACTATCCTAAAAGCATACCTTTGGCATAAAAGCGACCCAGATG
* * * * *
782499 CTACCTAAGCCTCGGTTTTAGGGAAAATTATCAAAATGCCATTAGGGTATACTTTCGACGTGAAA
65 CTACCTAAGACTCGGTTTTA-GGAAAATTACCAAAATACCCTTAGGGTATACCTTCGACGT-AAA
* *
782564 GTATCTT-GGTAA-CTTTAAAGA-ATA
128 GTAT-TTCGGTAACCTTAAAAGACA-C
* * * ** * * *
782588 AAAAAGAAATGT-AAAGTGACAAACTACCCTAAAAGCATACCTTTAACATAAAAACAACTCAG-T
1 AAAAA-TAATGTAAAAG-GATAAACTATCCTAAAAGCATACCTTTGGCATAAAAGCGACCCAGAT
* * * * * * * *
782651 GTTACCTAGGCCTCGATTTTAGGAAAAATTACCAAAGTACCTCTGA-GGTATACCTTTGATGTAG
64 GCTACCTAAGACTCGGTTTTAGG-AAAATTACCAAAATACC-CTTAGGGTATACCTTCGACGTA-
* * * *
782715 AAATATCTCGATAACCTTAAAGGACAC
126 AAGTATTTCGGTAACCTTAAAAGACAC
782742 AAAAATAAT
1 AAAAATAAT
782751 AAGTAATAAT
Statistics
Matches: 380, Mismatches: 69, Indels: 45
0.77 0.14 0.09
Matches are distributed among these distances:
152 10 0.03
153 163 0.43
154 89 0.23
155 111 0.29
156 7 0.02
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.27
Consensus pattern (152 bp):
AAAAATAATGTAAAAGGATAAACTATCCTAAAAGCATACCTTTGGCATAAAAGCGACCCAGATGC
TACCTAAGACTCGGTTTTAGGAAAATTACCAAAATACCCTTAGGGTATACCTTCGACGTAAAGTA
TTTCGGTAACCTTAAAAGACAC
Found at i:784378 original size:15 final size:15
Alignment explanation
Indices: 784355--784397 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
784345 AAAAATAGAA
*
784355 TAAAA-TAAAATTTT
1 TAAAATTAAAATTAT
**
784369 TAAAATTAAAAAAAT
1 TAAAATTAAAATTAT
784384 TAAAATTAAAATTA
1 TAAAATTAAAATTA
784398 AAATTACTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
14 5 0.22
15 18 0.78
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
TAAAATTAAAATTAT
Found at i:784379 original size:6 final size:6
Alignment explanation
Indices: 784368--784403 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
784358 AATAAAATTT
784368 TTAAAA TT-AAA --AAAA TTAAAA TTAAAA TTAAAA TTA
1 TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTAAAA TTA
784404 CTAAGTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
4 3 0.11
5 3 0.11
6 21 0.78
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
TTAAAA
Found at i:789322 original size:13 final size:13
Alignment explanation
Indices: 789304--789328 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
789294 TACTATGAAC
789304 ATGTATCGATACA
1 ATGTATCGATACA
789317 ATGTATCGATAC
1 ATGTATCGATAC
789329 TAAGCAATAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:789346 original size:33 final size:32
Alignment explanation
Indices: 789286--789363 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 32
789276 AAATTCAATG
*
789286 TGTATCGATACTATGAACATGTATCGATACAA
1 TGTATCGATACTAAGAACATGTATCGATACAA
* *
789318 TGTATCGATACTAAGCAATATGTATCGATACCA
1 TGTATCGATACTAAG-AACATGTATCGATACAA
789351 TGTATCGATACTA
1 TGTATCGATACTA
789364 CATCTGGGTT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
32 14 0.33
33 28 0.67
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (32 bp):
TGTATCGATACTAAGAACATGTATCGATACAA
Found at i:789355 original size:13 final size:13
Alignment explanation
Indices: 789337--789361 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
789327 ACTAAGCAAT
789337 ATGTATCGATACC
1 ATGTATCGATACC
789350 ATGTATCGATAC
1 ATGTATCGATAC
789362 TACATCTGGG
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACC
Found at i:794149 original size:20 final size:20
Alignment explanation
Indices: 794107--794156 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
794097 AAACAAATTA
*
794107 TATCGATACATTTGCAAACG
1 TATCGATACATTTACAAACG
** *
794127 TATCGATACATTTACTTATG
1 TATCGATACATTTACAAACG
794147 TATCGATACA
1 TATCGATACA
794157 ATTTTTCGAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (20 bp):
TATCGATACATTTACAAACG
Found at i:794230 original size:20 final size:20
Alignment explanation
Indices: 794205--794258 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
794195 CATTTAAGAC
* *
794205 ATGTATCGATACATTCATTT
1 ATGTATCGATACATTCACTA
*
794225 ATGTATCGATAAATTCACTA
1 ATGTATCGATACATTCACTA
794245 ATTGTATCGATACA
1 A-TGTATCGATACA
794259 AATTGTAGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTCACTA
Found at i:794732 original size:5 final size:5
Alignment explanation
Indices: 794724--794752 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
794714 TTACATTACC
794724 AATAT AATAT AATAT AATAT AATAT AATA
1 AATAT AATAT AATAT AATAT AATAT AATA
794753 ATATCATATA
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:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATAT
Found at i:795324 original size:58 final size:57
Alignment explanation
Indices: 795202--795325 Score: 167
Period size: 58 Copynumber: 2.1 Consensus size: 57
795192 TTATATGAAA
* * * **
795202 TATTTAAAATTTAAATCAAATTAAATCTAAAATAATTAAATGCATGATTTTTTTAAT
1 TATTTAAAATTTAAATAAAATCAAATCTAAAATAATTAAATGCATGATTATGGTAAT
* *
795259 AATTTTAAAATTTAAATAAAATCAAATCTAAAATAATTAAATGTATGATTCATGGTAAT
1 TA-TTTAAAATTTAAATAAAATCAAATCTAAAATAATTAAATGCATGATT-ATGGTAAT
795318 TATTTAAA
1 TATTTAAA
795326 GCAATCCAAG
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
57 1 0.02
58 50 0.88
59 6 0.11
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (57 bp):
TATTTAAAATTTAAATAAAATCAAATCTAAAATAATTAAATGCATGATTATGGTAAT
Found at i:798180 original size:28 final size:28
Alignment explanation
Indices: 798142--798236 Score: 111
Period size: 28 Copynumber: 3.4 Consensus size: 28
798132 ATAAAATCGA
*
798142 GTTTGGAGTA-TCTCTTTAAAAATAACGGG
1 GTTT-GAGTATTC-CTTCAAAAATAACGGG
*
798171 GTTTGAGTATTCCCTCAAAAATAACGGG
1 GTTTGAGTATTCCTTCAAAAATAACGGG
* * *
798199 GTTGGAGTATTCCTTCAGAAATAACGAG
1 GTTTGAGTATTCCTTCAAAAATAACGGG
*
798227 GTTAGAGTAT
1 GTTTGAGTAT
798237 CCTCGATAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
28 52 0.90
29 6 0.10
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (28 bp):
GTTTGAGTATTCCTTCAAAAATAACGGG
Found at i:798303 original size:79 final size:78
Alignment explanation
Indices: 798196--798745 Score: 542
Period size: 79 Copynumber: 7.0 Consensus size: 78
798186 CAAAAATAAC
* * * * *
798196 GGGGTTGGAGTATTCCTTCAGAAATAACGAGGTTAGAGTATCCTCGATAATGGACAATCAGTGTT
1 GGGGTTGGAGTA-TCCCTCAAAAATAACGAGGTTGGAGTATCCTCGATAGTGGAAAATCAGTGTT
798261 TTAGAAATAAAACA
65 TTAGAAATAAAACA
* * * ** *
798275 GGGGTTGGAGTATCCCGTCAAAAATAACGGGGTTGGAGCATTCTTAATGGTGGAAAATCAGTGTT
1 GGGGTTGGAGTATCCC-TCAAAAATAACGAGGTTGGAGTATCCTCGATAGTGGAAAATCAGTGTT
*
798340 TTAGAAATAAAACC
65 TTAGAAATAAAACA
* * * * * * *
798354 GGGGTTAGAGTATCCTCTCGAAAATAA-TAGGGTTAGAGTATCCCCCATTGTGGAAAATC-GATG
1 GGGGTTGGAGTATCC-CTCAAAAATAACGA-GGTTGGAGTATCCTCGATAGTGGAAAATCAG-TG
* *
798417 TTTTAAAAATAAAACT
63 TTTTAGAAATAAAACA
* * * * * * *
798433 GGGGTTGGATTATCCCCTCAAAATTAAC-AGGGTTAGAGTATCCTAGATGGTGGAAAAT-TGATA
1 GGGGTTGGAGTAT-CCCTCAAAAATAACGA-GGTTGGAGTATCCTCGATAGTGGAAAATCAG-TG
*
798496 TTTTGGAAATAAAATC-
63 TTTTAGAAATAAAA-CA
* *
798512 GGGG-TGGAGTATCTCCTCAAAAATAACGGGGTTGGAGTATCC-CTGATCGTGGAAAATCAGTGT
1 GGGGTTGGAGTATC-CCTCAAAAATAACGAGGTTGGAGTATCCTC-GATAGTGGAAAATCAGTGT
*
798575 TTTAGAAATAAAACT
64 TTTAGAAATAAAACA
* **
798590 GGGGTTGGAGTATCCCATCGAAAATAACGAGGTTGGAGTATCCTCGATCA-TGGAAAATTGGTGT
1 GGGGTTGGAGTATCCC-TCAAAAATAACGAGGTTGGAGTATCCTCGAT-AGTGGAAAATCAGTGT
798654 TTTAGAAATAAAACCA
64 TTTAGAAATAAAA-CA
* * * * *
798670 -AGGTTGGAGTATCCTCTCGAAAATAACGGGGTTGGAGTATCCCCGATAGTGGAAAATCAGTATT
1 GGGGTTGGAGTATCC-CTCAAAAATAACGAGGTTGGAGTATCCTCGATAGTGGAAAATCAGTGTT
798734 TTAGAAATAAAA
65 TTAGAAATAAAA
798746 ACATCAATTA
Statistics
Matches: 394, Mismatches: 57, Indels: 40
0.80 0.12 0.08
Matches are distributed among these distances:
77 2 0.01
78 68 0.17
79 317 0.80
80 7 0.02
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (78 bp):
GGGGTTGGAGTATCCCTCAAAAATAACGAGGTTGGAGTATCCTCGATAGTGGAAAATCAGTGTTT
TAGAAATAAAACA
Found at i:798305 original size:135 final size:135
Alignment explanation
Indices: 798063--798317 Score: 322
Period size: 135 Copynumber: 1.9 Consensus size: 135
798053 ATAAAAATAA
* *
798063 GGTTGGAGTATCCCTTCGAAAATAACACAGTTAGAGTATCCCTGATAGTGGAAAATTGATGTTTT
1 GGTTGGAGTATCCCTTCGAAAATAACACAGTTAGAGTATCCCTGATAATGGAAAATAGATGTTTT
* * * * * *
798128 AGAAATAAAATCGAGTTTGGAGTATCTCTTTAAAAATAACGGGGTTTGAGTATTCCCTCAAAAAT
66 AGAAATAAAATCGAGGTTGGAGTATCCCGTCAAAAATAACGGGGTTGGAGCATTCCCTCAAAAAT
798193 AACGG
131 AACGG
* * *
798198 GGTTGGAGTATTCCTTC-AGAAATAACGA-GGTTAGAGTAT-CCTCGATAATGGACAATCAG-TG
1 GGTTGGAGTATCCCTTCGA-AAATAAC-ACAGTTAGAGTATCCCT-GATAATGGAAAAT-AGATG
*
798259 TTTTAGAAATAAAA-CAGGGGTTGGAGTATCCCGTCAAAAATAACGGGGTTGGAGCATTC
62 TTTTAGAAATAAAATC-GAGGTTGGAGTATCCCGTCAAAAATAACGGGGTTGGAGCATTC
798318 TTAATGGTGG
Statistics
Matches: 103, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
134 5 0.05
135 96 0.93
136 2 0.02
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.29
Consensus pattern (135 bp):
GGTTGGAGTATCCCTTCGAAAATAACACAGTTAGAGTATCCCTGATAATGGAAAATAGATGTTTT
AGAAATAAAATCGAGGTTGGAGTATCCCGTCAAAAATAACGGGGTTGGAGCATTCCCTCAAAAAT
AACGG
Found at i:798483 original size:158 final size:155
Alignment explanation
Indices: 798195--798745 Score: 637
Period size: 158 Copynumber: 3.5 Consensus size: 155
798185 TCAAAAATAA
* * * *
798195 CGGGGTTGGAGTATTCCT-TC-AGAAATAACGAGGTTAGAGTATCCTCGATAATGGACAATCAGT
1 CGGGGTTGGAGTA-TCCTCTCGA-AAATAACGGGGTTAGAGTATCCCCGATAGTGGAAAATCAGT
* * * *
798258 GTTTTAGAAATAAAACAGGGGTTGGAGTATCCCGTCAAAAATAACGGGGTTGGAGCATTCTTA-A
64 GTTTTAGAAATAAAACTGGGGTTGGAGTATCCCATC-AAAATAAC-GGGTTGGAGTA-TCCTAGA
798322 TGGTGGAAAATCAGTGTTTTAGAAATAAAAC
126 TGGTGGAAAAT-AGTGTTTTAGAAATAAAAC
* ** * *
798353 CGGGGTTAGAGTATCCTCTCGAAAATAATAGGGTTAGAGTATCCCCCATTGTGGAAAATC-GATG
1 CGGGGTTGGAGTATCCTCTCGAAAATAACGGGGTTAGAGTATCCCCGATAGTGGAAAATCAG-TG
* * * *
798417 TTTTAAAAATAAAACTGGGGTTGGATTATCCCCTCAAAATTAACAGGGTTAGAGTATCCTAGATG
65 TTTTAGAAATAAAACTGGGGTTGGAGTATCCCATCAAAA-TAAC-GGGTTGGAGTATCCTAGATG
* * * *
798482 GTGGAAAATTGATATTTTGGAAATAAAAT
128 GTGGAAAATAG-TGTTTTAGAAATAAAAC
* * * *
798511 CGGGG-TGGAGTAT-CTCCTCAAAAATAACGGGGTTGGAGTATCCCTGATCGTGGAAAATCAGTG
1 CGGGGTTGGAGTATCCT-CTCGAAAATAACGGGGTTAGAGTATCCCCGATAGTGGAAAATCAGTG
* *
798574 TTTTAGAAATAAAACTGGGGTTGGAGTATCCCATCGAAAATAACGAGGTTGGAGTATCCTCGATC
65 TTTTAGAAATAAAACTGGGGTTGGAGTATCCCATC-AAAATAACG-GGTTGGAGTATCCTAGATG
* *
798639 ATGGAAAATTGGTGTTTTAGAAATAAAAC
128 GTGGAAAA-TAGTGTTTTAGAAATAAAAC
** * *
798668 CAAGGTTGGAGTATCCTCTCGAAAATAACGGGGTTGGAGTATCCCCGATAGTGGAAAATCAGTAT
1 CGGGGTTGGAGTATCCTCTCGAAAATAACGGGGTTAGAGTATCCCCGATAGTGGAAAATCAGTGT
798733 TTTAGAAATAAAA
