Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 50 of 160
Found at i:10857354 original size:10 final size:10
Alignment explanation
Indices: 10857339--10857375 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
10857329 CATTGATCAT
10857339 TTTGACCAAG
1 TTTGACCAAG
*
10857349 TTTGACTAAG
1 TTTGACCAAG
*
10857359 TTTGACCAAA
1 TTTGACCAAG
10857369 TTTGACC
1 TTTGACC
10857376 TTAGAGTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (10 bp):
TTTGACCAAG
Found at i:10858058 original size:36 final size:36
Alignment explanation
Indices: 10858010--10858095 Score: 106
Period size: 36 Copynumber: 2.4 Consensus size: 36
10858000 TCATAAGAGC
* *
10858010 ATTTTTAT-AATTATATTAAGAA-GAATATTATAGTA
1 ATTTTGATCAATTATAAT-AGAAGGAATATTATAGTA
*
10858045 ATTTTGATCAATTATAATAGAAGGAGTATTATAGTA
1 ATTTTGATCAATTATAATAGAAGGAATATTATAGTA
10858081 ATTTTGA-CAAATTAT
1 ATTTTGATC-AATTAT
10858096 GGTACAAGGG
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
35 12 0.27
36 33 0.73
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.43
Consensus pattern (36 bp):
ATTTTGATCAATTATAATAGAAGGAATATTATAGTA
Found at i:10858583 original size:8 final size:8
Alignment explanation
Indices: 10858570--10858598 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
10858560 TGAGTTAATT
10858570 TATATTTA
1 TATATTTA
10858578 TATATTTA
1 TATATTTA
10858586 TATATTTA
1 TATATTTA
10858594 -ATATT
1 TATATT
10858599 ATCTATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 5 0.24
8 16 0.76
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTTA
Found at i:10859512 original size:5 final size:5
Alignment explanation
Indices: 10859502--10859526 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
10859492 GTCTTAGCAA
10859502 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
10859527 TATTTTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:10862930 original size:15 final size:16
Alignment explanation
Indices: 10862910--10862939 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10862900 ATTCATCACC
10862910 TTTTAA-AAAATATTT
1 TTTTAATAAAATATTT
10862925 TTTTAATAAAATATT
1 TTTTAATAAAATATT
10862940 AAAATTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTTAATAAAATATTT
Found at i:10863592 original size:134 final size:133
Alignment explanation
Indices: 10863177--10863661 Score: 444
Period size: 134 Copynumber: 3.6 Consensus size: 133
10863167 CGCTGTCATT
* * * * ** * ** *
10863177 TTAGCGGCGTTTCTATCTTTGAAACG-TCGCTAAATTAGTTACATTTTTATGAGAAAAACGTTAT
1 TTAGCGGCGTTTGTATCTTTGAGATGCT-GCTAATTTAGTGGCATTTTTATGAGGAAAACACTGT
** * * *
10863241 TGCTTT-AGTGGTGTTTGCAACTGAAAACATCGCTATTTTAGAGGCATTTGTATCTGAAAATAC-
65 TGCTTTGA-TGGCATTTGTAACTGAAAATATCGCTACTTTAGAGGCATTTGTATCT-AAAA-ACA
*
10863304 CTCTTTA
127 CTCTATA
* * ** ** *
10863311 TTAGCGGCGTGTGTATCTTTGAGATACTATTAATTTAGTGGCATTTTTATGAGGAAAGTACCGTT
1 TTAGCGGCGTTTGTATCTTTGAGATGCTGCTAATTTAGTGGCATTTTTATGAGGAAAACACTGTT
* * * * *
10863376 GCTTTGGTGGCATTTGTAACTAAAAATGTCGCTACTTTAGAGGCATTTGTACTTTAAAATGC-CT
66 GCTTTGATGGCATTTGTAACTGAAAATATCGCTACTTTAGAGGCATTTGTA-TCTAAAA-ACACT
10863440 CTATA
129 CTATA
** * * *
10863445 TTAGCAACGTTTGTATCTTTGAGATGCTGCTAATTTAATGACGTTTTTATGAGGAAAACACTGTT
1 TTAGCGGCGTTTGTATCTTTGAGATGCTGCTAATTTAGTGGCATTTTTATGAGGAAAACACTGTT
*
10863510 GCTTTGATGGCATTTGTAACTGAAAATATCACTACTTTAGAGGCATTTGTATCTAAAAACACTTC
66 GCTTTGATGGCATTTGTAACTGAAAATATCGCTACTTTAGAGGCATTTGTATCTAAAAACAC-TC
*
10863575 CATA
130 TATA
** * * * * *
10863579 TTAGCGGTATTTGTATATTTTAGACGCCGCAAATTTAGTGGCATTTTTATGA-GACAAACA-TCG
1 TTAGCGGCGTTTGTATCTTTGAGATGCTGCTAATTTAGTGGCATTTTTATGAGGA-AAACACT-G
*
10863642 TTGCTTT-AGTGACATTTGTA
64 TTGCTTTGA-TGGCATTTGTA
10863662 TAAAAAACAT
Statistics
Matches: 283, Mismatches: 60, Indels: 16
0.79 0.17 0.04
Matches are distributed among these distances:
132 1 0.00
133 11 0.04
134 268 0.95
135 3 0.01
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (133 bp):
TTAGCGGCGTTTGTATCTTTGAGATGCTGCTAATTTAGTGGCATTTTTATGAGGAAAACACTGTT
GCTTTGATGGCATTTGTAACTGAAAATATCGCTACTTTAGAGGCATTTGTATCTAAAAACACTCT
ATA
Found at i:10865521 original size:89 final size:88
Alignment explanation
Indices: 10865417--10865584 Score: 198
Period size: 89 Copynumber: 1.9 Consensus size: 88
10865407 TAAAATTTAC
* * * *
10865417 TTTTAAAAAACTCATTAAA-TCTTCCAAT-AGTTTGGAAAG-ATTTAATTTAAGATTTAAATCCT
1 TTTTAAAAAACTCATTAAATTC-TCCAATCA-TTTAG-AAGTACTAAATTTAAAATTTAAATCCT
*
10865479 CCAATAGTTTGGTAGGAAAATTATTT
63 CCAATAATTTGGTAGGAAAATTATTT
* * * *
10865505 TTTTCAAAAAATTCATTAAGTTCTCCAATCATTTAGTAGTACTAAATTTAAAATTTCAATCCTCC
1 TTTT-AAAAAACTCATTAAATTCTCCAATCATTTAGAAGTACTAAATTTAAAATTTAAATCCTCC
10865570 AATAATTTGGTAGGA
65 AATAATTTGGTAGGA
10865585 TTGAAAATTT
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
88 6 0.09
89 58 0.87
90 3 0.04
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.39
Consensus pattern (88 bp):
TTTTAAAAAACTCATTAAATTCTCCAATCATTTAGAAGTACTAAATTTAAAATTTAAATCCTCCA
ATAATTTGGTAGGAAAATTATTT
Found at i:10866297 original size:11 final size:11
Alignment explanation
Indices: 10866283--10866307 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10866273 ATTGAATTTG
10866283 AAAATTTTAGA
1 AAAATTTTAGA
10866294 AAAATTTTAGA
1 AAAATTTTAGA
10866305 AAA
1 AAA
10866308 TCACAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (11 bp):
AAAATTTTAGA
Found at i:10874252 original size:32 final size:32
Alignment explanation
Indices: 10874216--10874282 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
10874206 GGAATATAAG
*
10874216 TTTGACAAATTTGATTGTCTAACTCCATATGA
1 TTTGACAAATTTGATTATCTAACTCCATATGA
* *
10874248 TTTGACAATTTTGGTTATCTAACTCCATATGA
1 TTTGACAAATTTGATTATCTAACTCCATATGA
10874280 TTT
1 TTT
10874283 TTGTTTTTGC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (32 bp):
TTTGACAAATTTGATTATCTAACTCCATATGA
Found at i:10877103 original size:2 final size:2
Alignment explanation
Indices: 10877096--10877152 Score: 87
Period size: 2 Copynumber: 28.5 Consensus size: 2
10877086 GATAAAGAGT
*
10877096 TC TC TC TC TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* *
10877138 TC TG TG TC TC TC TC T
1 TC TC TC TC TC TC TC T
10877153 ATATATATAT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.00, C:0.44, G:0.04, T:0.53
Consensus pattern (2 bp):
TC
Found at i:10881185 original size:48 final size:48
Alignment explanation
Indices: 10881111--10881214 Score: 149
Period size: 48 Copynumber: 2.2 Consensus size: 48
10881101 AATTCTCAAA
* *
10881111 TAATTAATAATAAAAATATTATTTGATAT-AAATAACTTTATTAATTTT
1 TAATTATTAATAAAAATATTATTTGATATAAAATAA-TTTAATAATTTT
*
10881159 TAACTTATTAAT-AAAATATTATTTGATATAAAATAATTTAATACTTTT
1 TAA-TTATTAATAAAAATATTATTTGATATAAAATAATTTAATAATTTT
10881207 TAATTATT
1 TAATTATT
10881215 TATTAATTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
47 5 0.10
48 33 0.65
49 13 0.25
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (48 bp):
TAATTATTAATAAAAATATTATTTGATATAAAATAATTTAATAATTTT
Found at i:10881358 original size:24 final size:22
Alignment explanation
Indices: 10881327--10881382 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
10881317 ATTGTTGTAT
10881327 TTATATTTAAATATATATATTATTA
1 TTATATTTAAAT-T-T-TATTATTA
*
10881352 TTA-ATTTTAATTTTATTATTA
1 TTATATTTAAATTTTATTATTA
10881373 TTATATTTAA
1 TTATATTTAA
10881383 TTTCTTATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 11 0.39
22 6 0.21
23 1 0.04
24 7 0.25
25 3 0.11
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTATATTTAAATTTTATTATTA
Found at i:10882301 original size:30 final size:29
Alignment explanation
Indices: 10882267--10882333 Score: 82
Period size: 28 Copynumber: 2.2 Consensus size: 29
10882257 AGAAATAATC
10882267 TTTAAATTATTATAAAATATTTAATATA-TA
1 TTTAAATT-TTA-AAAATATTTAATATATTA
* *
10882297 TTTAAATTTTAAAAATTTTTAATGTATTA
1 TTTAAATTTTAAAAATATTTAATATATTA
10882326 TTTGAAAT
1 TTT-AAAT
10882334 ATAAATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 13 0.39
29 8 0.24
30 12 0.36
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (29 bp):
TTTAAATTTTAAAAATATTTAATATATTA
Found at i:10882429 original size:23 final size:23
Alignment explanation
Indices: 10882393--10882452 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 23
10882383 ATAATAATAT
*
10882393 ATATT-TATAAATAATTTTTTAA
1 ATATTATATTAATAATTTTTTAA
10882415 ATATTATATTAATAA---TTTAA
1 ATATTATATTAATAATTTTTTAA
* *
10882435 ATATCATATTAAAAATTT
1 ATATTATATTAATAATTT
10882453 ATAAAATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 18 0.58
22 5 0.16
23 8 0.26
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
ATATTATATTAATAATTTTTTAA
Found at i:10882467 original size:29 final size:29
Alignment explanation
Indices: 10882428--10882516 Score: 97
Period size: 35 Copynumber: 2.9 Consensus size: 29
10882418 TTATATTAAT
*
10882428 AATTTAAATATCATATTAAAAATTTATAA
1 AATTTAAATATTATATTAAAAATTTATAA
*
10882457 AATTTAAATATAAATATTATATTAAAAATTTTTAA
1 AA--T---T-TAAATATTATATTAAAAATTTATAA
*
10882492 AATTTAAATATTATATTAAATATTT
1 AATTTAAATATTATATTAAAAATTT
10882517 TATTATAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
29 22 0.43
30 1 0.02
31 1 0.02
33 1 0.02
34 1 0.02
35 25 0.49
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (29 bp):
AATTTAAATATTATATTAAAAATTTATAA
Found at i:10882471 original size:35 final size:35
Alignment explanation
Indices: 10882432--10882502 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
10882422 ATTAATAATT
10882432 TAAATATCATATTAAAAATTTATAAAATTTAAATA
1 TAAATATCATATTAAAAATTTATAAAATTTAAATA
* *
10882467 TAAATATTATATTAAAAATTTTTAAAATTTAAATA
1 TAAATATCATATTAAAAATTTATAAAATTTAAATA
10882502 T
1 T
10882503 TATATTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (35 bp):
TAAATATCATATTAAAAATTTATAAAATTTAAATA
Found at i:10882517 original size:29 final size:29
Alignment explanation
Indices: 10882462--10882517 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
10882452 TATAAAATTT
10882462 AAATATAAATATTATATTAAAAATTTTTA
1 AAATATAAATATTATATTAAAAATTTTTA
* *
10882491 AAATTTAAATATTATATTAAATATTTT
1 AAATATAAATATTATATTAAAAATTTT
10882518 ATTATAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
AAATATAAATATTATATTAAAAATTTTTA
Found at i:10884200 original size:4 final size:4
Alignment explanation
Indices: 10884191--10884215 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
10884181 TAAGAATACT
10884191 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
10884216 CTTACAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:10887951 original size:237 final size:236
Alignment explanation
Indices: 10886024--10888265 Score: 1536
Period size: 235 Copynumber: 9.5 Consensus size: 236
10886014 ATATAAATAG
* * * * * * * * *
10886024 TAATTAATTAAAATTTCACATTGTCTACTTAAATA-TT-TGCATTATAATAATATCTTCTTACAG
1 TAATTAATTAAAATTTTACATTATCAACATAATTACTTATG--TTACAATAATATATTATTACGG
* * * * * * * * *
10886087 TTGTTTTTATATTTCATTGCGTTTA-AAGATATCATAACTCTTTTCTTAGTGTGTTACGATACTT
64 TTGTTCTTATTTTTCATTACATTTAGAA-TTGTCATAACTC-TTTCTTAATGTATTACGACACTT
* * ** * * * *
10886151 TTTATCCATTTTACATCAAATGATACTAATTTTACGTTTTTTCTCACTTGTTTACATTACCAA--
127 CTTACCCATTTTACGCCAAATGATACTAATTTTACATTTCTTCTCACTTATTTACATTATCAATT
* * * *
10886214 -ATTTTTTTATTTTTAGCTATTTTTGTTATATATATACAATAACAA
192 TATTTTTTAATTTTTAGCTATTTTTCTTAAATATTTACAA-AACAA
* * * * * * * * * * **
10886259 CAATTAATTAAATTTTTATACTGTCATTC-CAATTATTTATATTATAATAATATAATT-TTACTA
1 TAATTAATTAAAATTTTACATTATCA-ACATAATTACTTATGTTACAATAATAT-ATTATTACGG
* * * ** ** * * *
10886322 CTGTTTTTATTTTTCATCATGTTTAGAATTGTTGTAACTTTTTCTTAATGTATTACAATACTTCT
64 TTGTTCTTATTTTTCATTACATTTAGAATTGTCATAACTCTTTCTTAATGTATTACGACACTTCT
* * * * * * * *
10886387 AACCTATTTTACTCCAAATGGTACTAATTTTACATTACTTCTCACTTCTTTATATTATCAATTTG
129 TACCCATTTTACGCCAAATGATACTAATTTTACATTTCTTCTCACTTATTTACATTATCAATTTA
* * * * *
10886452 TTTATTAA-ATTTAACTATTTTTCTTATATATTTACAGAAATAA
194 TTTTTTAATTTTTAGCTATTTTTCTTAAATATTTACA-AAACAA
* * * * * * **
10886495 TAAATAATTAAAA-TTTACATTGTCAAAATAATTA-TTACCT-TTATAATAATATTTTTTTACTA
1 TAATTAATTAAAATTTTACATTATCAACATAATTACTTA--TGTTACAATAATATATTATTACGG
* * * * ** ** * *
10886557 TTGTTTTTACTTTTCATTATATTTACAATTGTCATAACTCTTTCTTAACATATTATAATACTTTT
64 TTGTTCTTATTTTTCATTACATTTAGAATTGTCATAACTCTTTCTTAATGTATTACGACACTTCT
* * * * ***
10886622 TACCCATTTTACGCTAAATGGTACTAA-TTTACATTTGTTCTCACTTTGTTTACATCGCCAATTT
129 TACCCATTTTACGCCAAATGATACTAATTTTACATTTCTTCTCAC-TTATTTACATTATCAATTT
* * * * * *
10886686 ATTTTTTAATTTCTAACTATTTTCCTTAGATATTTATAAAATAA
193 ATTTTTTAATTTTTAGCTATTTTTCTTAAATATTTACAAAACAA
** * * ** * **
10886730 TAATTAATTAAAATTTTATGTTACCAATATAATTA-TCTACATTCCAATAATATATTATTATAGT
1 TAATTAATTAAAATTTTACATTATCAACATAATTACT-TATGTTACAATAATATATTATTACGGT
* * * * * * **
10886794 TGTTCATAATTTT-AGTTATATTTAAAATTATCATAACT-TTTTTTAGCGTATTACGATCA-TT-
65 TGTTCTTATTTTTCA-TTACATTTAGAATTGTCATAACTCTTTCTTAATGTATTACGA-CACTTC
* * * * * *
10886855 TATACCCATTTTATGCCAAAAGATACTAAATCTATATTT-TTCTCACTTGTTTACATTA-CAATT
128 T-TACCCATTTTACGCCAAATGATACTAATTTTACATTTCTTCTCACTTATTTACATTATCAATT
* * * *
10886918 T-TTTTTTTATTTTTTGCTA-TTTTCTTATATACTTA-AAAA-AA
192 TATTTTTTAATTTTTAGCTATTTTTCTTAAATATTTACAAAACAA
* ** * * ** * ***
10886959 TAAATAATTAAAATTTTACATTGGCAACTTAATTATTTACATTACAATAAT-T-TTTTTATAATT
1 TAATTAATTAAAATTTTACATTATCAACATAATTACTTATGTTACAATAATATATTATTACGGTT
* * * * * * * * * * *
10887022 TTTCTT-TCCTTT-ATT-TATGTTTGTAATTGTCATTATTTTTTATTAATGTGTTACAACACTTT
66 GTTCTTAT-TTTTCATTACAT-TTAG-AATTGTCATAACTCTTTCTTAATGTATTACGACACTTC
* * * ** * **
10887084 TTACTCATTTTAC-CTCAAATTATACTAATCTTACA-TAATTCTCACTT-TTGTACGTTATTTAT
128 TTACCCATTTTACGC-CAAATGATACTAATTTTACATTTCTTCTCACTTATT-TACATTATCAAT
* * * * *
10887146 TTGTTTTTCAATTTTTAGCTATTTTTATTACATATTTA-AATAATAA
191 TTATTTTTTAATTTTTAGCTATTTTTCTTAAATATTTACAA-AACAA
* * * * *
10887192 TAATTAGTTAAAATTTTACATTATCAACAAAATTATTTATGTTACAATAATATACTATTATGGTT
1 TAATTAATTAAAATTTTACATTATCAACATAATTACTTATGTTACAATAATATATTATTACGGTT
* * * * * * *
10887257 GTTCTTA-TTTTCTACTACATTTAGAATTATCATAACTCTTTCTTGATGTGTGACAAAACTTCTT
66 GTTCTTATTTTTC-ATTACATTTAGAATTGTCATAACTCTTTCTTAATGTATTACGACACTTCTT
* * * * * *
10887321 ACCTATTTTATGCCAAATAATACTAATTTTACGTTTCTTCTCACTTATTTAAATTACCAATTTAT
130 ACCCATTTTACGCCAAATGATACTAATTTTACATTTCTTCTCACTTATTTACATTATCAATTTAT
10887386 TTTTTAATTTTTAGCTATTTTTCTTATATATATATATACAAAAACAA
195 TTTTTAATTTTTAGCTATTTTTCTTA-A-ATAT-T-TAC-AAAACAA
* ** * * * *
10887433 TAATTAATTAAAATTTTATATTGCCATCATAATTACTTATGTTATAATAATATATT-TTTCTGAT
1 TAATTAATTAAAATTTTACATTATCAACATAATTACTTATGTTACAATAATATATTATTAC-GGT
* * * * * * * *
10887497 TATTCTTATTTTTAATTACATTTAGATTTGTCATAGCTCGTTCTTAGTGTTTTATGACACTTCTT
65 TGTTCTTATTTTTCATTACATTTAGAATTGTCATAACTCTTTCTTAATGTATTACGACACTTCTT
** * * *
10887562 ACCCATTTTACATCAAATTATACTAATTTT--ATAT-TTCTCACTTATTTACATTATCAATTCAT
130 ACCCATTTTACGCCAAATGATACTAATTTTACATTTCTTCTCACTTATTTACATTATCAATTTAT
* * * *
10887624 TTTTTAATTTTCAGCTATTTTTCTTATATATTTATAGAAATAA
195 TTTTTAATTTTTAGCTATTTTTCTTAAATATTTACA-AAACAA
* * *
10887667 TAATTAATTAAAATTTTACGTTATCAACATAATTATTTACT-TTACAATAATACT-TTCTTACGG
1 TAATTAATTAAAATTTTACATTATCAACATAATTACTTA-TGTTACAATAATA-TATTATTACGG
* * * *
10887730 TTGATT-TTATTTTTCATTACATTTAGAATTGTCACAACTCTTTTTTAATGTATTATGATACTTC
64 TTG-TTCTTATTTTTCATTACATTTAGAATTGTCATAACTCTTTCTTAATGTATTACGACACTTC
** ** * * * * **
10887794 TTACTTATTTTACGTTAAATGATATTAATTTTATATTTGTTCTTACTTATTTATTTTATCAATTT
128 TTACCCATTTTACGCCAAATGATACTAATTTTACATTTCTTCTCACTTATTTACATTATCAATTT
* *
10887859 ATTTTTTAATTTCTATCTAGTTTTTCTTAAATATTTACAAAACAA
193 ATTTTTTAATTTTTAGCTA-TTTTTCTTAAATATTTACAAAACAA
** * * * *
10887904 TAATTAATTAAAATTTTATGTTATCAATAGAATTCCTTATGTTACAATAATATATTATTATGGTT
1 TAATTAATTAAAATTTTACATTATCAACATAATTACTTATGTTACAATAATATATTATTACGGTT
* * * * * *
10887969 GTTCTTACTTTCCATTACATTTAAAATTGTCATAACGT-TTT-TTAGTGTATTACGACAATTCAT
66 GTTCTTATTTTTCATTACATTTAGAATTGTCATAAC-TCTTTCTTAATGTATTACGACACTTCTT
* * * * *
10888032 ACCCATTTTATGCTAAATGATACTAATTTTACATTTCTTCTCACTTGTTTACATTA-CTAATATG
130 ACCCATTTTACGCCAAATGATACTAATTTTACATTTCTTCTCACTTATTTACATTATC-AATTTA
* * * * *
10888096 TTCTTTAATTTTTAGTTATTTTTCTTATATGTTT-TAAAA-AA
194 TTTTTTAATTTTTAGCTATTTTTCTTAAATATTTACAAAACAA
* * * * * * * *
10888137 TAATTAATTAAAATTTTACATTAGCAACTTAATTA-TCTATGTAACAATAATTTGTTTTTATGAT
1 TAATTAATTAAAATTTTACATTATCAACATAATTACT-TATGTTACAATAATATATTATTACGGT
* * * * * *
10888201 TGTTCTTATCTTTAATTACATTTAGAATTGTAATAACTCTGTCTTAATATATTATGACACTTCTT
65 TGTTCTTATTTTTCATTACATTTAGAATTGTCATAACTCTTTCTTAATGTATTACGACACTTCTT
10888266 TTAGTTTTAA
Statistics
Matches: 1588, Mismatches: 348, Indels: 143
0.76 0.17 0.07
Matches are distributed among these distances:
225 3 0.00
226 4 0.00
227 33 0.02
228 55 0.03
229 48 0.03
230 20 0.01
231 28 0.02
232 18 0.01
233 137 0.09
234 256 0.16
235 352 0.22
236 282 0.18
237 143 0.09
238 72 0.05
239 3 0.00
240 4 0.00
241 124 0.08
242 6 0.00
ACGTcount: A:0.32, C:0.12, G:0.05, T:0.50
Consensus pattern (236 bp):
TAATTAATTAAAATTTTACATTATCAACATAATTACTTATGTTACAATAATATATTATTACGGTT
GTTCTTATTTTTCATTACATTTAGAATTGTCATAACTCTTTCTTAATGTATTACGACACTTCTTA
CCCATTTTACGCCAAATGATACTAATTTTACATTTCTTCTCACTTATTTACATTATCAATTTATT
TTTTAATTTTTAGCTATTTTTCTTAAATATTTACAAAACAA
Found at i:10888209 original size:704 final size:689
Alignment explanation
Indices: 10886118--10888265 Score: 1977
Period size: 698 Copynumber: 3.0 Consensus size: 689
10886108 TTTAAAGATA
* * * *
10886118 TCATAACTCTTTTCTTAGTGTGTTACGATACTTTTTATCCATTTTACATCAAATGATACTAATTT
1 TCATAACTC--TTCTTAGTGTATTACGACACTTCTTACCCATTTTACATCAAATGATACTAATTT
*
10886183 TACGTTTTTTCTCACTTGTTTACATTACCAA--ATTTTTTTATTTTTAGCTATTTTTGTTATATA
64 TA---TTTTTCTCACTTGTTTACATTA-CAATTATTTTTTTATTTTTAGCTATTTTTCTTATATA
* * * * * * * *
10886246 TATACAATAACAACAATTAATTAAATTTTTATACTGTCATTCCAATTATTTA-TATTATAATAAT
125 TTTA-AA-AA-AATAATTAATTAAAATTTTACATTGTCA-ACTAATTATTTACT-TTACAAT-A-
* * * ** *
10886310 ATAATTTTACTACTGTTTTTATTTTTCATCATGTTTAGAATTGTTGTAACTTTTTCTTAATGTAT
183 AT-ATTTT--TACTGATTTTATTTTTCATTATATTTAGAATTGTCATAACTTTTTATTAATGTAT
* * * *
10886375 TACAATACTTCTAACCTATTTTACTCCAAATGGTACTAATTTTACATTACTTCTCACTTCTTTAT
245 TACAATACTTCTTACTTATTTTACT-CAAATGATACTAATTTTACATTAATTCTCACTT-TTTAT
* * * *
10886440 ATTATCAATTTGTTTATTAAATTTAACTATTTTTCTTATATATTTACAGAAATAATAAATAATTA
308 ATTATCAATTTGTTTTTTAATTTTAACTATTTTTCTTAAATATTTACA-AAATAATAATTAATTA
* * * * * * *
10886505 AAA-TTTACATTGTCAAAATAATTATTACCT-TTATAATAATATTTTTTTACT-ATTGTTTTTAC
372 AAATTTTACATTATCAAAAAAATTATTA--TGTTACAATAATATATTATTA-TGGTTGTTCTTAC
* * * *** * * *
10886567 TTTTCATTATATTTACAATTGTCATAACTCTTTCTTAACATATTATAATACTTTTTACCCATTTT
434 TTTCCATTACATTTAAAATTGTCATAACTCTTTCTTAGTGTATTACAA-AATTCTTACCCATTTT
* * * **
10886632 ACGCTAAATGGTACTAA-TTTACATTTGTTCTCACTTTGTTTACATCGCCAATTTATTTTTTAAT
498 ATGCTAAATGATACTAATTTTACATTTCTTCTCAC-TTGTTTACATTACCAATTTATTTTTTAAT
* * * * * * *
10886696 TTCTAACTATTTTCCTTAGATATTTATAAAATAATAATTAATTAAAATTTTATGTTACCAA-TAT
562 TTTTAGCTATTTTTCTTATATATTTATAAAACAATAATTAATTAAAATTTTATATTAGCAACT-T
** * * * * * * * *
10886760 AATTATCTACATTCCAATAATATATTATTAT-AGTTGTTCATAATTTTAGTTATATTTAAAATTA
626 AATTATCTATGTTACAATAATATATTTTTATGA-TTGTTCTTATTTTTAATTACATTTAGAATTG
* * * *** *
10886824 TCATAACTTTTTTTAGCGTATTACGATCA-TT-TATACCCATTTTATGCCAAAAGATACTAAATC
1 TCATAACTCTTCTTAGTGTATTACGA-CACTTCT-TACCCATTTTACATCAAATGATACT-AAT-
* * * *
10886887 TATATTTTTCTCACTTGTTTACATTACAATTTTTTTTTTATTTTTTGCTA-TTTTCTTATATACT
62 TTTATTTTTCTCACTTGTTTACATTACAATTATTTTTTTATTTTTAGCTATTTTTCTTATATATT
* * * *
10886951 TAAAAAAATAAATAATTAAAATTTTACATTGGCAACTTAATTATTTACATTACAATAATTTTTTT
127 TAAAAAAATAATTAATTAAAATTTTACATTGTCAAC-TAATTATTTACTTTACAATAATATTTTT
* * * * * * * *
10887016 A-TAATTTT-TCTTTCCTTTATTTATGTTTGTAATTGTCATTATTTTTTATTAATGTGTTACAAC
191 ACTGATTTTAT-TTTTCATTA--TAT-TTAG-AATTGTCATAACTTTTTATTAATGTATTACAAT
* * * * ** *
10887079 ACTTTTTACTCATTTTACCTCAAATTATACTAATCTTACA-TAATTCTCACTTTTGTACGTTATT
251 ACTTCTTACTTATTTTA-CTCAAATGATACTAATTTTACATTAATTCTCACTTTT-TATATTATC
* * * * * *
10887143 TATTTGTTTTTCAATTTTTAGCTATTTTTATTACATATTTA-AATAATAATAATTAGTTAAAATT
314 AATTTGTTTTTTAA-TTTTAACTATTTTTCTTAAATATTTACAA-AATAATAATTAATTAAAATT
* * * * *
10887207 TTACATTATCAACAAAATTATTTATGTTACAATAATATACTATTATGGTTGTTCTTATTTTCTAC
377 TTACATTATCAAAAAAATTA-TTATGTTACAATAATATATTATTATGGTTGTTCTTACTTTCCAT
* * * * * *
10887272 TACATTTAGAATTATCATAACTCTTTCTT-GATGTGTGACAAAACTTCTTACCTATTTTATGCCA
441 TACATTTAAAATTGTCATAACTCTTTCTTAG-TGTATTACAAAA-TTCTTACCCATTTTATGCTA
* * * *
10887336 AATAATACTAATTTTACGTTTCTTCTCACTTATTTAAATTACCAATTTATTTTTTAATTTTTAGC
504 AATGATACTAATTTTACATTTCTTCTCACTTGTTTACATTACCAATTTATTTTTTAATTTTTAGC
* *
10887401 TATTTTTCTTATATATATATATACAAAAACAATAATTAATTAAAATTTTATATT-GCCATCATAA
569 TATTTTTCTTATATAT-T-TAT---AAAACAATAATTAATTAAAATTTTATATTAG-CAACTTAA
* * * *
10887465 TTA-CTTATGTTATAATAATATATTTTTCTGATTATTCTTATTTTTAATTACATTTAGATTTG
628 TTATC-TATGTTACAATAATATATTTTTATGATTGTTCTTATTTTTAATTACATTTAGAATTG
* * * *
10887527 TCATAGCTCGTTCTTAGTGTTTTATGACACTTCTTACCCATTTTACATCAAATTATACTAATTTT
1 TCATAACTC-TTCTTAGTGTATTACGACACTTCTTACCCATTTTACATCAAATGATACTAATTTT
* * * *
10887592 ATATTTCTCACTTATTTACATTATCAATTCATTTTTTAATTTTCAGCTATTTTTCTTATATATTT
65 ATTTTTCTCACTTGTTTACATTA-CAATT-ATTTTTTTATTTTTAGCTATTTTTCTTATATATTT
* *
10887657 ATAGAAATAATAATTAATTAAAATTTTACGTTATCAACATAATTATTTACTTTACAATAATACTT
128 A-A-AAA-AATAATTAATTAAAATTTTACATTGTCAAC-TAATTATTTACTTTACAATAATA-TT
* * *
10887722 TCTTACGGTTGATTTTATTTTTCATTACATTTAGAATTGTCACAACTCTTTT-TTAATGTATTAT
188 T-TTAC---TGATTTTATTTTTCATTATATTTAGAATTGTCATAACT-TTTTATTAATGTATTAC
* * * * ** * *
10887786 GATACTTCTTACTTATTTTACGTTAAATGATATTAATTTTATATTTGTTCTTACTTATTTATTTT
248 AATACTTCTTACTTATTTTAC-TCAAATGATACTAATTTTACATTAATTCTCACTT-TTTATATT
* * *
10887851 ATCAATTTATTTTTTAATTTCTATCTAGTTTTTCTTAAATATTTACAAAACAATAATTAATTAAA
311 ATCAATTTGTTTTTTAATTT-TAACTA-TTTTTCTTAAATATTTACAAAATAATAATTAATTAAA
** * * *
10887916 ATTTTATGTTATCAATAGAATTCCTTATGTTACAATAATATATTATTATGGTTGTTCTTACTTTC
374 ATTTTACATTATCAAAAAAATT-ATTATGTTACAATAATATATTATTATGGTTGTTCTTACTTTC
* *
10887981 CATTACATTTAAAATTGTCATAACGT-TTT-TTAGTGTATTACGACAATTCATACCCATTTTATG
438 CATTACATTTAAAATTGTCATAAC-TCTTTCTTAGTGTATTAC-AAAATTCTTACCCATTTTATG
* * * *
10888044 CTAAATGATACTAATTTTACATTTCTTCTCACTTGTTTACATTACTAATATGTTCTTTAATTTTT
501 CTAAATGATACTAATTTTACATTTCTTCTCACTTGTTTACATTACCAATTTATTTTTTAATTTTT
* * *
10888109 AGTTATTTTTCTTATATGTTT-TAAAA-AATAATTAATTAAAATTTTACATTAGCAACTTAATTA
566 AGCTATTTTTCTTATATATTTATAAAACAATAATTAATTAAAATTTTATATTAGCAACTTAATTA
* * * *
10888172 TCTATGTAACAATAATTTGTTTTTATGATTGTTCTTATCTTTAATTACATTTAGAATTG