66 TTTAGAAATAAAA
798746 ACATCAATTA
Statistics
Matches: 334, Mismatches: 46, Indels: 26
0.82 0.11 0.06
Matches are distributed among these distances:
156 3 0.01
157 135 0.40
158 193 0.58
159 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (155 bp):
CGGGGTTGGAGTATCCTCTCGAAAATAACGGGGTTAGAGTATCCCCGATAGTGGAAAATCAGTGT
TTTAGAAATAAAACTGGGGTTGGAGTATCCCATCAAAATAACGGGTTGGAGTATCCTAGATGGTG
GAAAATAGTGTTTTAGAAATAAAAC
Found at i:798613 original size:236 final size:237
Alignment explanation
Indices: 798198--798745 Score: 648
Period size: 236 Copynumber: 2.3 Consensus size: 237
798188 AAAATAACGG
* * * * *
798198 GGTTGGAGTATTCCTTC-AGAAATAAC-GAGGTTAGAGTATCCTC-GATAATGGACAATCAGTGT
1 GGTTGGAGTATCCCCTCGA-AAATAACAG-GGTTAGAGTATCC-CAGATAGTGGAAAATCAGTAT
* * *
798260 TTTAGAAATAAAACAGGGGTTGGAGTATCCCGTCAAAAATAACGGGGTTGGAGCATTCTTAATGG
63 TTTAGAAATAAAACAGGGGTTGGAGTATCCCGTCAAAAATAACGGGGTTGGAGCATCCCTAATCG
798325 TGGAAAATCAGTGTTTTAGAAATAAAACCGGGGTTAGAGTATCCTCTCGAAAATAATAG-GGTTA
128 TGGAAAATCAGTGTTTTAGAAATAAAACCGGGGTTAGAGTATCCTCTCGAAAATAA-AGAGGTTA
** ***
798389 GAGTATCCCCCATTGTGGAAAATCGATGTTTTAAAAATAAAACTGG
192 GAGTATCCCCCATCATGGAAAATCGATGTTTTAAAAATAAAACCAA
* * * *
798435 GGTTGGATTATCCCCTC-AAAATTAACAGGGTTAGAGTATCCTAGATGGTGGAAAAT-TGATATT
1 GGTTGGAGTATCCCCTCGAAAA-TAACAGGGTTAGAGTATCCCAGATAGTGGAAAATCAG-TATT
* * *
798498 TTGGAAATAAAATC-GGGG-TGGAGTATCTCC-TCAAAAATAACGGGGTTGGAGTATCCCTGATC
64 TTAGAAATAAAA-CAGGGGTTGGAGTATC-CCGTCAAAAATAACGGGGTTGGAGCATCCCTAATC
* * *
798560 GTGGAAAATCAGTGTTTTAGAAATAAAACTGGGGTTGGAGTATCC-CATCGAAAATAACGAGGTT
127 GTGGAAAATCAGTGTTTTAGAAATAAAACCGGGGTTAGAGTATCCTC-TCGAAAATAAAGAGGTT
* * * * * *
798624 GGAGTATCCTCGATCATGGAAAATTGGTGTTTTAGAAATAAAACCAA
191 AGAGTATCCCCCATCATGGAAAATCGATGTTTTAAAAATAAAACCAA
* * * *
798671 GGTTGGAGTATCCTCTCGAAAATAACGGGGTTGGAGTATCCCCGATAGTGGAAAATCAGTATTTT
1 GGTTGGAGTATCCCCTCGAAAATAACAGGGTTAGAGTATCCCAGATAGTGGAAAATCAGTATTTT
798736 AGAAATAAAA
66 AGAAATAAAA
798746 ACATCAATTA
Statistics
Matches: 263, Mismatches: 38, Indels: 21
0.82 0.12 0.07
Matches are distributed among these distances:
235 2 0.01
236 192 0.73
237 67 0.25
238 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (237 bp):
GGTTGGAGTATCCCCTCGAAAATAACAGGGTTAGAGTATCCCAGATAGTGGAAAATCAGTATTTT
AGAAATAAAACAGGGGTTGGAGTATCCCGTCAAAAATAACGGGGTTGGAGCATCCCTAATCGTGG
AAAATCAGTGTTTTAGAAATAAAACCGGGGTTAGAGTATCCTCTCGAAAATAAAGAGGTTAGAGT
ATCCCCCATCATGGAAAATCGATGTTTTAAAAATAAAACCAA
Found at i:801160 original size:20 final size:20
Alignment explanation
Indices: 801135--801241 Score: 145
Period size: 20 Copynumber: 5.7 Consensus size: 20
801125 GGTAAAACCT
801135 AGAATGTATCGATACAATGA
1 AGAATGTATCGATACAATGA
* *
801155 AGAATGTA---AAAC-CT-A
1 AGAATGTATCGATACAATGA
801170 A-AATGTATCGATACAATGA
1 AGAATGTATCGATACAATGA
801189 AGAATGTATCGATACAATGA
1 AGAATGTATCGATACAATGA
*
801209 AGAATGTATCGATATAATGA
1 AGAATGTATCGATACAATGA
801229 AGAATGTATCGAT
1 AGAATGTATCGAT
801242 GCAAATTGTG
Statistics
Matches: 76, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
14 6 0.08
15 2 0.03
16 1 0.01
17 6 0.08
18 1 0.01
19 2 0.03
20 58 0.76
ACGTcount: A:0.46, C:0.09, G:0.19, T:0.26
Consensus pattern (20 bp):
AGAATGTATCGATACAATGA
Found at i:801169 original size:34 final size:34
Alignment explanation
Indices: 801126--801196 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
801116 ATACATCTGG
*
801126 GTAAAACCTAGAATGTATCGATACAATGAAGAAT
1 GTAAAACCTAAAATGTATCGATACAATGAAGAAT
801160 GTAAAACCTAAAATGTATCGATACAATGAAGAAT
1 GTAAAACCTAAAATGTATCGATACAATGAAGAAT
801194 GTA
1 GTA
801197 TCGATACAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.48, C:0.11, G:0.17, T:0.24
Consensus pattern (34 bp):
GTAAAACCTAAAATGTATCGATACAATGAAGAAT
Found at i:808215 original size:16 final size:16
Alignment explanation
Indices: 808186--808220 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
808176 ACACAATTGT
808186 TTTGTAAATAATGTGA
1 TTTGTAAATAATGTGA
808202 TTTGTGAAAT-ATGTGA
1 TTTGT-AAATAATGTGA
808218 TTT
1 TTT
808221 TTTCTTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (16 bp):
TTTGTAAATAATGTGA
Found at i:808416 original size:37 final size:37
Alignment explanation
Indices: 808363--808540 Score: 135
Period size: 37 Copynumber: 4.7 Consensus size: 37
808353 GATTTCAAAC
* * *
808363 GTGCCACCGATTAAAAATAATGGTTTTTGTTTTGACCT
1 GTGCCATCGA-TAAAAATAGTGGTTTTTGTTTCGACCT
* ** *
808401 GTGCCATCGGTAAAAATAGTAATTTTTGTTCCGACCT
1 GTGCCATCGATAAAAATAGTGGTTTTTGTTTCGACCT
* *
808438 GTGCCATCGATAAGAATAGGGGTTTTTGTTTCGAACC-
1 GTGCCATCGATAAAAATAGTGGTTTTTGTTTCG-ACCT
* * * * * *
808475 ATGCCACTAGATTAGAATAGTTTGTTTTTG-TTCTGAACT
1 GTGCCA-TCGATAAAAATAG-TGGTTTTTGTTTC-GACCT
* * *
808514 ATGCCACCGATAAGAATAGTGGTTTTT
1 GTGCCATCGATAAAAATAGTGGTTTTT
808541 TTTTAATCAT
Statistics
Matches: 112, Mismatches: 23, Indels: 11
0.77 0.16 0.08
Matches are distributed among these distances:
37 61 0.54
38 37 0.33
39 14 0.12
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (37 bp):
GTGCCATCGATAAAAATAGTGGTTTTTGTTTCGACCT
Found at i:808504 original size:39 final size:36
Alignment explanation
Indices: 808450--808592 Score: 126
Period size: 38 Copynumber: 3.8 Consensus size: 36
808440 GCCATCGATA
*
808450 AGAATAGGGGTTTTTGTTTCGAACCATGCCACTAGATT
1 AGAATAGTGGTTTTTG-TTCGAACCATGCCAC-AGATT
* * * *
808488 AGAATAGTTTGTTTTTGTTCTGAACTATGCCACCGATA
1 AGAATAG-TGGTTTTTGTTC-GAACCATGCCACAGATT
** * * *
808526 AGAATAGTGGTTTTT-TTTTAATCATGCAACCAAATT
1 AGAATAGTGGTTTTTGTTCGAACCATGCCA-CAGATT
*
808562 AGAATAGTGGTTTTTGTTCTAACCTATGCCA
1 AGAATAGTGGTTTTTGTTCGAACC-ATGCCA
808593 TATGAGTTAA
Statistics
Matches: 83, Mismatches: 17, Indels: 10
0.75 0.15 0.09
Matches are distributed among these distances:
35 7 0.08
36 20 0.24
37 13 0.16
38 25 0.30
39 18 0.22
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (36 bp):
AGAATAGTGGTTTTTGTTCGAACCATGCCACAGATT
Found at i:808525 original size:76 final size:73
Alignment explanation
Indices: 808423--808592 Score: 198
Period size: 76 Copynumber: 2.3 Consensus size: 73
808413 AAAATAGTAA
* * * * * * *
808423 TTTTTGTTCCGACCTGTGCCATCGATAAGAATAGGGGTTTTTGTTTCGAACCATGCCACTAGATT
1 TTTTTGTTCTGAACTATGCCACCGATAAGAATAGGGGTTTTT-TTT-GAACCATGCAACCAAATT
*
808488 AGAATAGTTTG
64 AGAATAG-TGG
* * *
808499 TTTTTGTTCTGAACTATGCCACCGATAAGAATAGTGGTTTTTTTTTAATCATGCAACCAAATTAG
1 TTTTTGTTCTGAACTATGCCACCGATAAGAATAGGGGTTTTTTTTGAACCATGCAACCAAATTAG
808564 AATAGTGG
66 AATAGTGG
808572 TTTTTGTTCT-AACCTATGCCA
1 TTTTTGTTCTGAA-CTATGCCA
808593 TATGAGTTAA
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
72 2 0.02
73 20 0.24
74 20 0.24
75 3 0.04
76 37 0.45
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (73 bp):
TTTTTGTTCTGAACTATGCCACCGATAAGAATAGGGGTTTTTTTTGAACCATGCAACCAAATTAG
AATAGTGG
Found at i:808530 original size:38 final size:38
Alignment explanation
Indices: 808364--808592 Score: 127
Period size: 37 Copynumber: 6.1 Consensus size: 38
808354 ATTTCAAACG
* * * * *
808364 TGCCACCGATTAAAAATAAT-GGTTTTTGTTTTGACCTG
1 TGCCACCGA-TAAGAATAGTGGGTTTTTGTTCTGAACTA
* * * ** * * *
808402 TGCCATCGGTAAAAATAGT-AATTTTTGTTCCGACCTG
1 TGCCACCGATAAGAATAGTGGGTTTTTGTTCTGAACTA
* *
808439 TGCCATCGATAAGAATAG-GGGTTTTTGTT-TCGAACCA
1 TGCCACCGATAAGAATAGTGGGTTTTTGTTCT-GAACTA
* * **
808476 TGCCACTAGATTAGAATAGTTTGTTTTTGTTCTGAACTA
1 TGCCAC-CGATAAGAATAGTGGGTTTTTGTTCTGAACTA
*
808515 TGCCACCGATAAGAATAGT-GGTTTTT-TT-TTAA-TCA
1 TGCCACCGATAAGAATAGTGGGTTTTTGTTCTGAACT-A
* * *
808550 TGCAACCAAATTAGAATAGT-GGTTTTTGTTCT-AACCTA
1 TGCCACC-GATAAGAATAGTGGGTTTTTGTTCTGAA-CTA
808588 TGCCA
1 TGCCA
808593 TATGAGTTAA
Statistics
Matches: 151, Mismatches: 29, Indels: 22
0.75 0.14 0.11
Matches are distributed among these distances:
34 1 0.01
35 10 0.07
36 19 0.13
37 65 0.43
38 34 0.23
39 21 0.14
40 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.38
Consensus pattern (38 bp):
TGCCACCGATAAGAATAGTGGGTTTTTGTTCTGAACTA
Found at i:811218 original size:78 final size:78
Alignment explanation
Indices: 811054--811254 Score: 196
Period size: 78 Copynumber: 2.6 Consensus size: 78
811044 TCAGGAAAAC
* * *
811054 GAGATGATGAATGTGGACTTTTGGGAAGGTCAAGGCC-TTAGAGAAAGTGTAGCAACAATCTCGA
1 GAGATAATCAATGTGGACTTTT-GGAAGGTCAAGGCCTTTAG-GAAAGTGTAGCAACAATCTCAA
*
811118 GCCCTTAGGAAGGCT
64 GCCCTTAGAAAGGCT
* * *
811133 -AGCTAATCAATGTGGACTTTTAGGAAGGTCAAGGCCTTTAGGAAA-TCGTAGCAACAATGTTAA
1 GAGATAATCAATGTGGACTTTT-GGAAGGTCAAGGCCTTTAGGAAAGT-GTAGCAACAATCTCAA
*
811196 G-CCTTTGAAAAGG-T
64 GCCCTTAG-AAAGGCT
* * * * *
811210 GAGATAATCAATATGGACCTTTGGAAAGGTTAAGGCTTTTGGGAA
1 GAGATAATCAATGTGGACTTTTGG-AAGGTCAAGGCCTTTAGGAA
811255 GCATAGAGAC
Statistics
Matches: 102, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
77 9 0.09
78 89 0.87
79 4 0.04
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.26
Consensus pattern (78 bp):
GAGATAATCAATGTGGACTTTTGGAAGGTCAAGGCCTTTAGGAAAGTGTAGCAACAATCTCAAGC
CCTTAGAAAGGCT
Found at i:816082 original size:52 final size:52
Alignment explanation
Indices: 816012--816132 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
816002 GAAAATTTAT
*
816012 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
816064 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
816116 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
816133 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:816145 original size:52 final size:51
Alignment explanation
Indices: 816012--816152 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
816002 GAAAATTTAT
816012 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
816064 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
816116 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
816153 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:816159 original size:13 final size:13
Alignment explanation
Indices: 816141--816165 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
816131 CAAAGATCAG
816141 TGTATCGATACAA
1 TGTATCGATACAA
816154 TGTATCGATACA
1 TGTATCGATACA
816166 TGTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:816248 original size:13 final size:13
Alignment explanation
Indices: 816230--816254 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
816220 CAAAAAAATA
816230 TGTATCGATACAT
1 TGTATCGATACAT
816243 TGTATCGATACA
1 TGTATCGATACA
816255 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:816250 original size:33 final size:33
Alignment explanation
Indices: 816208--816274 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