631 TCTATGTTACAATAATATATTTTTATGATTGTTCTTATTTTTAATTACATTTAGAATTG
* * * *
10888231 TAATAACTCTGTCTTAATATATTATGACACTTCTT
1 TCATAACTCT-TCTTAGTGTATTACGACACTTCTT
10888266 TTAGTTTTAA
Statistics
Matches: 1158, Mismatches: 221, Indels: 128
0.77 0.15 0.08
Matches are distributed among these distances:
693 1 0.00
694 11 0.01
695 2 0.00
696 5 0.00
697 55 0.05
698 225 0.19
699 23 0.02
700 40 0.03
701 2 0.00
702 29 0.03
703 130 0.11
704 213 0.18
705 26 0.02
706 12 0.01
707 3 0.00
708 48 0.04
709 5 0.00
710 59 0.05
711 134 0.12
712 118 0.10
713 3 0.00
714 13 0.01
715 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.05, T:0.50
Consensus pattern (689 bp):
TCATAACTCTTCTTAGTGTATTACGACACTTCTTACCCATTTTACATCAAATGATACTAATTTTA
TTTTTCTCACTTGTTTACATTACAATTATTTTTTTATTTTTAGCTATTTTTCTTATATATTTAAA
AAAATAATTAATTAAAATTTTACATTGTCAACTAATTATTTACTTTACAATAATATTTTTACTGA
TTTTATTTTTCATTATATTTAGAATTGTCATAACTTTTTATTAATGTATTACAATACTTCTTACT
TATTTTACTCAAATGATACTAATTTTACATTAATTCTCACTTTTTATATTATCAATTTGTTTTTT
AATTTTAACTATTTTTCTTAAATATTTACAAAATAATAATTAATTAAAATTTTACATTATCAAAA
AAATTATTATGTTACAATAATATATTATTATGGTTGTTCTTACTTTCCATTACATTTAAAATTGT
CATAACTCTTTCTTAGTGTATTACAAAATTCTTACCCATTTTATGCTAAATGATACTAATTTTAC
ATTTCTTCTCACTTGTTTACATTACCAATTTATTTTTTAATTTTTAGCTATTTTTCTTATATATT
TATAAAACAATAATTAATTAAAATTTTATATTAGCAACTTAATTATCTATGTTACAATAATATAT
TTTTATGATTGTTCTTATTTTTAATTACATTTAGAATTG
Found at i:10888221 original size:233 final size:233
Alignment explanation
Indices: 10886168--10888238 Score: 1307
Period size: 236 Copynumber: 8.8 Consensus size: 233
10886158 ATTTTACATC
* * * *
10886168 AAATGATACTAATTTTACGTTTTTTCTCACTTGTTTACATTACCAA---ATTTTTTTATTTTTAG
1 AAATGATACTAATTTTAC-ATTTTTCTCACTTATTTACATTACTAATTTATTTTTTAATTTTTAG
* * * * * * * *
10886230 CTATTTTTGTTATATATATACAATAACAACAATTAATTAAATTTTTATACT-GTC-A-TTCCAAT
65 CTATTTTTCTTATATATTTATAA-AATAATAATTAATTAAAATTTTACATTAG-CAACTT--AAT
* * * * * * * * ** *
10886292 TATTTATATTATAATAATATAATT-TTACT-ACTGTTTTTATTTTTCATCATGTTTAGAATTGTT
126 TATCTATGTTACAATAATAT-ATTATTA-TGATTGTTCTTATCTTTAATTACATTTAGAATTGTC
* * * * * * * *
10886355 GTAACTTTTTCTTAATGTATTACAATACTTCTAACCTATTTTACT-CC
189 ATAAC-TTTT-TTAGTGTATTACGACAATTCTTACCCATTTTA-TGCT
* * * * * * *
10886402 AAATGGTACTAATTTTACATTACTTCTCACTTCTTTATATTA-TCAATTTGTTTATTAA-ATTTA
1 AAATGATACTAATTTTACATT-TTTCTCACTTATTTACATTACT-AATTTATTTTTTAATTTTTA
* * * **
10886465 ACTATTTTTCTTATATATTTACAGAAATAATAAATAATTAAAA-TTTACATT-GTCAAAATAATT
64 GCTATTTTTCTTATATATTTATA-AAATAATAATTAATTAAAATTTTACATTAG-CAACTTAATT
* * * * * * *
10886528 AT-TACCT-TTATAATAATATTTTTTTACT-ATTGTTTTTA-CTTTTCATTATATTTACAATTGT
127 ATCTA--TGTTACAATAATATATTATTA-TGATTGTTCTTATC-TTTAATTACATTTAGAATTGT
*** ** * * * *
10886589 CATAACTCTTTCTTAACATATTATAATACTTTTTACCCATTTTACGCT
188 CATAACT-TTT-TTAGTGTATTACGACAATTCTTACCCATTTTATGCT
* * ** * *
10886637 AAATGGTACTAA-TTTACATTTGTTCTCACTTTGTTTACATCGCCAATTTATTTTTTAATTTCTA
1 AAATGATACTAATTTTACATTT-TTCTCAC-TTATTTACATTACTAATTTATTTTTTAATTTTTA
* * * ** *
10886701 ACTATTTTCCTTAGATATTTATAAAATAATAATTAATTAAAATTTTATGTTACCAA-TATAATTA
64 GCTATTTTTCTTATATATTTATAAAATAATAATTAATTAAAATTTTACATTAGCAACT-TAATTA
** * * * * * *
10886765 TCTACATTCCAATAATATATTATTAT-AGTTGTTCATAAT-TTTAGTTATATTTAAAATTATCAT
128 TCTATGTTACAATAATATATTATTATGA-TTGTTC-TTATCTTTAATTACATTTAGAATTGTCAT
* *
10886828 AACTTTTTTTAGCGTATTACGATC-ATT-TATACCCATTTTATGCC
191 AAC-TTTTTTAGTGTATTACGA-CAATTCT-TACCCATTTTATGCT
* * * * * * *
10886872 AAAAGATACTAAATCTATATTTTTCTCACTTGTTTACATTAC-AATTT-TTTTTTTATTTTTTGC
1 AAATGATACTAATTTTACATTTTTCTCACTTATTTACATTACTAATTTATTTTTTAATTTTTAGC
* * * *
10886935 TA-TTTTCTTATATACTTA-AAAA-AATAAATAATTAAAATTTTACATTGGCAACTTAATTATTT
66 TATTTTTCTTATATATTTATAAAATAATAATTAATTAAAATTTTACATTAGCAACTTAATTATCT
** * * * * ** *
10886997 ACATTACAATAAT-T-TTTTTATAATTTTTCTT-TCCTTTATTTATGTTT-GTAATTGTCATTAT
131 ATGTTACAATAATATATTATTATGATTGTTCTTAT-CTTTAATTACATTTAG-AATTGTCA-TAA
* * * * * * * *
10887058 TTTTTATTAATGTGTTACAACACTTTTTACTCATTTTA-CCT
193 CTTTT-TTAGTGTATTACGACAATTCTTACCCATTTTATGCT
* * ** * * * * *
10887099 CAAATTATACTAATCTTACATAATTCTCACTT-TTGTACGTTATTTATTTGTTTTTCAATTTTTA
1 -AAATGATACTAATTTTACATTTTTCTCACTTATT-TACATTACTAATTTATTTTTTAATTTTTA
* * * * **
10887163 GCTATTTTTATTACATATTTA-AATAATAATAATTAGTTAAAATTTTACATTATCAACAAAATTA
64 GCTATTTTTCTTATATATTTATAA-AATAATAATTAATTAAAATTTTACATTAGCAACTTAATTA
* * * * * *
10887227 TTTATGTTACAATAATATACTATTATGGTTGTTCTTAT-TTTCTACTACATTTAGAATTATCATA
128 TCTATGTTACAATAATATATTATTATGATTGTTCTTATCTTT-AATTACATTTAGAATTGTCATA
* * * * *
10887291 ACTCTTTCTT-GATGTGTGAC-AAAACTTCTTACCTATTTTATGCC
192 ACT-TTT-TTAG-TGTATTACGACAA-TTCTTACCCATTTTATGCT
* * * *
10887335 AAATAATACTAATTTTACGTTTCTTCTCACTTATTTAAATTACCAATTTATTTTTTAATTTTTAG
1 AAATGATACTAATTTTACATTT-TTCTCACTTATTTACATTACTAATTTATTTTTTAATTTTTAG
* * * *
10887400 CTATTTTTCTTATATATATATATACAAAAACAATAATTAATTAAAATTTTATATT-GCCATCATA
65 CTATTTTTCTTATATAT-T-TAT---AAAATAATAATTAATTAAAATTTTACATTAG-CAACTTA
* * * * * *
10887464 ATTA-CTTATGTTATAATAATATATTTTTCTGATTATTCTTATTTTTAATTACATTTAGATTTGT
124 ATTATC-TATGTTACAATAATATATTATTATGATTGTTCTTATCTTTAATTACATTTAGAATTGT
* * * * *
10887528 CATAGCTCGTTCTTAGTGTTTTATGACACTTCTTACCCATTTTA--CAT
188 CATAACT--TTTTTAGTGTATTACGACAATTCTTACCCATTTTATGC-T
* * * *
10887575 CAAATTATACTAATTTT--ATATTTCTCACTTATTTACATTA-TCAATTCATTTTTTAATTTTCA
1 -AAATGATACTAATTTTACATTTTTCTCACTTATTTACATTACT-AATTTATTTTTTAATTTTTA
* * *
10887637 GCTATTTTTCTTATATATTTATAGAAATAATAATTAATTAAAATTTTACGTTATCAACATAATTA
64 GCTATTTTTCTTATATATTTATA-AAATAATAATTAATTAAAATTTTACATTAGCAACTTAATTA
* * * * * *
10887702 TTTACT-TTACAATAATACT-TTCTTACGGTTGATT-TTATTTTTCATTACATTTAGAATTGTCA
128 TCTA-TGTTACAATAATA-TATTATTATGATTG-TTCTTATCTTTAATTACATTTAGAATTGTCA
* * * * * ** * *
10887764 CAACTCTTTTTTAATGTATTATGATACTTCTTACTTATTTTACGTT
190 TAA--CTTTTTTAGTGTATTACGACAATTCTTACCCATTTTATGCT
* * * ** *
10887810 AAATGATATTAATTTTATATTTGTTCTTACTTATTTATTTTA-TCAATTTATTTTTTAATTTCTA
1 AAATGATACTAATTTTACATTT-TTCTCACTTATTTACATTACT-AATTTATTTTTTAATTTTTA
* * * * ** * *
10887874 TCTAGTTTTTCTTAAATATTTACAAAACAATAATTAATTAAAATTTTATGTTATCAA-TAGAATT
64 GCTA-TTTTTCTTATATATTTATAAAATAATAATTAATTAAAATTTTACATTAGCAACT-TAATT
* * * *
10887938 -CCTTATGTTACAATAATATATTATTATGGTTGTTCTTA-CTTTCCATTACATTTAAAATTGTCA
127 ATC-TATGTTACAATAATATATTATTATGATTGTTCTTATCTTT-AATTACATTTAGAATTGTCA
*
10888001 TAACGTTTTTTAGTGTATTACGACAATTCATACCCATTTTATGCT
190 TAAC-TTTTTTAGTGTATTACGACAATTCTTACCCATTTTATGCT
* * * *
10888046 AAATGATACTAATTTTACATTTCTTCTCACTTGTTTACATTACTAATATGTTCTTTAATTTTTAG
1 AAATGATACTAATTTTACATTT-TTCTCACTTATTTACATTACTAATTTATTTTTTAATTTTTAG
* *
10888111 TTATTTTTCTTATATGTTT-TAAAA-AATAATTAATTAAAATTTTACATTAGCAACTTAATTATC
65 CTATTTTTCTTATATATTTATAAAATAATAATTAATTAAAATTTTACATTAGCAACTTAATTATC
* * * * *
10888174 TATGTAACAATAATTTGTTTTTATGATTGTTCTTATCTTTAATTACATTTAGAATTGTAATAACT
130 TATGTTACAATAATATATTATTATGATTGTTCTTATCTTTAATTACATTTAGAATTGTCATAACT
10888239 CTGTCTTAAT
Statistics
Matches: 1450, Mismatches: 290, Indels: 196
0.75 0.15 0.10
Matches are distributed among these distances:
225 1 0.00
226 1 0.00
227 37 0.03
228 55 0.04
229 49 0.03
230 20 0.01
231 28 0.02
232 17 0.01
233 134 0.09
234 211 0.15
235 273 0.19
236 281 0.19
237 138 0.10
238 73 0.05
239 3 0.00
241 119 0.08
242 10 0.01
ACGTcount: A:0.33, C:0.12, G:0.05, T:0.50
Consensus pattern (233 bp):
AAATGATACTAATTTTACATTTTTCTCACTTATTTACATTACTAATTTATTTTTTAATTTTTAGC
TATTTTTCTTATATATTTATAAAATAATAATTAATTAAAATTTTACATTAGCAACTTAATTATCT
ATGTTACAATAATATATTATTATGATTGTTCTTATCTTTAATTACATTTAGAATTGTCATAACTT
TTTTAGTGTATTACGACAATTCTTACCCATTTTATGCT
Found at i:10890941 original size:109 final size:110
Alignment explanation
Indices: 10890744--10890966 Score: 376
Period size: 109 Copynumber: 2.0 Consensus size: 110
10890734 TTTTGAAAAG
* * *
10890744 GGCTATTCTAAATAGAGGTTCAATTGATATTTTTGAAAATTTAAAAGGTTCCTCTTAACAGAGGC
1 GGCTATTCTAAACAGAGGTTCAATCGATATTTTTAAAAATTTAAAAGGTTCCTCTTAACAGAGGC
*
10890809 TCAACAACTGTAAAAATTTATCTTGAAAAAGCTCATCTCAGCAGA
66 TCAACAACTGTAAAAATTTATCTTGAAAAAGCTCATCTCAACAGA
10890854 GGCTA-TCTAAACAGAGGTTCAATCGATATTTTTAAAAATTTAAAAGGTTCCTCTTAACAGAGGC
1 GGCTATTCTAAACAGAGGTTCAATCGATATTTTTAAAAATTTAAAAGGTTCCTCTTAACAGAGGC
* * *
10890918 TTAACAACTGTAAAAATTTATCTTGAAAAAGCTCCTCTCAATAGA
66 TCAACAACTGTAAAAATTTATCTTGAAAAAGCTCATCTCAACAGA
10890963 GGCT
1 GGCT
10890967 CAACAACTTT
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
109 101 0.95
110 5 0.05
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.31
Consensus pattern (110 bp):
GGCTATTCTAAACAGAGGTTCAATCGATATTTTTAAAAATTTAAAAGGTTCCTCTTAACAGAGGC
TCAACAACTGTAAAAATTTATCTTGAAAAAGCTCATCTCAACAGA
Found at i:10890972 original size:48 final size:48
Alignment explanation
Indices: 10890902--10891272 Score: 385
Period size: 48 Copynumber: 7.7 Consensus size: 48
10890892 TTTAAAAGGT
* * *
10890902 TCCTCTTAACAGAGGCTTAACAACTGTAAAAATTTATCTTGAAAAAGC
1 TCCTCTCAACAGAGGCTCAACAACTTTAAAAATTTATCTTGAAAAAGC
* * * *
10890950 TCCTCTCAATAGAGGCTCAACAACTTTAAAAAATCATCTGGAAAAAGC
1 TCCTCTCAACAGAGGCTCAACAACTTTAAAAATTTATCTTGAAAAAGC
** * *
10890998 TCCTCTCAGTAGAAGCTCAACAACTTTAAAATTCTTATCTTAGAAAAAGC
1 TCCTCTCAACAGAGGCTCAACAACTTTAAAAAT-TTATCTT-GAAAAAGC
* *
10891048 TTCTCT-AAGCAGAGGCTTAACAACTTT-AAAA--T-TCTTGAAAAAGC
1 TCCTCTCAA-CAGAGGCTCAACAACTTTAAAAATTTATCTTGAAAAAGC
* * *
10891092 TCATCTCAATAGAGGCTCAACAACTTT-AAAATTCTCATCTTAGAAAAGGC
1 TCCTCTCAACAGAGGCTCAACAACTTTAAAAATT-T-ATCTT-GAAAAAGC
* *
10891142 TCCTCTAAACAGAGGCTTAACAACTTTAAAAATTTATCTTGAAAAAGC
1 TCCTCTCAACAGAGGCTCAACAACTTTAAAAATTTATCTTGAAAAAGC
* ** * * *
10891190 TCATCTCAGTAGAGGTTCAACAACTTTAAAAAATCTCATCTTAAAAAAGC
1 TCCTCTCAACAGAGGCTCAACAACTTT-AAAAAT-TTATCTTGAAAAAGC
* * *
10891240 TCATCTCAGCAAAGGCTCAACAACTTTAAAAAT
1 TCCTCTCAACAGAGGCTCAACAACTTTAAAAAT
10891273 CTCATATGTT
Statistics
Matches: 270, Mismatches: 40, Indels: 25
0.81 0.12 0.07
Matches are distributed among these distances:
44 32 0.12
45 6 0.02
46 1 0.00
47 1 0.00
48 98 0.36
49 30 0.11
50 96 0.36
51 6 0.02
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (48 bp):
TCCTCTCAACAGAGGCTCAACAACTTTAAAAATTTATCTTGAAAAAGC
Found at i:10891071 original size:50 final size:49
Alignment explanation
Indices: 10890911--10891274 Score: 324
Period size: 50 Copynumber: 7.5 Consensus size: 49
10890901 TTCCTCTTAA
* * *
10890911 CAGAGGCTTAACAACTGTAAAAAT-TTATCTTGAAAAAGCTCCTCTCAA-
1 CAGAGGCTCAACAACTTTAAAAATCTTATCTTGAAAAAGCTTCTCT-AAG
* * * *
10890959 TAGAGGCTCAACAACTTTAAAAAATC--ATCTGGAAAAAGCTCCTCTCAG
1 CAGAGGCTCAACAACTTT-AAAAATCTTATCTTGAAAAAGCTTCTCTAAG
* * *
10891007 TAGAAGCTCAACAACTTTAAAATTCTTATCTTAGAAAAAGCTTCTCTAAG
1 CAGAGGCTCAACAACTTTAAAAATCTTATCTT-GAAAAAGCTTCTCTAAG
*
10891057 CAGAGGCTTAACAACTTT-AAAA---T-TCTTGAAAAAGC-TCATCTCAA-
1 CAGAGGCTCAACAACTTTAAAAATCTTATCTTGAAAAAGCTTC-TCT-AAG
* * * * * *
10891101 TAGAGGCTCAACAACTTTAAAATTCTCATCTTAGAAAAGGCTCCTCTAAA
1 CAGAGGCTCAACAACTTTAAAAATCTTATCTT-GAAAAAGCTTCTCTAAG
* *
10891151 CAGAGGCTTAACAACTTTAAAAAT-TTATCTTGAAAAAGC-TCATCTCAG
1 CAGAGGCTCAACAACTTTAAAAATCTTATCTTGAAAAAGCTTC-TCTAAG
* * * * *
10891199 TAGAGGTTCAACAACTTTAAAAAATCTCATCTTAAAAAAGC-TCATCTCAG
1 CAGAGGCTCAACAACTTT-AAAAATCTTATCTTGAAAAAGCTTC-TCTAAG
*
10891249 CAAAGGCTCAACAACTTTAAAAATCT
1 CAGAGGCTCAACAACTTTAAAAATCT
10891275 CATATGTTTT
Statistics
Matches: 261, Mismatches: 36, Indels: 37
0.78 0.11 0.11
Matches are distributed among these distances:
43 2 0.01
44 27 0.10
45 9 0.03
46 1 0.00
47 8 0.03
48 76 0.29
49 39 0.15
50 98 0.38
51 1 0.00
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (49 bp):
CAGAGGCTCAACAACTTTAAAAATCTTATCTTGAAAAAGCTTCTCTAAG
Found at i:10891235 original size:15 final size:15
Alignment explanation
Indices: 10891215--10891245 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10891205 TTCAACAACT
*
10891215 TTAAAAAATCTCATC
1 TTAAAAAAGCTCATC
10891230 TTAAAAAAGCTCATC
1 TTAAAAAAGCTCATC
10891245 T
1 T
10891246 CAGCAAAGGC
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:0.45, C:0.19, G:0.03, T:0.32
Consensus pattern (15 bp):
TTAAAAAAGCTCATC
Found at i:10891272 original size:98 final size:98
Alignment explanation
Indices: 10890912--10891272 Score: 448
Period size: 98 Copynumber: 3.7 Consensus size: 98
10890902 TCCTCTTAAC
* * * * *
10890912 AGAGGCTTAACAACTGTAAAAAT-TTATCTT-GAAAAAGCTCCTCTCAATAGAGGCTCAACAACT
1 AGAGGCTCAACAACTTTAAAAATCTCATCTTAGAAAAAGCTCCTCTAAACAGAGGCTCAACAACT
* * * *
10890975 TTAAAAAATCATCTGGAAAAAGCTCCTCTCAGT
66 TTAAAAATTTATCTTGAAAAAGCTCATCTCAGT
* * * * * *
10891008 AGAAGCTCAACAACTTTAAAATTCTTATCTTAGAAAAAGCTTCTCTAAGCAGAGGCTTAACAACT
1 AGAGGCTCAACAACTTTAAAAATCTCATCTTAGAAAAAGCTCCTCTAAACAGAGGCTCAACAACT
*
10891073 TT-AAAA--T-TCTTGAAAAAGCTCATCTCAAT
66 TTAAAAATTTATCTTGAAAAAGCTCATCTCAGT
* * *
10891102 AGAGGCTCAACAACTTTAAAATTCTCATCTTAGAAAAGGCTCCTCTAAACAGAGGCTTAACAACT
1 AGAGGCTCAACAACTTTAAAAATCTCATCTTAGAAAAAGCTCCTCTAAACAGAGGCTCAACAACT
10891167 TTAAAAATTTATCTTGAAAAAGCTCATCTCAGT
66 TTAAAAATTTATCTTGAAAAAGCTCATCTCAGT
* * * * *
10891200 AGAGGTTCAACAACTTTAAAAAATCTCATCTTA-AAAAAGCTCATCTCAGCAAAGGCTCAACAAC
1 AGAGGCTCAACAACTTT-AAAAATCTCATCTTAGAAAAAGCTCCTCTAAACAGAGGCTCAACAAC
10891264 TTTAAAAAT
65 TTTAAAAAT
10891273 CTCATATGTT
Statistics
Matches: 231, Mismatches: 27, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
94 81 0.35
95 4 0.02
96 19 0.08
97 12 0.05
98 101 0.44
99 14 0.06
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (98 bp):
AGAGGCTCAACAACTTTAAAAATCTCATCTTAGAAAAAGCTCCTCTAAACAGAGGCTCAACAACT
TTAAAAATTTATCTTGAAAAAGCTCATCTCAGT
Found at i:10902264 original size:16 final size:16
Alignment explanation
Indices: 10902238--10902276 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
10902228 TGTGTGAACG
10902238 TTTTTTGTTTTTAATT
1 TTTTTTGTTTTTAATT
*
10902254 TATTTTT-TTTTTACTT
1 T-TTTTTGTTTTTAATT
10902270 TTTTTTG
1 TTTTTTG
10902277 GTTGAAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
15 5 0.25
16 10 0.50
17 5 0.25
ACGTcount: A:0.10, C:0.03, G:0.05, T:0.82
Consensus pattern (16 bp):
TTTTTTGTTTTTAATT
Found at i:10904487 original size:19 final size:17
Alignment explanation
Indices: 10904463--10904526 Score: 65
Period size: 19 Copynumber: 3.5 Consensus size: 17
10904453 ATAAGAGAAG
*
10904463 AAGAAAAAGAAGAAGGAAA
1 AAGAAAAA-AAGAA-AAAA
*
10904482 AAGAAAGAAAGAGACAAAA
1 AAGAAA-AAA-AGAAAAAA
10904501 AAGAAAAAAAGAAAAAGA
1 AAGAAAAAAAGAAAAA-A
10904519 AAGAAAAA
1 AAGAAAAA
10904527 TAATAATAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
17 6 0.15
18 12 0.31
19 16 0.41
20 5 0.13
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (17 bp):
AAGAAAAAAAGAAAAAA
Found at i:10904525 original size:23 final size:22
Alignment explanation
Indices: 10904463--10904526 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 22
10904453 ATAAGAGAAG
*
10904463 AAGAAAAAG-AAGAAGGAAAAAGA
1 AAGAAAAAGAAAGAA--AAAAAAA
*
10904486 AAGAAAGAGACAA-AAAAGAAAAA
1 AAGAAAAAGA-AAGAAAA-AAAAA
10904509 AAGAAAAAGAAAGAAAAA
1 AAGAAAAAGAAAGAAAAA
10904527 TAATAATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
22 5 0.15
23 25 0.74