816198 AGTAGCTTAA
816208 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
816241 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
816274 A
1 A
816275 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:816591 original size:9 final size:9
Alignment explanation
Indices: 816577--816664 Score: 71
Period size: 9 Copynumber: 10.0 Consensus size: 9
816567 ACCAAGTTTT
816577 TTTTTCTTC
1 TTTTTCTTC
816586 TTTTTCTT-
1 TTTTTCTTC
816594 TTTTTCCTTC
1 TTTTT-CTTC
*
816604 TTCTTCTTC
1 TTTTTCTTC
*
816613 -TTTACTT-
1 TTTTTCTTC
816620 TTTTTC-TC
1 TTTTTCTTC
816628 TTTTAT-TATC
1 TTTT-TCT-TC
816638 TTTTTCCTT-
1 TTTTT-CTTC
*
816647 TTTTTCTTT
1 TTTTTCTTC
816656 TTTTTCTTC
1 TTTTTCTTC
816665 AAAACTAAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
7 1 0.02
8 21 0.33
9 30 0.47
10 11 0.17
11 1 0.02
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTCTTC
Found at i:816614 original size:27 final size:27
Alignment explanation
Indices: 816575--816664 Score: 89
Period size: 26 Copynumber: 3.4 Consensus size: 27
816565 GAACCAAGTT
*
816575 TTTTTTTCTTCTTTTTCTTTTTTTC-C
1 TTTTATTCTTCTTTTTCTTTTTTTCTC
* *
816601 TTCTTCTTCTTC-TTTACTTTTTTTCTC
1 TT-TTATTCTTCTTTTTCTTTTTTTCTC
*
816628 TTTTATT-ATCTTTTTCCTTTTTTTCT-
1 TTTTATTCTTCTTTTT-CTTTTTTTCTC
*
816654 TTTTTTTCTTC
1 TTTTATTCTTC
816665 AAAACTAAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
25 2 0.04
26 27 0.52
27 23 0.44
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (27 bp):
TTTTATTCTTCTTTTTCTTTTTTTCTC
Found at i:816629 original size:21 final size:20
Alignment explanation
Indices: 816573--816660 Score: 65
Period size: 21 Copynumber: 4.3 Consensus size: 20
816563 TTGAACCAAG
*
816573 TTTTTTTTTCTTCTTTTTCT
1 TTTTTTTTTCTTCTTCTTCT
*
816593 TTTTTTCCTTCTTCTTCTTCT
1 TTTTTT-TTTCTTCTTCTTCT
*
816614 TTACTTTTTTTC-TCTT-TTAT
1 TT--TTTTTTTCTTCTTCTTCT
* * *
816634 TATCTTTTTCCTT-TTTTTCT
1 T-TTTTTTTTCTTCTTCTTCT
816654 TTTTTTT
1 TTTTTTT
816661 CTTCAAAACT
Statistics
Matches: 54, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
19 13 0.24
20 15 0.28
21 19 0.35
22 3 0.06
23 4 0.07
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTTTTTCTTCTTCTTCT
Found at i:817392 original size:19 final size:20
Alignment explanation
Indices: 817360--817400 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
817350 AGCCGACCTC
*
817360 TTTTTTGTCATTTTTTTATA
1 TTTTTTATCATTTTTTTATA
*
817380 TTTTTTATC-TTTTTTTGTA
1 TTTTTTATCATTTTTTTATA
817399 TT
1 TT
817401 AAAATAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.12, C:0.05, G:0.05, T:0.78
Consensus pattern (20 bp):
TTTTTTATCATTTTTTTATA
Found at i:817825 original size:28 final size:28
Alignment explanation
Indices: 817787--817860 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
817777 ATAGCTAGTG
*
817787 TGGGCTTTAACTCGGGTGCCACCTAGCA
1 TGGGCTTTAACTCGGGTGCCAACTAGCA
*
817815 TGGGCTCTAACTCGGGTGCCAACTAGCA
1 TGGGCTTTAACTCGGGTGCCAACTAGCA
* *
817843 TTGGTTTTAACTCGGGTG
1 TGGGCTTTAACTCGGGTG
817861 GCAGCTAGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.18, C:0.24, G:0.30, T:0.28
Consensus pattern (28 bp):
TGGGCTTTAACTCGGGTGCCAACTAGCA
Found at i:817868 original size:28 final size:28
Alignment explanation
Indices: 817792--817883 Score: 103
Period size: 28 Copynumber: 3.3 Consensus size: 28
817782 TAGTGTGGGC
* * *
817792 TTTAACTCGGGTGCCACCTAGCATGGGC
1 TTTAACTCGGGTGCCAACTAGCATTGGT
*
817820 TCTAACTCGGGTGCCAACTAGCATTGGT
1 TTTAACTCGGGTGCCAACTAGCATTGGT
* * **
817848 TTTAACTCGGGTGGCAGCTAGTGTTGGT
1 TTTAACTCGGGTGCCAACTAGCATTGGT
*
817876 TTTGACTC
1 TTTAACTC
817884 ATGTGCCAGT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 54 1.00
ACGTcount: A:0.17, C:0.23, G:0.28, T:0.32
Consensus pattern (28 bp):
TTTAACTCGGGTGCCAACTAGCATTGGT
Found at i:817897 original size:28 final size:28
Alignment explanation
Indices: 817779--817899 Score: 80
Period size: 28 Copynumber: 4.3 Consensus size: 28
817769 ACTAGATGAT
* * *
817779 AGCTAGTGTGGGCTTTAACTCGGGTGCC
1 AGCTAGTGTTGGTTTTAACTCAGGTGCC
* ** * * * *
817807 ACCTAGCATGGGCTCTAACTCGGGTGCC
1 AGCTAGTGTTGGTTTTAACTCAGGTGCC
* ** * *
817835 AACTAGCATTGGTTTTAACTCGGGTGGC
1 AGCTAGTGTTGGTTTTAACTCAGGTGCC
* *
817863 AGCTAGTGTTGGTTTTGACTCATGTGCC
1 AGCTAGTGTTGGTTTTAACTCAGGTGCC
*
817891 AGTTAGTGT
1 AGCTAGTGT
817900 GGGCTCTTAC
Statistics
Matches: 76, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 76 1.00
ACGTcount: A:0.17, C:0.21, G:0.31, T:0.31
Consensus pattern (28 bp):
AGCTAGTGTTGGTTTTAACTCAGGTGCC
Found at i:818010 original size:28 final size:28
Alignment explanation
Indices: 817944--818022 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
817934 TTATTAATTT
*
817944 CCAAATAATGTAAGCTTTGACTCGGGTG
1 CCAACTAATGTAAGCTTTGACTCGGGTG
*
817972 CCAACTGATGTAAGCTTTGACTCGGGTG
1 CCAACTAATGTAAGCTTTGACTCGGGTG
* * * *
818000 CTAGCTAATGTGAGTTTTGACTC
1 CCAACTAATGTAAGCTTTGACTC
818023 AAGTACCAGC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (28 bp):
CCAACTAATGTAAGCTTTGACTCGGGTG
Found at i:818896 original size:17 final size:18
Alignment explanation
Indices: 818871--818908 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
818861 GAACCCAAGT
*
818871 TTGACAAAAAAAAAG-AA
1 TTGAAAAAAAAAAAGTAA
*
818888 TTGAAAAAAAACAAGTAA
1 TTGAAAAAAAAAAAGTAA
818906 TTG
1 TTG
818909 CTTTTCGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.63, C:0.05, G:0.13, T:0.18
Consensus pattern (18 bp):
TTGAAAAAAAAAAAGTAA
Found at i:818907 original size:18 final size:17
Alignment explanation
Indices: 818871--818908 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
818861 GAACCCAAGT
818871 TTGACAAAAAAAAAGAA
1 TTGACAAAAAAAAAGAA
818888 TTGA-AAAAAAACAAGTAA
1 TTGACAAAAAAA-AAG-AA
818906 TTG
1 TTG
818909 CTTTTCGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 7 0.37
18 5 0.26
ACGTcount: A:0.63, C:0.05, G:0.13, T:0.18
Consensus pattern (17 bp):
TTGACAAAAAAAAAGAA
Found at i:823019 original size:157 final size:157
Alignment explanation
Indices: 822701--823062 Score: 424
Period size: 158 Copynumber: 2.3 Consensus size: 157
822691 TCTCCGATTG
* * * **
822701 TGAAAAATCGATATTTTAGAAATAAAAACGGGGTTGGAGTATCCCCTCAAAAATAGCGGGGTTAG
1 TGAAAAATTGATATTTTAGAAATAAAAACGGGGTTAGAGTATCCCCTCAAAAATAACAAGGTTAG
* * * * *
822766 AGTATCCCTGAATGAAAATTTTAATATTTTGGAAGTGAAAACGGGGTTGGATTATCTCTTCAGAA
66 AGTATCCCCGAATGAAAATTTTAATATTTTGAAACTAAAAACGGGGTTGGAGTATCTCTTCAGAA
* ** * *
822831 GTGATGGGATTGGAGTATCCCCGATGG
131 ATGACAGGATTGGAGTATCCCCGACGA
* ** ** *
822858 TGAAAAATTGATATTTTAGAAATAAAAACGGGGTTAGAGTATTCTTTGGAAAATAACAAGGTTGG
1 TGAAAAATTGATATTTTAGAAATAAAAACGGGGTTAGAGTATCCCCTCAAAAATAACAAGGTTAG
*
822923 AGTATCCCCGAGATGAAAATTTTAATATTTTGAAACTAAAAATGGGGTTGGAGTATCTCTTC-GA
66 AGTATCCCCGA-ATGAAAATTTTAATATTTTGAAACTAAAAACGGGGTTGGAGTATCTCTTCAG-
*
822987 AAATAGCCAGG-TTGGAGTATCCCCG-CGA
129 AAAT-GACAGGATTGGAGTATCCCCGACGA
* * * *
823015 TGAAAAATTTAATATTTTAGAAATAAAAACGAGATTGGAGTATCCCCT
1 TGAAAAA-TTGATATTTTAGAAATAAAAACGGGGTTAGAGTATCCCCT
823063 AAGATGACAA
Statistics
Matches: 171, Mismatches: 30, Indels: 7
0.82 0.14 0.03
Matches are distributed among these distances:
157 73 0.43
158 95 0.56
159 3 0.02
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (157 bp):
TGAAAAATTGATATTTTAGAAATAAAAACGGGGTTAGAGTATCCCCTCAAAAATAACAAGGTTAG
AGTATCCCCGAATGAAAATTTTAATATTTTGAAACTAAAAACGGGGTTGGAGTATCTCTTCAGAA
ATGACAGGATTGGAGTATCCCCGACGA
Found at i:823058 original size:79 final size:78
Alignment explanation
Indices: 822711--823058 Score: 348
Period size: 79 Copynumber: 4.4 Consensus size: 78
822701 TGAAAAATCG
* * * ** * *
822711 ATATTTTAGAAATAAAAACGGGGTTGGAGTATCCCCTCAAAAATAGCGGGGTTAGAGTATCCCTG
1 ATATTTTAGAAATAAAAACGGGGTTGGAGTATCTCTTCGAAAATAGCAAGGTTGGAGTATCCCCG
* *
822776 AATGAAAATTTTA
66 GATGAAAAATTTA
* * * * * *
822789 ATATTTTGGAAGTGAAAACGGGGTTGGATTATCTCTTC-AGAAGT-G-ATGGGATTGGAGTATCC
1 ATATTTTAGAAATAAAAACGGGGTTGGAGTATCTCTTCGA-AAATAGCA-AGG-TTGGAGTATCC
* *
822851 CCGATGGTGAAAAA-TTG
63 CCG--GATGAAAAATTTA
* * *
822868 ATATTTTAGAAATAAAAACGGGGTTAGAGTAT-TCTTTGGAAAATAACAAGGTTGGAGTATCCCC
1 ATATTTTAGAAATAAAAACGGGGTTGGAGTATCTC-TTCGAAAATAGCAAGGTTGGAGTATCCCC
*
822932 GAGATGAAAATTTTA
65 G-GATGAAAAATTTA
* *
822947 ATATTTT-GAAACTAAAAATGGGGTTGGAGTATCTCTTCGAAAATAGCCAGGTTGGAGTATCCCC
1 ATATTTTAGAAA-TAAAAACGGGGTTGGAGTATCTCTTCGAAAATAGCAAGGTTGGAGTATCCCC
823011 GCGATGAAAAATTTA
65 G-GATGAAAAATTTA
* *
823026 ATATTTTAGAAATAAAAACGAGATTGGAGTATC
1 ATATTTTAGAAATAAAAACGGGGTTGGAGTATC
823059 CCCTAAGATG
Statistics
Matches: 220, Mismatches: 37, Indels: 25
0.78 0.13 0.09
Matches are distributed among these distances:
77 5 0.02
78 60 0.27
79 139 0.63
80 15 0.07
81 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.30
Consensus pattern (78 bp):
ATATTTTAGAAATAAAAACGGGGTTGGAGTATCTCTTCGAAAATAGCAAGGTTGGAGTATCCCCG
GATGAAAAATTTA
Found at i:824942 original size:33 final size:33
Alignment explanation
Indices: 824905--824971 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
824895 TTCAACGATT
824905 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
824938 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
824971 T
1 T
824972 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:824943 original size:13 final size:13
Alignment explanation
Indices: 824925--824949 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
824915 CATAAAATGT
824925 TGTATCGATACAA
1 TGTATCGATACAA
824938 TGTATCGATACA
1 TGTATCGATACA
824950 TATTTTTTTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:825030 original size:13 final size:13
Alignment explanation
Indices: 825012--825036 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
825002 ATTACTCAAA
825012 TGTATCGATACAT
1 TGTATCGATACAT
825025 TGTATCGATACA
1 TGTATCGATACA
825037 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:825138 original size:52 final size:52
Alignment explanation
Indices: 825045--825172 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
825035 CACTGATCTT
*
825045 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
825096 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
825148 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
825173 TAATATTTCA
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 19 0.26
52 52 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:830018 original size:52 final size:53
Alignment explanation
Indices: 829940--830059 Score: 154
Period size: 52 Copynumber: 2.3 Consensus size: 53