24 2 0.06
25 2 0.06
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (22 bp):
AAGAAAAAGAAAGAAAAAAAAA
Found at i:10909530 original size:7 final size:7
Alignment explanation
Indices: 10909518--10909547 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
10909508 AAATAAATTT
10909518 ATTTTTA
1 ATTTTTA
10909525 ATTTTTA
1 ATTTTTA
10909532 ATTTATTA
1 ATTT-TTA
10909540 ATTTTTA
1 ATTTTTA
10909547 A
1 A
10909548 AATATTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (7 bp):
ATTTTTA
Found at i:10909542 original size:15 final size:14
Alignment explanation
Indices: 10909518--10909547 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
10909508 AAATAAATTT
10909518 ATTTTTAATTTTTA
1 ATTTTTAATTTTTA
10909532 ATTTATTAATTTTTA
1 ATTT-TTAATTTTTA
10909547 A
1 A
10909548 AATATTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTTTTAATTTTTA
Found at i:10910557 original size:17 final size:17
Alignment explanation
Indices: 10910535--10910568 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10910525 GCAATTATTA
*
10910535 TGGCAAGTACATATACT
1 TGGCAACTACATATACT
*
10910552 TGGCAACTACATGTACT
1 TGGCAACTACATATACT
10910569 ATCATCTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (17 bp):
TGGCAACTACATATACT
Found at i:10912321 original size:53 final size:53
Alignment explanation
Indices: 10912205--10912475 Score: 226
Period size: 52 Copynumber: 5.1 Consensus size: 53
10912195 AGTGAAGGGT
* * * ** *
10912205 TTTTTTATTGAAAAAAAATAACAAAAACTACATTTTTGAAAGTAGAAATGTAA
1 TTTTTGATTGAAAAAAAATTACAAAAATTACATTTTTGAAAGTAGAAACATAG
* * * *
10912258 TCTTTGATTGAAAAAAAATTACAAAGATTACATTTTTGCAAGTAGAAGCATAG
1 TTTTTGATTGAAAAAAAATTACAAAAATTACATTTTTGAAAGTAGAAACATAG
* * ** * * *
10912311 TTTTTTATTG-AAAAAAATTACAAAAAGTATGTTTTTGAAAATTGATACATAG
1 TTTTTGATTGAAAAAAAATTACAAAAATTACATTTTTGAAAGTAGAAACATAG
* * * * * * *
10912363 TTTTTGATTGAAAAAAAAAATTAGAAAGATTATA-TTTTGATATGCAAAAATATAG
1 TTTTTGATTG--AAAAAAAATTACAAAAATTACATTTTTGA-AAGTAGAAACATAG
* * *
10912418 TTTTTGATTG-AAAAAAATTACAAAAATTACGTTTCTT-AAAGTATAAACGTAG
1 TTTTTGATTGAAAAAAAATTACAAAAATTACATTT-TTGAAAGTAGAAACATAG
10912470 TGTTTT
1 T-TTTT
10912476 TTATATCTTC
Statistics
Matches: 169, Mismatches: 42, Indels: 14
0.75 0.19 0.06
Matches are distributed among these distances:
52 69 0.41
53 58 0.34
54 8 0.05
55 34 0.20
ACGTcount: A:0.45, C:0.06, G:0.12, T:0.37
Consensus pattern (53 bp):
TTTTTGATTGAAAAAAAATTACAAAAATTACATTTTTGAAAGTAGAAACATAG
Found at i:10916018 original size:16 final size:17
Alignment explanation
Indices: 10915984--10916021 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
10915974 TTTATTTTTA
*
10915984 TTTT-TTTTCTTTATTT
1 TTTTGTTTTCTTTATGT
10916000 TTTTGTTTTCTTT-TGT
1 TTTTGTTTTCTTTATGT
10916016 TTTTGT
1 TTTTGT
10916022 CCTTTTTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.03, C:0.05, G:0.08, T:0.84
Consensus pattern (17 bp):
TTTTGTTTTCTTTATGT
Found at i:10916113 original size:22 final size:21
Alignment explanation
Indices: 10916082--10916172 Score: 73
Period size: 23 Copynumber: 4.3 Consensus size: 21
10916072 AATTGTTCAG
10916082 TAAAAAT-AAAAATCAATAAAA
1 TAAAAATAAAAAATCAA-AAAA
*
10916103 TAAATAATAAAAAATCTAAAAA
1 TAAA-AATAAAAAATCAAAAAA
* * *
10916125 TAAAATTTTAAAAAATTAAAATA
1 TAAAA--ATAAAAAATCAAAAAA
10916148 T-AAAATAAATAAA--AAAAAA
1 TAAAAATAAA-AAATCAAAAAA
10916167 TAAAAA
1 TAAAAA
10916173 AAACCTACGA
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
19 6 0.11
20 8 0.14
21 8 0.14
22 14 0.25
23 21 0.37
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAAAATAAAAAATCAAAAAA
Found at i:10916126 original size:27 final size:26
Alignment explanation
Indices: 10916096--10916173 Score: 83
Period size: 27 Copynumber: 3.1 Consensus size: 26
10916086 AATAAAAATC
10916096 AATAAAATAAATAATAAAAAATCTAAA
1 AATAAAATAAATAATAAAAAAT-TAAA
*
10916123 AATAAAAT---T-TTAAAAAATTAAA
1 AATAAAATAAATAATAAAAAATTAAA
* *
10916145 ATATAAAATAAATAAAAAAAAATAAAA
1 A-ATAAAATAAATAATAAAAAATTAAA
10916172 AA
1 AA
10916174 AACCTACGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
22 5 0.12
23 15 0.36
24 1 0.02
26 2 0.05
27 19 0.45
ACGTcount: A:0.76, C:0.01, G:0.00, T:0.23
Consensus pattern (26 bp):
AATAAAATAAATAATAAAAAATTAAA
Found at i:10916130 original size:23 final size:23
Alignment explanation
Indices: 10916089--10916163 Score: 82
Period size: 23 Copynumber: 3.2 Consensus size: 23
10916079 CAGTAAAAAT
*
10916089 AAAAATCAATAAAAT-AAATAATA
1 AAAAATCTA-AAAATAAAATAATA
**
10916112 AAAAATCTAAAAATAAAATTTTA
1 AAAAATCTAAAAATAAAATAATA
10916135 AAAAAT-TAAAATATAAAATAAATA
1 AAAAATCTAAAA-ATAAAAT-AATA
10916159 AAAAA
1 AAAAA
10916164 AAATAAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
22 10 0.23
23 27 0.61
24 7 0.16
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (23 bp):
AAAAATCTAAAAATAAAATAATA
Found at i:10916982 original size:3 final size:3
Alignment explanation
Indices: 10916976--10917108 Score: 159
Period size: 3 Copynumber: 45.7 Consensus size: 3
10916966 AGAATGAAAG
*
10916976 AAT AAT AAT AAT AAT AAT AAT AAT ATAT AAT AAT AAT AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
* * * *
10917022 AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT -TT AAT -AT ATT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
10917068 -AT AAT AAT AAT AAT -AT AAT -AC AAT AAT AAT GAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10917109 AAAATAGATT
Statistics
Matches: 111, Mismatches: 13, Indels: 12
0.82 0.10 0.09
Matches are distributed among these distances:
2 8 0.07
3 100 0.90
4 3 0.03
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:10917738 original size:52 final size:53
Alignment explanation
Indices: 10917607--10917755 Score: 151
Period size: 52 Copynumber: 2.8 Consensus size: 53
10917597 TCATCACCGT
* *
10917607 GATGATACCACAAGTCTAGAAAATGATCTGGACTAAGCCAAAATTGGATGACCAA
1 GATGATACCACAAGT-TGGAAAATGATCTAGACTAAGCCAAAATTGGA-GACCAA
* * * * * *
10917662 GATGAAACCACAAGTTAAGAAAAATGATCTAGA-TTAGCCAATATT-GA-ATCAG
1 GATGATACCACAAGTT--GGAAAATGATCTAGACTAAGCCAAAATTGGAGACCAA
10917714 GATGATACCACAAGTATGGGAAAATGATCTAGACTAAGCCAA
1 GATGATACCACAAGT-T-GGAAAATGATCTAGACTAAGCCAA
10917756 GATCGAATGA
Statistics
Matches: 78, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
52 31 0.40
53 8 0.10
54 3 0.04
55 24 0.31
56 12 0.15
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.21
Consensus pattern (53 bp):
GATGATACCACAAGTTGGAAAATGATCTAGACTAAGCCAAAATTGGAGACCAA
Found at i:10919006 original size:13 final size:14
Alignment explanation
Indices: 10918988--10919027 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
10918978 TCTTTCATTA
10918988 TTTTTTTCTTTTCT
1 TTTTTTTCTTTTCT
*
10919002 TTTTTTTCTTAT-T
1 TTTTTTTCTTTTCT
10919015 TTTTTTTCTTTTC
1 TTTTTTTCTTTTC
10919028 ATCATTCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTTTCTTTTCT
Found at i:10922750 original size:28 final size:29
Alignment explanation
Indices: 10922718--10922773 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
10922708 ACAGTAGGAT
*
10922718 GTTTG-AAAATTTTGT-TTTTTCTTTTTTG
1 GTTTGTAAAAGTTTGTCTTTTT-TTTTTTG
*
10922746 GTTTGTCAAAGTTTGTCTTTTTTTTTTT
1 GTTTGTAAAAGTTTGTCTTTTTTTTTTT
10922774 CAAAGCTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 5 0.21
29 14 0.58
30 5 0.21
ACGTcount: A:0.12, C:0.05, G:0.14, T:0.68
Consensus pattern (29 bp):
GTTTGTAAAAGTTTGTCTTTTTTTTTTTG
Found at i:10925034 original size:25 final size:25
Alignment explanation
Indices: 10924985--10925037 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