829930 CAAAAATGAC
* * ** *
829940 GGGGTTGGAGTATCCCCAATGGTGAAAATTTTGAT-ATTTTGGAAGTAAAACT
1 GGGGTTAGAGTATCCCCAATGGTGAAAAATTCAATGATTTTGGAAGTAAAAAT
* *
829992 GGGGTTAGAGTATCCCCGATGGTGAAAAATTCAATGCTTTTGGAAGTAAAAAT
1 GGGGTTAGAGTATCCCCAATGGTGAAAAATTCAATGATTTTGGAAGTAAAAAT
*
830045 -GGTTTAGAGTATCCC
1 GGGGTTAGAGTATCCC
830060 TTCGAAAATA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
52 44 0.75
53 15 0.25
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (53 bp):
GGGGTTAGAGTATCCCCAATGGTGAAAAATTCAATGATTTTGGAAGTAAAAAT
Found at i:830083 original size:80 final size:80
Alignment explanation
Indices: 829993--830202 Score: 246
Period size: 80 Copynumber: 2.6 Consensus size: 80
829983 AGTAAAACTG
* * * *
829993 GGGTTAGAGTATCCCCGATGGTGAAAAATTCAATGCTTTTGGAAGTAAAAAT-GGTTTAGAGTAT
1 GGGTTGGAGTATCCCCGATGGTGAAAAATTCAAT-ATTTTGGAAGTAAAAATGGGGTTAGAGCAT
830057 CCCTTCGAAAATAAT-
65 CCCTTCGAAAATAATA
** * ** * *
830072 GGGTTTGGAGTATCCTTGATGGTGAAAATTTTGATATTTTGGAAGTAAATATGGGGTTGGAGCAT
1 GGG-TTGGAGTATCCCCGATGGTGAAAAATTCAATATTTTGGAAGTAAAAATGGGGTTAGAGCAT
** *
830137 CTTTTCGAAAATGATA
65 CCCTTCGAAAATAATA
*
830153 GGGTTGGAGTATCCCCGA-GGTGAAAAATTCAATATTTTGAAAGTAAAAAT
1 GGGTTGGAGTATCCCCGATGGTGAAAAATTCAATATTTTGGAAGTAAAAAT
830203 TTTTAAATTT
Statistics
Matches: 107, Mismatches: 21, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
79 45 0.42
80 59 0.55
81 3 0.03
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.32
Consensus pattern (80 bp):
GGGTTGGAGTATCCCCGATGGTGAAAAATTCAATATTTTGGAAGTAAAAATGGGGTTAGAGCATC
CCTTCGAAAATAATA
Found at i:830098 original size:132 final size:131
Alignment explanation
Indices: 829862--830129 Score: 342
Period size: 132 Copynumber: 2.0 Consensus size: 131
829852 GTGAAAATTA
* * * ** *
829862 GGGTTGGAGTATCTCTGATGGTGAAAATTTGATATTTTGGAAATAAAAACGGGGTTAGAGTATCT
1 GGGTTAGAGTATCCCCGATGGTGAAAATTCAATATTTTGGAAATAAAAACGGGGTTAGAGTATCC
*
829927 CTTCAAAAATGACGGGGTTGGAGTATCCCCAATGGTGAAAATTTTGATATTTTGGAAGTAAA-AC
66 CTTCAAAAATAACGGGGTTGGAGTATCCCCAATGGTGAAAATTTTGATATTTTGGAAGTAAATA-
829991 TG
130 TG
* * * *
829993 GGGTTAGAGTATCCCCGATGGTGAAAAATTCAATGCTTTTGGAAGTAAAAA-TGGTTTAGAGTAT
1 GGGTTAGAGTATCCCCGATGGTG-AAAATTCAAT-ATTTTGGAAATAAAAACGGGGTTAGAGTAT
* * * ***
830057 CCCTTCGAAAATAATGGGTTTGGAGTATCCTTGATGGTGAAAATTTTGATATTTTGGAAGTAAAT
64 CCCTTCAAAAATAACGGGGTTGGAGTATCCCCAATGGTGAAAATTTTGATATTTTGGAAGTAAAT
830122 ATG
129 ATG
830125 GGGTT
1 GGGTT
830130 GGAGCATCTT
Statistics
Matches: 117, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
131 20 0.17
132 82 0.70
133 15 0.13
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.33
Consensus pattern (131 bp):
GGGTTAGAGTATCCCCGATGGTGAAAATTCAATATTTTGGAAATAAAAACGGGGTTAGAGTATCC
CTTCAAAAATAACGGGGTTGGAGTATCCCCAATGGTGAAAATTTTGATATTTTGGAAGTAAATAT
G
Found at i:832614 original size:52 final size:51
Alignment explanation
Indices: 832539--832677 Score: 138
Period size: 51 Copynumber: 2.7 Consensus size: 51
832529 AATAGCCTGC
* * * * *** *
832539 ATGTATTGATAC-ATTAAAGAATGTATCAATACATTTGGGTCAAAAATGTATA
1 ATGTATAGATACAATGAAA-AATGTATCGATACATTTGGAT-AAAAACCCAGA
* *
832591 ATGTATTAG-TACAATGAAAAATGTATTGATACATTTGGATTAAAACCCAGA
1 ATGTA-TAGATACAATGAAAAATGTATCGATACATTTGGATAAAAACCCAGA
*
832642 ATGTATAGATACAATGAAAAAAGTATCGATACATTT
1 ATGTATAGATACAATGAAAAATGTATCGATACATTT
832678 TCTTTCTATA
Statistics
Matches: 72, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
50 3 0.04
51 36 0.50
52 26 0.36
53 7 0.10
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (51 bp):
ATGTATAGATACAATGAAAAATGTATCGATACATTTGGATAAAAACCCAGA
Found at i:836237 original size:58 final size:58
Alignment explanation
Indices: 836132--836317 Score: 164
Period size: 58 Copynumber: 3.2 Consensus size: 58
836122 CTTTTTGCAT
* * * * * *
836132 CATTTTAGTCATTTGCCATG-TTTAGAGACTTTTATGCAATATGATGCATTTTAAGAC
1 CATTTTAATCATTTTCGATGATTTAGAGACTTTTATACAATTTCATGCATTTTAAGAC
** * * **
836189 CATTTTAATCATTTTTTAT-ATTCTAGATACTTTTATACAATTTCATGCATTGTGTGAC
1 CATTTTAATCATTTTCGATGATT-TAGAGACTTTTATACAATTTCATGCATTTTAAGAC
* * * * *
836247 CATTTTAGTCATTTTCGATGCTTTA-AGGACTATTATACAATTCCATGCATTTTAACAC
1 CATTTTAATCATTTTCGATGATTTAGA-GACTTTTATACAATTTCATGCATTTTAAGAC
*
836305 CATTCTAA-CATTT
1 CATTTTAATCATTT
836318 CCAAGCATTT
Statistics
Matches: 101, Mismatches: 24, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
57 23 0.23
58 76 0.75
59 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.11, T:0.45
Consensus pattern (58 bp):
CATTTTAATCATTTTCGATGATTTAGAGACTTTTATACAATTTCATGCATTTTAAGAC
Found at i:837263 original size:26 final size:24
Alignment explanation
Indices: 837226--837294 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 24
837216 CCAACCAAAA
*
837226 TTTTTTTCATTATTTCATTTTCAATT
1 TTTTTTTCATTA-TTAATTTT-AATT
*
837252 TTTTTTTGATTATTAATTTTAATT
1 TTTTTTTCATTATTAATTTTAATT
*
837276 TTACTTTTC-TT-TTAATTTT
1 TT-TTTTTCATTATTAATTTT
837295 GGATTTTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
23 8 0.21
24 8 0.21
25 11 0.29
26 11 0.29
ACGTcount: A:0.20, C:0.07, G:0.01, T:0.71
Consensus pattern (24 bp):
TTTTTTTCATTATTAATTTTAATT
Found at i:837275 original size:24 final size:26
Alignment explanation
Indices: 837226--837277 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
837216 CCAACCAAAA
*
837226 TTTTTTTCATTATTTCATTTTCAATT
1 TTTTTTTCATTATTTAATTTTCAATT
*
837252 TTTTTTTGATTA-TTAATTTT-AATT
1 TTTTTTTCATTATTTAATTTTCAATT
837276 TT
1 TT
837278 ACTTTTCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 6 0.25
25 7 0.29
26 11 0.46
ACGTcount: A:0.21, C:0.06, G:0.02, T:0.71
Consensus pattern (26 bp):
TTTTTTTCATTATTTAATTTTCAATT
Found at i:839106 original size:18 final size:18
Alignment explanation
Indices: 839083--839117 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
839073 CTCAACTAAT
*
839083 ATTTTTAATAAAATTAAA
1 ATTTTTAAAAAAATTAAA
839101 ATTTTTAAAAAAATTAA
1 ATTTTTAAAAAAATTAA
839118 GATAACGTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTTTAAAAAAATTAAA
Found at i:841496 original size:15 final size:15
Alignment explanation
Indices: 841476--841509 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
841466 AGTCAATAGT
*
841476 TTTAAAAAACATTAA
1 TTTAAAAAACATAAA
*
841491 TTTAAAAAATATAAA
1 TTTAAAAAACATAAA
841506 TTTA
1 TTTA
841510 TATTTAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
TTTAAAAAACATAAA
Found at i:846649 original size:97 final size:97
Alignment explanation
Indices: 846532--846778 Score: 359
Period size: 97 Copynumber: 2.5 Consensus size: 97
846522 TTTTTTATTG
* * *
846532 AAAAACGGGATTGAAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCTCGATGATGACAATTTA
1 AAAAACGGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTA
846597 AGTGAGAATAAAATTTAAACTTTGATACGTTT
66 AGTGAGAATAAAATTTAAACTTTGATACGTTT
* * * *
846629 AAAAGCGGGGTTGGAGTATCCCCTTGGAGGAATGGGGTTGAAGTGTCCCCGATGGTGACAATTTA
1 AAAAACGGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTA
* **
846694 AGTGAGAATAAGATTTAAACTTTGATGTGTTT
66 AGTGAGAATAAAATTTAAACTTTGATACGTTT
** * * *
846726 AAAAACGGGGAAGGAGTATCCCCTCGGAGGAATAGGGTTAGAGTATCCCCGAT
1 AAAAACGGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGAT
846779 AAATAAAATT
Statistics
Matches: 132, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
97 132 1.00
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (97 bp):
AAAAACGGGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTA
AGTGAGAATAAAATTTAAACTTTGATACGTTT
Found at i:848745 original size:20 final size:20
Alignment explanation
Indices: 848713--848786 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 20
848703 TTTTACCCAG
*
848713 ATGTATCGATACATTTTTCA
1 ATGTATTGATACATTTTTCA
* * * *
848733 ATATATTGATACATGTATGA
1 ATGTATTGATACATTTTTCA
* * *
848753 ATGTATCGATATATTCTTCA
1 ATGTATTGATACATTTTTCA
848773 ATGTATTGATACAT
1 ATGTATTGATACAT
848787 CTAGTTAAAA
Statistics
Matches: 40, Mismatches: 14, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (20 bp):
ATGTATTGATACATTTTTCA
Found at i:859135 original size:20 final size:19
Alignment explanation
Indices: 859110--859180 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
859100 ACCCTGAAAA
859110 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
859130 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
859149 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
859170 GTATCGATACA
1 GTATCGATACA
859181 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:859233 original size:53 final size:53
Alignment explanation
Indices: 859150--859286 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
859140 AAATTGCATA
859150 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
859204 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
859257 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
859287 TTGGAAGTAG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
53 67 0.83
54 14 0.17
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:859329 original size:10 final size:10
Alignment explanation
Indices: 859310--859340 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
859300 AATCTCATTT
859310 TCACTGTTCA
1 TCACTGTTCA
*
859320 TCACTATTCA
1 TCACTGTTCA
859330 TCACTGTTCA
1 TCACTGTTCA
859340 T
1 T
859341 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:859362 original size:21 final size:22
Alignment explanation
Indices: 859328--859382 Score: 103
Period size: 21 Copynumber: 2.5 Consensus size: 22
859318 CATCACTATT
859328 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
859350 CATCACT-TTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
859371 CATCACTGTTCA
1 CATCACTGTTCA
859383 CACTGTTCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.66
22 11 0.34
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.36
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:859477 original size:13 final size:13
Alignment explanation
Indices: 859459--859484 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
859449 ACATATTTGT
859459 GTGTATCGATACA
1 GTGTATCGATACA
859472 GTGTATCGATACA
1 GTGTATCGATACA
859485 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:863788 original size:10 final size:10
Alignment explanation
Indices: 863773--863834 Score: 70
Period size: 11 Copynumber: 5.7 Consensus size: 10
863763 TTTACACCCA
863773 AAAAAAAAAC
1 AAAAAAAAAC
863783 AAAAAAAAAC
1 AAAAAAAAAC
*
863793 AAAACAAAAAA
1 AAAA-AAAAAC
863804 ACAAAAAAAAC
1 A-AAAAAAAAC
863815 AAGAAAAAATAGC
1 AA-AAAAAA-A-C
863828 AAAAAAA
1 AAAAAAA
863835 TAGAAGGGTC
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
10 15 0.33
11 18 0.40
12 9 0.20
13 3 0.07
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:863809 original size:22 final size:22
Alignment explanation
Indices: 863773--863834 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
863763 TTTACACCCA
863773 AAAAAAAAACAAAAAAAAACAA-
1 AAAAAAAAAC-AAAAAAAACAAG
863795 AACAAAAAAACAAAAAAAACAAG
1 AA-AAAAAAACAAAAAAAACAAG
* *
863818 AAAAAATAGCAAAAAAA
1 AAAAAAAAACAAAAAAA
863835 TAGAAGGGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
22 26 0.72
23 10 0.28
ACGTcount: A:0.85, C:0.10, G:0.03, T:0.02
Consensus pattern (22 bp):
AAAAAAAAACAAAAAAAACAAG
Found at i:863834 original size:1 final size:1
Alignment explanation
Indices: 863772--863823 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
863762 CTTTACACCC
* * * * * *
863772 AAAAAAAAAACAAAAAAAAACAAAACAAAAAAACAAAAAAAACAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
863824 TAGCAAAAAA
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:865089 original size:28 final size:28
Alignment explanation
Indices: 865047--865903 Score: 1158
Period size: 28 Copynumber: 30.1 Consensus size: 28
865037 ACGTTCATCT
*
865047 TTTCAAAGCCTACAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
865075 TTTCAAAGCCCACAAGTCAGTGGCA-TCC
1 TTTCAAAGCCCACAAGTCAGTGGCACT-C
865103 TTTCAAAGCCCACAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
*
865131 TTTTCAAAACCCACAAGTCAGTGGCAC-C
1 -TTTCAAAGCCCACAAGTCAGTGGCACTC
* *
865159 ATTTCAAAGCCCACGAGTTAGTGGCAC-C
1 -TTTCAAAGCCCACAAGTCAGTGGCACTC
865187 ATTTCAAAGCCCACAAGTCAGTGGCACTC
1 -TTTCAAAGCCCACAAGTCAGTGGCACTC
865216 TTTCAAAGCCCACAAGTCAGTGGCAC-C
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
865243 ATTTCAAAGCCCACAAGTCAGTGGCAC-C
1 -TTTCAAAGCCCACAAGTCAGTGGCACTC
*
865271 ATTTCAAAGCCCACAAGTCAGTGGCACCC
1 -TTTCAAAGCCCACAAGTCAGTGGCACTC
865300 TTTCAAAGCCCACAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
*
865328 TTTTCAAAGCTCACAAGTCAGTGGCACTC
1 -TTTCAAAGCCCACAAGTCAGTGGCACTC
*
865357 TTTCAAAGCCCACGAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
*
865385 TTTCAAAGCCCACGAGTCAGTGGCAC-C
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
*
865412 ATTTCAAAGCCCACGAGTCAGTGGCACTC
1 -TTTCAAAGCCCACAAGTCAGTGGCACTC
*
865441 TTTTCAAAGCCCACGAGTCAGTGGCACTC
1 -TTTCAAAGCCCACAAGTCAGTGGCACTC
*
865470 TTTCAAAGCCCACGAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
865498 TTTTCAAAGCCCACAAGTCAGTGGCACTC
1 -TTTCAAAGCCCACAAGTCAGTGGCACTC
*
865527 TTTCAAAGCCCATAAGTCAGTGGCAC-C
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
*
865554 ATTTCAAAGCCCACGAGTCAGTGGCACTC
1 -TTTCAAAGCCCACAAGTCAGTGGCACTC
* *
865583 TTTTCAAAGCCCACTGAGTTAGTGGCACTC
1 -TTTCAAAGCCCAC-AAGTCAGTGGCACTC
* *
865613 TTTCAAAGCCCACGAGTCAGTGGCATTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACT-C
865642 TTTCAAAGCCCACAAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
*
865670 TTTCAAAGCCCACGAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
*
865698 TTTCAAAGCCCACGAGTCAGTGGCACTC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
* *
865726 TTTCAAAGCCCACGAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
*
865754 TTTCAAAGCCCACAAGTTAGTGGCAC-C
1 TTTCAAAGCCCACAAGTCAGTGGCACTC
* * *
865781 ATTTCAAAGCCCAGAAGTCAGAGGCACCC
1 -TTTCAAAGCCCACAAGTCAGTGGCACTC
* *
865810 TTTTAAAGCCCACAAG-CAAGTGGTAACTC
1 TTTCAAAGCCCACAAGTC-AGTGG-CACTC
*
865839 TTTTCAAAGCCCACACGAGTCGGTGGCAACTC
1 -TTTCAAAGCCCACA--AGTCAGTGGC-ACTC
* *
865871 TTTTCAAGGCCCACATAAGTTAGTGGCAC-C
1 -TTTCAAAGCCCAC--AAGTCAGTGGCACTC
865901 TTT
1 TTT
865904 TTTTTAAAAA
Statistics
Matches: 763, Mismatches: 41, Indels: 49
0.89 0.05 0.06
Matches are distributed among these distances:
27 6 0.01
28 523 0.69
29 171 0.22
30 28 0.04
31 2 0.00
32 31 0.04
33 1 0.00
34 1 0.00
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACTC
Found at i:865192 original size:85 final size:85
Alignment explanation
Indices: 865047--865903 Score: 1173
Period size: 85 Copynumber: 10.0 Consensus size: 85
865037 ACGTTCATCT
*
865047 TTTCAAAGCCTACAAGTCAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACT-CTTTCAAA
865110 GCCCACAAGTCAGTGGCACTC
65 GCCCACAAGTCAGTGGCACTC
* * * *
865131 TTTTCAAAACCCACAAGTCAGTGGCAC-CATTTCAAAGCCCACGAGTTAGTGGCAC-CATTTCAA
1 -TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAA
865194 AGCCCACAAGTCAGTGGCACTC
64 AGCCCACAAGTCAGTGGCACTC
*
865216 TTTCAAAGCCCACAAGTCAGTGGCAC-CATTTCAAAGCCCACAAGTCAGTGGCAC-CATTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAA
*
865279 GCCCACAAGTCAGTGGCACCC
65 GCCCACAAGTCAGTGGCACTC
*
865300 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCTCACAAGTCAGTGGCACTCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAG
*
865365 CCCACGAGTCAGTGGCACTC
66 CCCACAAGTCAGTGGCACTC
* * *
865385 TTTCAAAGCCCACGAGTCAGTGGCAC-CATTTCAAAGCCCACGAGTCAGTGGCACTCTTTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAA
*
865449 GCCCACGAGTCAGTGGCACTC
65 GCCCACAAGTCAGTGGCACTC
*
865470 TTTCAAAGCCCACGAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAG
*
865535 CCCATAAGTCAGTGGCAC-C
66 CCCACAAGTCAGTGGCACTC
* * *
865554 ATTTCAAAGCCCACGAGTCAGTGGCACTCTTTTCAAAGCCCACTGAGTTAGTGGCACTCTTTCAA
1 -TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCAC-AAGTCAGTGGCACTCTTTCAA
* *
865619 AGCCCACGAGTCAGTGGCATTCC
64 AGCCCACAAGTCAGTGGCACT-C
*
865642 TTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCACGAGTCAGTGGCACTCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAG
*
865706 CCCACGAGTCAGTGGCACTC
66 CCCACAAGTCAGTGGCACTC
* * *
865726 TTTCAAAGCCCACGAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTTAGTGGCAC-CATTTCAAA
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAA
* * *
865789 GCCCAGAAGTCAGAGGCACCC
65 GCCCACAAGTCAGTGGCACTC
* * *
865810 TTTTAAAGCCCACAAG-CAAGTGGTAACTCTTTTCAAAGCCCACACGAGTCGGTGGCAACTCTTT
1 TTTCAAAGCCCACAAGTC-AGTGG-CACTCTTTTCAAAGCCCACA--AGTCAGTGGC-ACTC-TT
* *
865874 TCAAGGCCCACATAAGTTAGTGGCAC-C
60 TCAAAGCCCAC--AAGTCAGTGGCACTC
865901 TTT
1 TTT
865904 TTTTTAAAAA
Statistics
Matches: 704, Mismatches: 46, Indels: 38
0.89 0.06 0.05
Matches are distributed among these distances:
83 3 0.00
84 229 0.33
85 314 0.45
86 93 0.13
87 27 0.04
88 9 0.01
89 2 0.00
90 12 0.02
91 4 0.01
92 11 0.02
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (85 bp):
TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAG
CCCACAAGTCAGTGGCACTC
Found at i:866488 original size:20 final size:20
Alignment explanation
Indices: 866460--866533 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 20
866450 TTTTACCCAG
866460 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
866480 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
866500 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
866520 ATGTATCGATACAT
1 ATGTATCGATACAT
866534 CTAGTTAAAA
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:871066 original size:19 final size:20
Alignment explanation
Indices: 871022--871077 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
871012 CTGCCAGTTT
*
871022 CATGTATCGATACAATTATC
1 CATGTATCGATACAATGATC
*
871042 CATGTATCGATACAATGA-G
1 CATGTATCGATACAATGATC
*
871061 CATGTATCAATACAATG
1 CATGTATCGATACAATG
871078 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATGATC
Found at i:871710 original size:47 final size:47
Alignment explanation
Indices: 871616--871743 Score: 222
Period size: 47 Copynumber: 2.7 Consensus size: 47
871606 CAAAGTTTTG
*
871616 AAGTTTTCGTTTTTCTCCCCCTTTAAAAAA-AATTCTCCCCCTGTAA
1 AAGTTTTCGTTTTTCTCCCCCTTTAAAAAATAATTCTCCCCCTATAA
*
871662 AAGTTTTCGTTTTTCTCCCCTTTTAAAAAATAATTCTCCCCCTATAA
1 AAGTTTTCGTTTTTCTCCCCCTTTAAAAAATAATTCTCCCCCTATAA
*
871709 AAGTTTTCATTTTTCTCCCCCTTTAAAAAATAATT
1 AAGTTTTCGTTTTTCTCCCCCTTTAAAAAATAATT
871744 AAGACTCTTT
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
46 29 0.38
47 48 0.62
ACGTcount: A:0.28, C:0.25, G:0.05, T:0.42
Consensus pattern (47 bp):
AAGTTTTCGTTTTTCTCCCCCTTTAAAAAATAATTCTCCCCCTATAA
Found at i:871735 original size:26 final size:26
Alignment explanation
Indices: 871648--871736 Score: 80
Period size: 26 Copynumber: 3.6 Consensus size: 26
871638 TTAAAAAAAA
* *
871648 TTCTCCCCCTGTAAAAGTTTTCGTTT
1 TTCTCCCCCTTTAAAAGTTTTCATTT
* * **
871674 TTCTCCCCTTTTAAAA-----AATAA
1 TTCTCCCCCTTTAAAAGTTTTCATTT
*
871695 TTCTCCCCCTATAAAAGTTTTCATTT
1 TTCTCCCCCTTTAAAAGTTTTCATTT
871721 TTCTCCCCCTTTAAAA
1 TTCTCCCCCTTTAAAA
871737 AATAATTAAG
Statistics
Matches: 46, Mismatches: 12, Indels: 10
0.68 0.18 0.15
Matches are distributed among these distances:
21 15 0.33
26 31 0.67
ACGTcount: A:0.25, C:0.28, G:0.04, T:0.43
Consensus pattern (26 bp):
TTCTCCCCCTTTAAAAGTTTTCATTT
Found at i:879749 original size:20 final size:20
Alignment explanation
Indices: 879724--879789 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
879714 GTTACAAGCA
879724 ATGTATCGATACATTTCATC
1 ATGTATCGATACATTTCATC
879744 ATGTATCGAT--A---CA--
1 ATGTATCGATACATTTCATC
879757 ATGTATCGATACATTTCATC
1 ATGTATCGATACATTTCATC
879777 ATGTATCGATACA
1 ATGTATCGATACA
879790 ATGTATCGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 10 0.26
15 3 0.08
18 3 0.08
20 23 0.59
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTTCATC
Found at i:879762 original size:33 final size:33
Alignment explanation
Indices: 879722--879823 Score: 179
Period size: 33 Copynumber: 3.1 Consensus size: 33
879712 CCGTTACAAG
879722 CAATGTATCGATACATTTCATCATGTATCGATA
1 CAATGTATCGATACATTTCATCATGTATCGATA
879755 CAATGTATCGATACATTTCATCATGTATCGATA
1 CAATGTATCGATACATTTCATCATGTATCGATA
*
879788 CAATGTATCGATACATTGT-ACCATGTATCGATA
1 CAATGTATCGATACATT-TCATCATGTATCGATA
879821 CAA
1 CAA
879824 ATAGTTGTTA
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
33 66 0.99
34 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (33 bp):
CAATGTATCGATACATTTCATCATGTATCGATA
Found at i:879807 original size:13 final size:12
Alignment explanation
Indices: 879724--879803 Score: 86
Period size: 13 Copynumber: 7.2 Consensus size: 12
879714 GTTACAAGCA
879724 ATGTATCGATAC
1 ATGTATCGATAC
879736 AT-T-TC-AT-C
1 ATGTATCGATAC
879744 ATGTATCGATAC
1 ATGTATCGATAC
879756 AATGTATCGATAC
1 -ATGTATCGATAC
879769 AT-T-TC-AT-C
1 ATGTATCGATAC
879777 ATGTATCGATAC
1 ATGTATCGATAC
879789 AATGTATCGATAC
1 -ATGTATCGATAC
879802 AT
1 AT
879804 TGTACCATGT
Statistics