10924975 ATAGATTTGG
* ***
10924985 TATCTTTGTATTCTTTTTTGTTTAT
1 TATCTTTGCATTCTTTTTCACTTAT
10925010 TATCTTTGCATTCTTTTTCACTTAT
1 TATCTTTGCATTCTTTTTCACTTAT
10925035 TAT
1 TAT
10925038 ATTTTTAGGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.15, C:0.13, G:0.06, T:0.66
Consensus pattern (25 bp):
TATCTTTGCATTCTTTTTCACTTAT
Found at i:10927330 original size:151 final size:153
Alignment explanation
Indices: 10927113--10927407 Score: 441
Period size: 151 Copynumber: 1.9 Consensus size: 153
10927103 AACCCATGCT
* * * *
10927113 TGTAAAAGACAAAAAGGTGTCTTTATTGGGCATTCATTATGCCCCACCTAATCATAACCGAATCA
1 TGTAAAAGACAAAAAGGTGTCTTTATTAGGAATTCATCATGCCCCACCTAATCATAACCAAATCA
* * *
10927178 AGCATCAATCTTAGATGTTTTTAAAGAGGAATGATCCAAGATAATTGCCCTAGATATGCATGCTT
66 AGCATCAATCTGAGATGTTTTCAAAGAGGAATGAACCAAGATAATTGCCCTAGATATGCATGCTT
*
10927243 AAGATTGGTGTGTTATATGTGCC
131 AAGATCGGTGTGTTATATGTGCC
* *
10927266 TGTAAAAGAC-AAAATGTGTCTTTATTAGGAATTTATCATG-CCCACCTAATCATAACCAAATCA
1 TGTAAAAGACAAAAAGGTGTCTTTATTAGGAATTCATCATGCCCCACCTAATCATAACCAAATCA
* * *
10927329 AGCATCACTCTGAGATGTTTTCAAAGAGGAATGAACCAAGATAATTGCCTTGGATATGCATGCTT
66 AGCATCAATCTGAGATGTTTTCAAAGAGGAATGAACCAAGATAATTGCCCTAGATATGCATGCTT
* *
10927394 GAGATCGGTTTGTT
131 AAGATCGGTGTGTT
10927408 GTACATATGC
Statistics
Matches: 127, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
151 92 0.72
152 25 0.20
153 10 0.08
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (153 bp):
TGTAAAAGACAAAAAGGTGTCTTTATTAGGAATTCATCATGCCCCACCTAATCATAACCAAATCA
AGCATCAATCTGAGATGTTTTCAAAGAGGAATGAACCAAGATAATTGCCCTAGATATGCATGCTT
AAGATCGGTGTGTTATATGTGCC
Found at i:10928579 original size:8 final size:8
Alignment explanation
Indices: 10928568--10928606 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
10928558 CTCTTTTTTT
10928568 TTTTTTAC
1 TTTTTTAC
10928576 TTTTTTAC
1 TTTTTTAC
* *
10928584 TTTTTAAT
1 TTTTTTAC
*
10928592 TTTTTTAA
1 TTTTTTAC
10928600 TTTTTTA
1 TTTTTTA
10928607 ATATTTCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTTAC
Found at i:10928607 original size:17 final size:17
Alignment explanation
Indices: 10928584--10928640 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
10928574 ACTTTTTTAC
* **
10928584 TTTTTAATTTTTTTAAT
1 TTTTTAATATTTCAAAT
10928601 TTTTTAATATTTCAAATTT
1 TTTTTAATATTTCAAA--T
*
10928620 TTTTTAAGATTT-AAAT
1 TTTTTAATATTTCAAAT
10928636 TTTTT
1 TTTTT
10928641 TAGGTAGAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
16 6 0.18
17 13 0.38
18 3 0.09
19 12 0.35
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (17 bp):
TTTTTAATATTTCAAAT
Found at i:10928635 original size:18 final size:19
Alignment explanation
Indices: 10928600--10928641 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
10928590 ATTTTTTTAA
*
10928600 TTTTTTAATATTTCAAATT
1 TTTTTTAAGATTTCAAATT
10928619 TTTTTTAAGATTT-AAATT
1 TTTTTTAAGATTTCAAATT
10928637 TTTTT
1 TTTTT
10928642 AGGTAGAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTTTAAGATTTCAAATT
Found at i:10929652 original size:16 final size:16
Alignment explanation
Indices: 10929626--10929675 Score: 61
Period size: 13 Copynumber: 3.2 Consensus size: 16
10929616 TATATATGTT
10929626 TTATATTAATAAAAATA
1 TTAT-TTAATAAAAATA
10929643 TTATTTAAT--AAAT-
1 TTATTTAATAAAAATA
*
10929656 TAATTTAATAAAAATA
1 TTATTTAATAAAAATA
10929672 TTAT
1 TTAT
10929676 ATTTATACAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
13 8 0.29
14 4 0.14
15 4 0.14
16 8 0.29
17 4 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TTATTTAATAAAAATA
Found at i:10929782 original size:17 final size:17
Alignment explanation
Indices: 10929760--10929794 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10929750 GGTCTCAATG
10929760 TGCTATCTTATTTTTTT
1 TGCTATCTTATTTTTTT
* *
10929777 TGCTATTTTGTTTTTTT
1 TGCTATCTTATTTTTTT
10929794 T
1 T
10929795 TTTAATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.09, G:0.09, T:0.74
Consensus pattern (17 bp):
TGCTATCTTATTTTTTT
Found at i:10930037 original size:8 final size:7
Alignment explanation
Indices: 10929998--10930045 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
10929988 CCAATGAGCT
10929998 TTTTTTA
1 TTTTTTA
10930005 TTTTTTA
1 TTTTTTA
10930012 -TTTTTA
1 TTTTTTA
**
10930018 TTTTTCC
1 TTTTTTA
10930025 TTTTTTA
1 TTTTTTA
10930032 TGTTTTTA
1 T-TTTTTA
*
10930040 TCTTTT
1 TTTTTT
10930046 GTTAGCCTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
6 6 0.18
7 21 0.62
8 7 0.21
ACGTcount: A:0.10, C:0.06, G:0.02, T:0.81
Consensus pattern (7 bp):
TTTTTTA
Found at i:10930054 original size:28 final size:27
Alignment explanation
Indices: 10929998--10930054 Score: 62
Period size: 28 Copynumber: 2.1 Consensus size: 27
10929988 CCAATGAGCT
* **
10929998 TTTTTTATTTTTTATTTTTATTTTTCC
1 TTTTTTATTTTTTATTTTTAGTTAGCC
10930025 TTTTTTATGTTTTTATCTTTT-GTTAGCC
1 TTTTTTAT-TTTTTAT-TTTTAGTTAGCC
10930053 TT
1 TT
10930055 GAATTGATCT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
27 8 0.32
28 13 0.52
29 4 0.16
ACGTcount: A:0.11, C:0.09, G:0.05, T:0.75
Consensus pattern (27 bp):
TTTTTTATTTTTTATTTTTAGTTAGCC
Found at i:10934427 original size:33 final size:31
Alignment explanation
Indices: 10934390--10934468 Score: 88
Period size: 33 Copynumber: 2.5 Consensus size: 31
10934380 TTAATTTATA
10934390 TTATATAAATATTATTAAAATATTAAAATATTT
1 TTATATAAATATTA-TAAAATATT-AAATATTT
* * *
10934423 TTATATTAATACTTATAATATCTTAAATATTT
1 TTATATAAATA-TTATAAAATATTAAATATTT
10934455 TTATATTAAA-ATTA
1 TTATA-TAAATATTA
10934469 AATAAAAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
31 3 0.08
32 14 0.35
33 20 0.50
34 3 0.08
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.51
Consensus pattern (31 bp):
TTATATAAATATTATAAAATATTAAATATTT
Found at i:10939828 original size:95 final size:95
Alignment explanation
Indices: 10939665--10939856 Score: 357
Period size: 95 Copynumber: 2.0 Consensus size: 95
10939655 CAGAAAGTTT
* *
10939665 GGAGATTTCTGTTGCATACATTTTCAATTAGCATAGTTGTTTGTATGCTACATTTGGCTTCTATC
1 GGAGATTTCTGTTGCATACATTTTCAATTAGCATAGTTGTTTATATGCGACATTTGGCTTCTATC
10939730 TCATTTATTTTGGATCCACTATTAAATAAG
66 TCATTTATTTTGGATCCACTATTAAATAAG
*
10939760 GGAGATTTCTGTTGCATACATTTTCAATTAGCATAGTTGTTTATATGCGACATTTGGCTTCTTTC
1 GGAGATTTCTGTTGCATACATTTTCAATTAGCATAGTTGTTTATATGCGACATTTGGCTTCTATC
10939825 TCATTTATTTTGGATCCACTATTAAATAAG
66 TCATTTATTTTGGATCCACTATTAAATAAG
10939855 GG
1 GG
10939857 CTGTATGACA
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.44
Consensus pattern (95 bp):
GGAGATTTCTGTTGCATACATTTTCAATTAGCATAGTTGTTTATATGCGACATTTGGCTTCTATC
TCATTTATTTTGGATCCACTATTAAATAAG
Found at i:10942580 original size:16 final size:16
Alignment explanation
Indices: 10942559--10942592 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
10942549 TATCCCATTT
10942559 TGCAATATATATTTAA
1 TGCAATATATATTTAA
10942575 TGCAATATATATTTAA
1 TGCAATATATATTTAA
10942591 TG
1 TG
10942593 GTTGAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (16 bp):
TGCAATATATATTTAA
Found at i:10942938 original size:2 final size:2
Alignment explanation
Indices: 10942931--10942972 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
10942921 TATAATGGCT
* *
10942931 TA TA TA TA CA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10942973 AACAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:10944766 original size:41 final size:41
Alignment explanation
Indices: 10944707--10944803 Score: 108
Period size: 41 Copynumber: 2.4 Consensus size: 41