Matches: 58, Mismatches: 0, Indels: 20
0.74 0.00 0.26
Matches are distributed among these distances:
8 6 0.10
9 6 0.10
10 8 0.14
11 6 0.10
12 8 0.14
13 24 0.41
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.36
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:880063 original size:21 final size:21
Alignment explanation
Indices: 880030--880070 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
880020 CTAAGTAAAA
880030 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
880051 ATAC-TATTGGTATTAATACA
1 ATACGTATT-GTATCAATACA
880071 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:880138 original size:20 final size:19
Alignment explanation
Indices: 880110--880180 Score: 61
Period size: 20 Copynumber: 3.6 Consensus size: 19
880100 ACCCTGAAAA
*
880110 GTATTGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
880130 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
880149 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
880170 GTATCGATACA
1 GTATCGATACA
880181 GGACATTGGC
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
19 4 0.10
20 34 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:880233 original size:53 final size:53
Alignment explanation
Indices: 880150--880286 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
880140 AAATTGCATA
880150 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
880204 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
880257 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
880287 TTGGAAGTAG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
53 67 0.83
54 14 0.17
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:880329 original size:10 final size:10
Alignment explanation
Indices: 880310--880340 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
880300 AATCTCATTT
*
880310 TCACTGTTCA
1 TCACTATTCA
880320 TCACTATTCA
1 TCACTATTCA
880330 TCACTATTCA
1 TCACTATTCA
880340 T
1 T
880341 GTATCGATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.03, T:0.42
Consensus pattern (10 bp):
TCACTATTCA
Found at i:880362 original size:21 final size:22
Alignment explanation
Indices: 880328--880382 Score: 94
Period size: 21 Copynumber: 2.5 Consensus size: 22
880318 CATCACTATT
880328 CATCACTATTCATGTATCGATA
1 CATCACTATTCATGTATCGATA
880350 CATCACT-TTCATGTATCGATA
1 CATCACTATTCATGTATCGATA
*
880371 CATCACTGTTCA
1 CATCACTATTCA
880383 CACTGTTCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.66
22 11 0.34
ACGTcount: A:0.29, C:0.25, G:0.09, T:0.36
Consensus pattern (22 bp):
CATCACTATTCATGTATCGATA
Found at i:880477 original size:13 final size:13
Alignment explanation
Indices: 880459--880484 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
880449 ACATATTTGT
880459 GTGTATCGATACA
1 GTGTATCGATACA
880472 GTGTATCGATACA
1 GTGTATCGATACA
880485 TCATAAATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:881026 original size:34 final size:35
Alignment explanation
Indices: 880963--881029 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
880953 CTAAGTGATT
880963 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
880999 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
881030 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:881353 original size:19 final size:19
Alignment explanation
Indices: 881308--881364 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
881298 ACTGCCAGTT
*
881308 GCATGTATCGATACAATTGT
1 GCATGTATCGATACAA-TGA
*
881328 CCATGTATCGATACAATGA
1 GCATGTATCGATACAATGA
881347 GCATGTATCGATACAATG
1 GCATGTATCGATACAATG
881365 TATCGATACA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (19 bp):
GCATGTATCGATACAATGA
Found at i:881367 original size:13 final size:13
Alignment explanation
Indices: 881349--881375 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
881339 TACAATGAGC
881349 ATGTATCGATACA
1 ATGTATCGATACA
881362 ATGTATCGATACA
1 ATGTATCGATACA
881375 A
1 A
881376 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:882674 original size:27 final size:28
Alignment explanation
Indices: 882349--883699 Score: 761
Period size: 28 Copynumber: 47.6 Consensus size: 28
882339 CACTAACTTA
* * *
882349 TGTGGGCTTTGAAAAGAGTTGCCACTGACT
1 TGTGGACTTT-AAAAG-GATGCCACGGACT
* * *
882379 TGTTTGGGCTTTAAAAGGGTGCCACTGACT
1 TG--TGGACTTTAAAAGGATGCCACGGACT
* *
882409 TGTAGG-CTTTGAAAAAAGTGTTGCCACTGACTT
1 TGT-GGACTTT---AAAAG-GATGCCACGGAC-T
* * * *
882442 GTGTGGGCTTTGAAAGGATGTCACTGACT
1 -TGTGGACTTTAAAAGGATGCCACGGACT
* **
882471 TGTGGGCTTTGAAAAGGATGCCACTAACT
1 TGTGGACTTT-AAAAGGATGCCACGGACT
*
882500 TGTAGG-CTTTGAAAAGGATGCCACCGACT
1 TGT-GGACTTT-AAAAGGATGCCACGGACT
* * *
882529 TGTGGGCTTTTGAAAGGATGCCACTGACT
1 TGTGGAC-TTTAAAAGGATGCCACGGACT
* ** *
882558 TGTGGGCTTTGAAAA-GATGCCATTGTCT
1 TGTGGACTTT-AAAAGGATGCCACGGACT
* **
882586 TGTGGGCTTTGAAAAGG-TGCCACTAACT
1 TGTGGACTTT-AAAAGGATGCCACGGACT
* * * *
882614 TATGGGCTTTGAAAGGGTATGCCACTGACT
1 TGTGGACTTT-AAAAGG-ATGCCACGGACT
* *
882644 TGTGGACTTTGAAATGATGCCAC-GACT
1 TGTGGACTTTAAAAGGATGCCACGGACT
* ** *
882671 TGTGGGCTTTAAAAGGATGCCATTGATT
1 TGTGGACTTTAAAAGGATGCCACGGACT
** * * *
882699 TGTGGGTTTTGAAATGGGTTGCCACCGACT
1 TGTGGACTTT-AAA-AGGATGCCACGGACT
* *
882729 TGAGTGGGCTTTGAAATAGGTTGCCATC-GACTT
1 T--GTGGACTTT-AAA-AGGATGCCA-CGGAC-T
* *
882762 GTGTGGGCTTTGAAATAGGTTGCCATC-GACTT
1 -TGTGGACTTT-AAA-AGGATGCCA-CGGAC-T
* * * **
882794 GTGTGGGCTTTGAAATGAGTTGCCACCAACTT
1 -TGTGGACTTT-AAAAG-GATGCCACGGAC-T
* * * *
882826 GTGTGGGCTTTGAAATGAGTTGCCACCGACT
1 -TGTGGACTTT-AAAAG-GATGCCACGGACT
* * * **
882857 TGTGGGCTTTGAAATGATGCCACTAACTT
1 TGTGGACTTTAAAAGGATGCCACGGAC-T
* * * *
882886 GTGTGGGA-TTTGAAATGAGTTACCACCGACT
1 -TGT-GGACTTT-AAAAG-GATGCCACGGACT
* * *
882917 TGTGGGCTTTAAAATGATGCCACTGACT
1 TGTGGACTTTAAAAGGATGCCACGGACT
*
882945 TGTCGG-CTTTAAAAGGATGCCACTGACT
1 TGT-GGACTTTAAAAGGATGCCACGGACT
* * **
882973 TGTCGG-CTTTGAAATGATGCCACTAACT
1 TGT-GGACTTTAAAAGGATGCCACGGACT
* *
883001 TGTAGG-CTTTAAAAGGGTGCCACGGAGT
1 TGT-GGACTTTAAAAGGATGCCACGGACT
* * *
883029 TGTGGAC-TTAAAAGGCTGCCACGAAGT
1 TGTGGACTTTAAAAGGATGCCACGGACT
* *
883056 TGTGGACTTTAAAAGGGTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGACT
** *
883084 TGTGGAC-TTAAAAGGATGCCACAAAGT
1 TGTGGACTTTAAAAGGATGCCACGGACT
* *
883111 TGTGGACTTTAAAAGGGTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGACT
* *
883139 TGTGGACTTTAAAA-GAGTGTCACGGAGT
1 TGTGGACTTTAAAAGGA-TGCCACGGACT
* * * * *
883167 TATGGAC-TTAAAAGGGTGGCACAGAAT
1 TGTGGACTTTAAAAGGATGCCACGGACT
* *
883194 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGACT
* * *
883221 TGTGGAC-TTAAAAGGATGCCTCAGAGT
1 TGTGGACTTTAAAAGGATGCCACGGACT
* * * *
883248 TATGGACTTTAAAAGGGTGCCACGAAGT
1 TGTGGACTTTAAAAGGATGCCACGGACT
* * *
883276 TCTGGACTTT-AAAGGGTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGACT
*
883303 TGTGGACTTTAAAAGG-TGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGACT
*
883330 TGTGGAC-TT-AAA-GATGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGACT
* *
883355 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGACT
* *
883382 TGTGGACTTT-AAAGGGTGCCACGGAAT
1 TGTGGACTTTAAAAGGATGCCACGGACT
* * * * *
883409 TGTGAAC-TTAAAATGTTGCCACGAAGT
1 TGTGGACTTTAAAAGGATGCCACGGACT
** *
883436 TGTGGACTTTAAAAGGGCGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGACT
* *
883464 TGTGGACTTTAAAAGGGTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGACT
* * *
883492 TGTGGACTTTAAAAGGGTGCCACAGAGT
1 TGTGGACTTTAAAAGGATGCCACGGACT
* * * *
883520 TGTGGACTTT-AAAGGGTGCTATGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGACT
* * * * *
883547 TATGGAC-TTAAAAGGTTACCATGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGACT
* *
883574 TGTGGACTTTAAAAGGGTGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGACT
* *
883602 TATGGACTTTAAAAGGTTGCCACGGAGC-
1 TGTGGACTTTAAAAGGATGCCACGGA-CT
*
883630 TGTGGAC-TTAAAAGTG-TGCCACGGAGT
1 TGTGGACTTTAAAAG-GATGCCACGGACT
* * * *
883657 TGTTGAC-TTAAAAGGGTGCCGCAGAGC-
1 TGTGGACTTTAAAAGGATGCCACGGA-CT
883684 TGTGGAC-TTAAAAGGA
1 TGTGGACTTTAAAAGGA
883700 ATACCACAGA
Statistics
Matches: 1125, Mismatches: 141, Indels: 113
0.82 0.10 0.08
Matches are distributed among these distances:
24 1 0.00
25 23 0.02
26 10 0.01
27 335 0.30
28 414 0.37
29 89 0.08
30 82 0.07
31 22 0.02
32 136 0.12
33 5 0.00
34 8 0.01
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (28 bp):
TGTGGACTTTAAAAGGATGCCACGGACT
Found at i:883074 original size:55 final size:55
Alignment explanation
Indices: 883007--883698 Score: 909
Period size: 55 Copynumber: 12.7 Consensus size: 55
882997 AACTTGTAGG
* *
883007 CTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGCTGCCACGAAGTTGTGGA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
* **
883062 CTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACAAAGTTGTGGA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
* * *
883117 CTTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGAGTGTCACGGAGTTATGGA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGA
* * *
883173 C-TTAAAAGGGTGGCACAGAATTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
* * * * * *
883227 C-TTAAAAGGATGCCTCAGAGTTATGGACTTTAAAAGGGTGCCACGAAGTTCTGGA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGA
883282 CTTT-AAAGGGTGCCACGGAGTTGTGGACTTTAAAA-GGTGCCACGGAGTTGTGGA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGA
*
883336 C-TT-AAA-GATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
* * * * *
883388 CTTT-AAAGGGTGCCACGGAATTGTGAACTTAAAATGTTGCCACGAAGTTGTGGA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
*
883442 CTTTAAAAGGGCGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTGTGGA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGA
* * * * *
883498 CTTTAAAAGGGTGCCACAGAGTTGTGGACTTTAAAGGGTGCTATGGAGTTATGGA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
* * * *
883553 C-TTAAAAGGTTACCATGGAGTTGTGGACTTTAAAAGGGTGCCACGGAGTTATGGA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGA
* * * *
883608 CTTTAAAAGGTTGCCACGGAGCTGTGGACTTAAAAGTGTGCCACGGAGTTGTTGA
1 CTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
* * *
883663 C-TTAAAAGGGTGCCGCAGAGCTGTGGACTTAAAAGG
1 CTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG
883699 AATACCACAG
Statistics
Matches: 564, Mismatches: 63, Indels: 21
0.87 0.10 0.03
Matches are distributed among these distances:
51 6 0.01
52 39 0.07
53 10 0.02
54 162 0.29
55 250 0.44
56 97 0.17
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (55 bp):
CTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGA
Found at i:883600 original size:28 final size:28
Alignment explanation
Indices: 882916--883698 Score: 915
Period size: 27 Copynumber: 28.6 Consensus size: 28
882906 TACCACCGAC
* * * * *
882916 TTGTGGGCTTTAAAATGATGCCACTGAC
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* * *
882944 TTGTCGG-CTTTAAAAGGATGCCACTGAC
1 TTGT-GGACTTTAAAAGGGTGCCACGGAG
* * * ** *
882972 TTGTCGG-CTTTGAAATGATGCCACTAAC
1 TTGT-GGACTTTAAAAGGGTGCCACGGAG
883000 TTGTAGG-CTTTAAAAGGGTGCCACGGAG
1 TTGT-GGACTTTAAAAGGGTGCCACGGAG
* *
883028 TTGTGGAC-TTAAAAGGCTGCCACGAAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
883055 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* **
883083 TTGTGGAC-TTAAAAGGATGCCACAAAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
883110 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* *
883138 TTGTGGACTTTAAAAGAGTGTCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* * * *
883166 TTATGGAC-TTAAAAGGGTGGCACAGAA
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
883193 TTGTGGAC-TTAAAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* * *
883220 TTGTGGAC-TTAAAAGGATGCCTCAGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* *
883247 TTATGGACTTTAAAAGGGTGCCACGAAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
*
883275 TTCTGGACTTT-AAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
883302 TTGTGGACTTTAAAA-GGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
*
883329 TTGTGGAC-TT-AAA-GATGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
883354 TTGTGGAC-TTAAAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
*
883381 TTGTGGACTTT-AAAGGGTGCCACGGAA
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* * * *
883408 TTGTGAAC-TTAAAATGTTGCCACGAAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
*
883435 TTGTGGACTTTAAAAGGGCGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
883463 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
*
883491 TTGTGGACTTTAAAAGGGTGCCACAGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* *
883519 TTGTGGACTTT-AAAGGGTGCTATGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* * * *
883546 TTATGGAC-TTAAAAGGTTACCATGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
883573 TTGTGGACTTTAAAAGGGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* *
883601 TTATGGACTTTAAAAGGTTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* *
883629 CTGTGGAC-TTAAAAGTGTGCCACGGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
* * *
883656 TTGTTGAC-TTAAAAGGGTGCCGCAGAG
1 TTGTGGACTTTAAAAGGGTGCCACGGAG
*
883683 CTGTGGAC-TTAAAAGG
1 TTGTGGACTTTAAAAGG
883699 AATACCACAG
Statistics
Matches: 660, Mismatches: 82, Indels: 27
0.86 0.11 0.04
Matches are distributed among these distances:
25 24 0.04
26 9 0.01
27 318 0.48
28 307 0.47
29 2 0.00
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (28 bp):
TTGTGGACTTTAAAAGGGTGCCACGGAG
Found at i:884765 original size:14 final size:13
Alignment explanation
Indices: 884740--884764 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
884730 GTGAAAAGGT
884740 TTTTCTTTTTTTG
1 TTTTCTTTTTTTG
884753 TTTTCTTTTTTT
1 TTTTCTTTTTTT
884765 TTTAGGATTG
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:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTCTTTTTTTG
Found at i:889966 original size:96 final size:97
Alignment explanation
Indices: 889805--890040 Score: 323
Period size: 96 Copynumber: 2.4 Consensus size: 97
889795 TAATTTTTTA
* * * * * * *
889805 TTTAAAAACGGAGTTGGAGTATTCCCTCGGAGGAATGGGGTTGGAGTGTCTCCGATGATGACAAT
1 TTTAAAAGCGGGGTTGGAGTATCCCCTCGGAAGAATAGGGTTGAAATGTCTCCGATGATGACAAT
*
889870 TTAAGTGAGAATAAAATTTAAACTTTGATGCG
66 TTAAGTGAGAATAAAATTTAAACTCTGATGCG
* *
889902 TTTAAAAGCGGGGTTAGAGTATCCCCTC-GAAAAATAGGGTTGAAATGTC-CCTGATGATGACAA
1 TTTAAAAGCGGGGTTGGAGTATCCCCTCGGAAGAATAGGGTTGAAATGTCTCC-GATGATGACAA
* *
889965 TTTAAGTGAGAATAAGATTTAAACTCTGATGTG
65 TTTAAGTGAGAATAAAATTTAAACTCTGATGCG
* *
889998 TTTAAAAGCGGGTTTGGAGTATCCTCTCGGAAGAATAGGGTTG
1 TTTAAAAGCGGGGTTGGAGTATCCCCTCGGAAGAATAGGGTTG
890041 GAGTATCCCC
Statistics
Matches: 121, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
95 2 0.02
96 82 0.68
97 37 0.31
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (97 bp):
TTTAAAAGCGGGGTTGGAGTATCCCCTCGGAAGAATAGGGTTGAAATGTCTCCGATGATGACAAT
TTAAGTGAGAATAAAATTTAAACTCTGATGCG
Found at i:893415 original size:24 final size:24
Alignment explanation
Indices: 893370--893419 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
893360 TATTTTTCAC
* *
893370 ATAAAATTTTATTTTATATTAAAT
1 ATAAAATTTTATGTAATATTAAAT
893394 ATAATAATTTTATGTAAT-TTAAAT
1 ATAA-AATTTTATGTAATATTAAAT
893418 AT
1 AT
893420 TTACATCTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
ATAAAATTTTATGTAATATTAAAT
Found at i:899441 original size:13 final size:13
Alignment explanation
Indices: 899423--899448 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
899413 CAATTTTTTG
899423 TGTATCGATACAT
1 TGTATCGATACAT
899436 TGTATCGATACAT
1 TGTATCGATACAT
899449 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:899513 original size:21 final size:21
Alignment explanation
Indices: 899487--899562 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
899477 CTGCCAAGAA
*
899487 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
899508 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
899528 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
899549 ATGTATCGATACAT
1 ATGTATCGATACAT
899563 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:899533 original size:20 final size:20
Alignment explanation
Indices: 899508--899580 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
899498 CATCTTTTTT
899508 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
899528 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
899549 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
899569 ATGTATCGATAC
1 ATGTATCGATAC
899581 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:899544 original size:41 final size:41
Alignment explanation
Indices: 899487--899580 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
899477 CTGCCAAGAA
*
899487 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
899528 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
899569 ATGTATCGATAC
1 ATGTATCGATAC
899581 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:900270 original size:32 final size:32
Alignment explanation
Indices: 900198--900261 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
900188 TCCCCCGTTT
900198 AAAAAAAATCTCCCCCTTAATCAAGTAATTCA
1 AAAAAAAATCTCCCCCTTAATCAAGTAATTCA
900230 AAAAAAAATCTCCCCCTTAATCAAGTAATTCA
1 AAAAAAAATCTCCCCCTTAATCAAGTAATTCA
900262 TATCAAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.47, C:0.25, G:0.03, T:0.25
Consensus pattern (32 bp):
AAAAAAAATCTCCCCCTTAATCAAGTAATTCA
Found at i:902073 original size:13 final size:13
Alignment explanation
Indices: 902055--902126 Score: 75
Period size: 13 Copynumber: 6.0 Consensus size: 13
902045 ATAATCACCC
*
902055 TGTATCGATACAG
1 TGTATCGATACAA
902068 TGTATCGATACAA
1 TGTATCGATACAA
902081 TGTATCGATAC-A
1 TGTATCGATACAA
* *
902093 ---A-C-AAAAAA
1 TGTATCGATACAA
902101 TGTATCGATACAA
1 TGTATCGATACAA
902114 TGTATCGATACAA
1 TGTATCGATACAA
902127 CAAAAAATGT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
7 2 0.04
8 2 0.04
9 1 0.02
11 1 0.02
12 2 0.04
13 40 0.83
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:902104 original size:20 final size:20
Alignment explanation
Indices: 902079--902190 Score: 87
Period size: 20 Copynumber: 5.7 Consensus size: 20
902069 GTATCGATAC
902079 AATGTATCGATACAACAAAA
1 AATGTATCGATACAACAAAA
902099 AATGTATCGAT---AC----
1 AATGTATCGATACAACAAAA
902112 AATGTATCGATACAACAAAA
1 AATGTATCGATACAACAAAA
* *
902132 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACA-ACAA----AA
*
902157 GATGTATCGATAC-ACAAAA
1 AATGTATCGATACAACAAAA
902176 ACATGTATCGATACA
1 A-ATGTATCGATACA
902191 TTTTGGACAT
Statistics
Matches: 72, Mismatches: 6, Indels: 27
0.69 0.06 0.26
Matches are distributed among these distances:
13 11 0.15
16 2 0.03
17 2 0.03
19 1 0.01
20 37 0.51
21 3 0.04
23 3 0.04
25 13 0.18
ACGTcount: A:0.46, C:0.16, G:0.12, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAACAAAA
Found at i:902110 original size:33 final size:33
Alignment explanation
Indices: 902068--902145 Score: 156
Period size: 33 Copynumber: 2.4 Consensus size: 33
902058 ATCGATACAG
902068 TGTATCGATACAATGTATCGATACAACAAAAAA
1 TGTATCGATACAATGTATCGATACAACAAAAAA
902101 TGTATCGATACAATGTATCGATACAACAAAAAA
1 TGTATCGATACAATGTATCGATACAACAAAAAA
902134 TGTATCGATACA
1 TGTATCGATACA
902146 TAGAATTTCC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (33 bp):
TGTATCGATACAATGTATCGATACAACAAAAAA
Found at i:904220 original size:15 final size:15
Alignment explanation
Indices: 904200--904230 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
904190 ATTTCGTTTG
*
904200 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
904215 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
904230 G
1 G
904231 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:908310 original size:13 final size:13
Alignment explanation
Indices: 908292--908317 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
908282 CAATTTTTTG
908292 TGTATCGATACAT
1 TGTATCGATACAT
908305 TGTATCGATACAT
1 TGTATCGATACAT
908318 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:908382 original size:21 final size:21
Alignment explanation
Indices: 908356--908431 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
908346 CTGCCAAGAA
*
908356 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
908377 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
908397 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
908418 ATGTATCGATACAT
1 ATGTATCGATACAT
908432 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:908402 original size:20 final size:20
Alignment explanation
Indices: 908377--908449 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
908367 CATCTTTTTT
908377 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
908397 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
908418 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
908438 ATGTATCGATAC
1 ATGTATCGATAC
908450 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:908413 original size:41 final size:41
Alignment explanation
Indices: 908356--908449 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
908346 CTGCCAAGAA
*
908356 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
908397 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
908438 ATGTATCGATAC
1 ATGTATCGATAC
908450 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:911028 original size:15 final size:15
Alignment explanation
Indices: 911008--911078 Score: 73
Period size: 15 Copynumber: 5.1 Consensus size: 15
910998 AATTAATTAT
911008 TTTTTAAAAATAATA
1 TTTTTAAAAATAATA
911023 TTTTT-AAAATAATA
1 TTTTTAAAAATAATA
911037 --TTT--AAAT-ATA
1 TTTTTAAAAATAATA
* *
911047 TGCTATAAAAATAATA
1 T-TTTTAAAAATAATA
911063 TTTTTAAAAATAATA
1 TTTTTAAAAATAATA
911078 T
1 T
911079 AAACATAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
10 3 0.06
11 4 0.09
12 3 0.06
13 2 0.04
14 9 0.19
15 22 0.47
16 4 0.09
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (15 bp):
TTTTTAAAAATAATA
Found at i:911188 original size:21 final size:20
Alignment explanation
Indices: 911162--911205 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
911152 TTAAATATTA
911162 TTTTAAAAACAATATAAATTT
1 TTTTAAAAA-AATATAAATTT
* *
911183 TTTTAAAAAATTTTAAATTT
1 TTTTAAAAAAATATAAATTT
911203 TTT
1 TTT
911206 GTTTCTCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTTAAAAAAATATAAATTT
Found at i:911267 original size:2 final size:2
Alignment explanation
Indices: 911256--911288 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
911246 TGGCTCTAAC
911256 CT CT -T CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
911289 TCACCCTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:912001 original size:13 final size:14
Alignment explanation
Indices: 911978--912010 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
911968 TTATTAAATA
911978 ATAATTATGTATTT
1 ATAATTATGTATTT
*
911992 A-AATTTTGTATTT
1 ATAATTATGTATTT
912005 ATAATT
1 ATAATT
912011 GAATAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (14 bp):
ATAATTATGTATTT
Found at i:912726 original size:19 final size:19
Alignment explanation
Indices: 912702--912745 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
912692 AAAAATAATT
*
912702 AATAAAATTATTT-TTTAA
1 AATAAAATCATTTATTTAA
912720 GAAT-AAATCATTTATTTAA
1 -AATAAAATCATTTATTTAA
912739 AATAAAA
1 AATAAAA
912746 AAAATAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (19 bp):
AATAAAATCATTTATTTAA
Found at i:912955 original size:5 final size:5
Alignment explanation
Indices: 912916--912967 Score: 54
Period size: 5 Copynumber: 10.2 Consensus size: 5
912906 ATTTATTTCA
*
912916 TATATT TATAT TA-AT T-TTT TATTAT TATAAT TATAT TATAT TATAT
1 TATA-T TATAT TATAT TATAT TA-TAT TAT-AT TATAT TATAT TATAT
912962 TATAT T
1 TATAT T
912968 TAAAATCATC
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
4 5 0.12
5 22 0.55
6 13 0.32
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TATAT
Found at i:915373 original size:34 final size:34
Alignment explanation
Indices: 915333--915401 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
915323 GGATAAGTAT
* **
915333 TAAAAAAAATTTCAT-CTATAAAAATCTAAAATTA
1 TAAAAAAAATTTAATAC-ATAAAAAAATAAAATTA
*
915367 TAAAAAAATTTTAATACATAAAAAAATAAAATTA
1 TAAAAAAAATTTAATACATAAAAAAATAAAATTA
915401 T
1 T
915402 GCAATAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 29 0.97
35 1 0.03
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (34 bp):
TAAAAAAAATTTAATACATAAAAAAATAAAATTA
Found at i:915987 original size:18 final size:18
Alignment explanation
Indices: 915966--916011 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
915956 GTTTTGAGAA
**
915966 TTGTTTTTGGTATTTTTT
1 TTGTTTTTGGTATTTGGT
*
915984 TTGTTTTTGTTATTTGGT
1 TTGTTTTTGGTATTTGGT
916002 TT-TTTTTGGT
1 TTGTTTTTGGT
916012 GAGTTCCCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 7 0.29
18 17 0.71
ACGTcount: A:0.04, C:0.00, G:0.20, T:0.76
Consensus pattern (18 bp):
TTGTTTTTGGTATTTGGT
Found at i:917561 original size:87 final size:90
Alignment explanation
Indices: 917397--917599 Score: 263
Period size: 87 Copynumber: 2.3 Consensus size: 90
917387 GTCAAAGTAA
* * *
917397 AAAAAAATCTGATACCTCATGCAT-TGTCACATCTTTCAAGTTCCAAGAAGAAATTTATTATGCA
1 AAAAAAATCTAATACCTCATGCATCTGTCACATCTTTCAAGTTCCAAGAAGAAATTTATTAAGAA
*
917461 TTAGTTAAATATTTTATATCGTGTC
66 TTAGTCAAATATTTTATATCGTGTC
* *
917486 AAAAAAATCTAATACCTCATGCATCTGTTACATCTTTC-AGATTTC-A-AA-AAATTTATTAAGA
1 AAAAAAATCTAATACCTCATGCATCTGTCACATCTTTCAAG-TTCCAAGAAGAAATTTATTAAGA
* *
917547 ATTAGTCAATTATTTTTTATCGTGTC
65 ATTAGTCAAATATTTTATATCGTGTC
* *
917573 AAAAAGAATCTAATACCTTATGAATCT
1 AAAAA-AATCTAATACCTCATGCATCT
917600 ATTCCGCATA
Statistics
Matches: 101, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
87 39 0.39
88 21 0.21
89 26 0.26
90 15 0.15
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.37
Consensus pattern (90 bp):
AAAAAAATCTAATACCTCATGCATCTGTCACATCTTTCAAGTTCCAAGAAGAAATTTATTAAGAA
TTAGTCAAATATTTTATATCGTGTC
Found at i:917630 original size:88 final size:87
Alignment explanation
Indices: 917447--917631 Score: 210
Period size: 87 Copynumber: 2.1 Consensus size: 87
917437 TTCCAAGAAG
* * * *
917447 AAATTTATTATGCATTAGTTAAATATTTTATATCGTGTCAAAAAAATCTAATACCTCATGCATCT
1 AAATTTATTAAGAATTAGTCAAATATTTTATATCGTGTCAAAAAAATCTAATACCTCATGAATCT
* * **
917512 GTTACATCTTTCAGATTTCAAA
66 ATTACAGCTAACAGATTTCAAA
* * *
917534 AAATTTATTAAGAATTAGTCAATTATTTTTTATCGTGTCAAAAAGAATCTAATACCTTATGAATC
1 AAATTTATTAAGAATTAGTCAAATATTTTATATCGTGTCAAAAA-AATCTAATACCTCATGAATC
* * * *
917599 TATT-CCGCATAACATATTTCGAT
65 TATTACAGC-TAACAGATTTCAAA
917622 AAATTTATTA
1 AAATTTATTA
917632 TGCATCTTTT
Statistics
Matches: 81, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
87 41 0.51
88 40 0.49
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.41
Consensus pattern (87 bp):
AAATTTATTAAGAATTAGTCAAATATTTTATATCGTGTCAAAAAAATCTAATACCTCATGAATCT
ATTACAGCTAACAGATTTCAAA
Found at i:921378 original size:29 final size:29
Alignment explanation
Indices: 921345--921401 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
921335 TATCATAATT
921345 TTTTAATAAATTAAAAATTATAATGTATA
1 TTTTAATAAATTAAAAATTATAATGTATA
* *
921374 TTTTAATACATTAAACATTATAATGTAT
1 TTTTAATAAATTAAAAATTATAATGTAT
921402 TTAATATCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (29 bp):
TTTTAATAAATTAAAAATTATAATGTATA
Found at i:921707 original size:34 final size:33
Alignment explanation
Indices: 921663--921730 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
921653 TAAAAATAAA
*
921663 TAGATATTTATTTAGTAAATGTTTTATAAAATTT
1 TAGATATTTA-TGAGTAAATGTTTTATAAAATTT
* * * *
921697 TAGATTTTTATGATTAAATTTTTTATATAATTT
1 TAGATATTTATGAGTAAATGTTTTATAAAATTT
921730 T
1 T
921731 TTATTTCTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 20 0.69
34 9 0.31
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (33 bp):
TAGATATTTATGAGTAAATGTTTTATAAAATTT
Found at i:921721 original size:33 final size:33
Alignment explanation
Indices: 921678--921754 Score: 109
Period size: 33 Copynumber: 2.3 Consensus size: 33
921668 ATTTATTTAG
* *
921678 TAAATGTTTTATAAAATTTTAGATTTTTATGAT
1 TAAATTTTTTATAAAATTTTAGATTTCTATGAT
* **
921711 TAAATTTTTTATATAATTTTTTATTTCTATGAT
1 TAAATTTTTTATAAAATTTTAGATTTCTATGAT
921744 TAAATTTTTTA
1 TAAATTTTTTA
921755 ATTTATCAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.34, C:0.01, G:0.05, T:0.60
Consensus pattern (33 bp):
TAAATTTTTTATAAAATTTTAGATTTCTATGAT
Found at i:924999 original size:17 final size:18
Alignment explanation
Indices: 924974--925007 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
924964 TTAATATATA
924974 ATTATAATTAATTTTATG
1 ATTATAATTAATTTTATG
*
924992 ATTA-AATTTATTTTAT
1 ATTATAATTAATTTTAT
925008 TTATTAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
ATTATAATTAATTTTATG
Found at i:934866 original size:52 final size:52
Alignment explanation
Indices: 934718--934846 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
934708 CGAAATATGA
* *
934718 AAATTTGCTTACATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
934770 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
934822 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
934847 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:934873 original size:13 final size:13
Alignment explanation
Indices: 934855--934879 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
934845 CAAAGATCAG
934855 TGTATCGATACAA
1 TGTATCGATACAA
934868 TGTATCGATACA
1 TGTATCGATACA
934880 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:934946 original size:19 final size:19
Alignment explanation
Indices: 934922--934986 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
934912 TAGCTTACAT
934922 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
934941 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
934954 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
934973 TGTATCGATACAAA
1 TGTATCGATACAAA
934987 TCGTTGAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 1 0.03
19 24 0.62
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:934958 original size:32 final size:32
Alignment explanation
Indices: 934917--934984 Score: 127
Period size: 32 Copynumber: 2.1 Consensus size: 32
934907 GGCAGTAGCT
934917 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAAAACTTATGTATCGA
*
934949 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAAAACTTATGTATCGA
934981 TACA
1 TACA
934985 AATCGTTGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.34
Consensus pattern (32 bp):
TACATTGTATCGATACAAAACTTATGTATCGA
Found at i:934959 original size:13 final size:13
Alignment explanation
Indices: 934941--934965 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
934931 ACAAAACTTA
934941 TGTATCGATACAT
1 TGTATCGATACAT
934954 TGTATCGATACA
1 TGTATCGATACA
934966 ACACTTATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:946174 original size:18 final size:17
Alignment explanation
Indices: 946139--946180 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
946129 ACAAATAAGT
946139 AAAATT-TTATATAACA
1 AAAATTATTATATAACA
*
946155 AAAATTATTAATATATCA
1 AAAATTATT-ATATAACA
*
946173 AAATTTAT
1 AAAATTAT
946181 ATAAACATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 6 0.27
17 2 0.09
18 14 0.64
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAATTATTATATAACA
Done.