10944697 AGGATGTTTA
* ** **
10944707 GGTTTAAGATTGTGATTTAGACAGAAGTGACTGTGA-TTTGG
1 GGTTTAGGATTGCAATTTAGACAGAAACGACTGT-ACTTTGG
*
10944748 GGTTTAGGATTGCAATTTAGAGAGAAACGACTGTACTTTGG
1 GGTTTAGGATTGCAATTTAGACAGAAACGACTGTACTTTGG
10944789 GGTTTAAGG-TTGCAA
1 GGTTT-AGGATTGCAA
10944804 AAGTTATGAT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
40 1 0.02
41 44 0.92
42 3 0.06
ACGTcount: A:0.28, C:0.07, G:0.31, T:0.34
Consensus pattern (41 bp):
GGTTTAGGATTGCAATTTAGACAGAAACGACTGTACTTTGG
Found at i:10949375 original size:25 final size:25
Alignment explanation
Indices: 10949325--10949376 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 25
10949315 TACTAGTTTA
* *
10949325 TTGGTTTGTTAATTATTTGTTTATG
1 TTGGTTTGTTAATGATTTGTTCATG
*
10949350 TTGGTATTGTTACTGATTTG-TCATG
1 TTGGT-TTGTTAATGATTTGTTCATG
10949375 TT
1 TT
10949377 ATTGATTTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.15, C:0.04, G:0.21, T:0.60
Consensus pattern (25 bp):
TTGGTTTGTTAATGATTTGTTCATG
Found at i:10951053 original size:57 final size:57
Alignment explanation
Indices: 10950990--10951104 Score: 212
Period size: 57 Copynumber: 2.0 Consensus size: 57
10950980 TCACTACATT
10950990 ATTTAAACTCACAAGTTAAATTTATATTCTAAAGAAAAGAAAATTATTAGAATTGTA
1 ATTTAAACTCACAAGTTAAATTTATATTCTAAAGAAAAGAAAATTATTAGAATTGTA
* *
10951047 ATTTAAACTCACAAGTTAAATTTATATTCTAAATAAAAGGAAATTATTAGAATTGTA
1 ATTTAAACTCACAAGTTAAATTTATATTCTAAAGAAAAGAAAATTATTAGAATTGTA
10951104 A
1 A
10951105 AGTTAAAAGG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.36
Consensus pattern (57 bp):
ATTTAAACTCACAAGTTAAATTTATATTCTAAAGAAAAGAAAATTATTAGAATTGTA
Found at i:10951554 original size:15 final size:15
Alignment explanation
Indices: 10951527--10951560 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
10951517 AGCATTATAT
10951527 AAAATTTTAGAAAAGA
1 AAAATTTTAGAAAA-A
10951543 AAAATTTT-GAAAAA
1 AAAATTTTAGAAAAA
10951557 AAAA
1 AAAA
10951561 AGATAAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.28
15 5 0.28
16 8 0.44
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.24
Consensus pattern (15 bp):
AAAATTTTAGAAAAA
Found at i:10951561 original size:16 final size:16
Alignment explanation
Indices: 10951527--10951561 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
10951517 AGCATTATAT
*
10951527 AAAATTTTAGAAAAGA
1 AAAATTTTAGAAAAAA
10951543 AAAATTTT-GAAAAAA
1 AAAATTTTAGAAAAAA
10951558 AAAA
1 AAAA
10951562 GATAAATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.23
Consensus pattern (16 bp):
AAAATTTTAGAAAAAA
Found at i:10951852 original size:15 final size:14
Alignment explanation
Indices: 10951828--10951861 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
10951818 AGCATTATAT
10951828 AAAATTTTGAAAAC
1 AAAATTTTGAAAAC
10951842 AAAACTTTTGAAAAC
1 AAAA-TTTTGAAAAC
*
10951857 TAAAT
1 AAAAT
10951862 AAAAGATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.56, C:0.09, G:0.06, T:0.29
Consensus pattern (14 bp):
AAAATTTTGAAAAC
Found at i:10952025 original size:304 final size:301
Alignment explanation
Indices: 10951472--10952071 Score: 880
Period size: 304 Copynumber: 2.0 Consensus size: 301
10951462 TGGCATTATT
* * *
10951472 ATGATGCCACATGTCATCTATTATGCCACATGGTATTATTGATGTAGCATTATATAAAATTTTAG
1 ATGATGCCACATGTCATCTATTATGCAACATGGCATTATTGACGTAGCATTATATAAAATTTTAG
* * **
10951537 AAAAGAAAAATTTTGAAAAAAAAAAGATAAATATATTTTTAGTTACTTAACTATTTGAGAGTTTA
66 AAAACAAAAATTTTGAAAAAAAAAAGATAAATATACTTTTAGTTACTTAACTAAATGAGAGTTTA
* * * * * *
10951602 TATTTTGGCCATTTACATTTGAAAGTTTTACAATTTGGGCACTATATTTTGTGAAATTTATTAAT
131 TATTTTGACCATTCACATTAGAAAATTTTACAATTTGAGCACCATATTTTGTGAAATTTATTAAT
*
10951667 ATTTTGATCTCCATTATTAACATTTCACTATAGATATGGCTTTATAATGATTTAA-TCATCAACA
196 ATTTTGATCTCCATTATTAACATTTCACTATAGATATGGCTTGATAATGATTTAACT-ATCAACA
*
10951731 TTTTTTAAATTTAATGTAGTAAATTATTTTATTATTCATATC
260 TTTTTGAAATTTAATGTAGTAAATTATTTTATTATTCATATC
* *
10951773 ATGATGTCACATGTCATTTATTATGCAACATGGCATTATTGACGTAGCATTATATAAAATTTT-G
1 ATGATGCCACATGTCATCTATTATGCAACATGGCATTATTGACGTAGCATTATATAAAATTTTAG
* * *
10951837 AAAACAAAACTTTTGAAAACTAAATAAAAGATAATTATACTTTTAGTTACTTAACTAAATGATAG
66 AAAACAAAAATTTTG-AAA--AAA-AAAAGATAAATATACTTTTAGTTACTTAACTAAATGAGAG
* *
10951902 TTTATATTTTGATCATTCACATTAGAAAATTTTACAATTTGATCACCATATTTTGTGAAATTTAT
127 TTTATATTTTGACCATTCACATTAGAAAATTTTACAATTTGAGCACCATATTTTGTGAAATTTAT
* * * * * *
10951967 TAATATTTTGGTCTTCATTGTTAACTTTTCACTATGGATGTGGCTTGATAATGATTTAACTATCA
192 TAATATTTTGATCTCCATTATTAACATTTCACTATAGATATGGCTTGATAATGATTTAACTATCA
*
10952032 ACGTTTTTGAAATTTAATGTAGTAAATTATTTTATTATTC
257 ACATTTTTGAAATTTAATGTAGTAAATTATTTTATTATTC
10952072 GTATTATCTA
Statistics
Matches: 265, Mismatches: 29, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
300 14 0.05
301 61 0.23
303 3 0.01
304 186 0.70
305 1 0.00
ACGTcount: A:0.36, C:0.10, G:0.11, T:0.43
Consensus pattern (301 bp):
ATGATGCCACATGTCATCTATTATGCAACATGGCATTATTGACGTAGCATTATATAAAATTTTAG
AAAACAAAAATTTTGAAAAAAAAAAGATAAATATACTTTTAGTTACTTAACTAAATGAGAGTTTA
TATTTTGACCATTCACATTAGAAAATTTTACAATTTGAGCACCATATTTTGTGAAATTTATTAAT
ATTTTGATCTCCATTATTAACATTTCACTATAGATATGGCTTGATAATGATTTAACTATCAACAT
TTTTGAAATTTAATGTAGTAAATTATTTTATTATTCATATC
Found at i:10953415 original size:35 final size:34
Alignment explanation
Indices: 10953350--10953416 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 34
10953340 TTAAAAGAAC
* * *
10953350 AAACAAAATTATGTTAGTTGAGTTATTATGGAAT
1 AAACAAAAATATGTTAGTTGAATTACTATGGAAT
10953384 AAACAAAAATATG-TAGCTTGGAATTACTATGGA
1 AAACAAAAATATGTTAG-TT-GAATTACTATGGA
10953417 CACAAATTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 3 0.11
34 14 0.50
35 11 0.39
ACGTcount: A:0.43, C:0.06, G:0.18, T:0.33
Consensus pattern (34 bp):
AAACAAAAATATGTTAGTTGAATTACTATGGAAT
Found at i:10957922 original size:35 final size:35
Alignment explanation
Indices: 10957858--10957937 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 35
10957848 ATGAGAACCT
* *
10957858 TATAAGTTTTTTTGTGTCCTTAATAATTCCTAGCAA-
1 TATAA-TTTTTTTGTGTCCATAATAATTCC-AACAAG
10957894 TATAATTTTCTTTGT-TCCATAATAATTCCAACAAG
1 TATAATTTT-TTTGTGTCCATAATAATTCCAACAAG
10957929 TATAATTTT
1 TATAATTTT
10957938 GTTTAATCTT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
34 4 0.10
35 26 0.65
36 10 0.25
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.47
Consensus pattern (35 bp):
TATAATTTTTTTGTGTCCATAATAATTCCAACAAG
Found at i:10960257 original size:14 final size:14
Alignment explanation
Indices: 10960230--10960266 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
10960220 AAACAACCAT
10960230 TTAAAATAATAAATA
1 TTAAAAT-ATAAATA
10960245 TTAAAATATAAATA
1 TTAAAATATAAATA
*
10960259 TAAAAATA
1 TTAAAATA
10960267 ATATATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
TTAAAATATAAATA
Found at i:10960272 original size:13 final size:13
Alignment explanation
Indices: 10960241--10960277 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
10960231 TAAAATAATA
10960241 AATAT-TAAAATAT
1 AATATATAAAA-AT
10960254 AA-ATATAAAAAT
1 AATATATAAAAAT
10960266 AATATATAAAAA
1 AATATATAAAAA
10960278 AACAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 6 0.27
13 16 0.73
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
AATATATAAAAAT
Found at i:10960277 original size:14 final size:13
Alignment explanation
Indices: 10960231--10960278 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
10960221 AACAACCATT
10960231 TAAAATAATAAATA
1 TAAAA-AATAAATA
*
10960245 TTAAAATATAAATA
1 -TAAAAAATAAATA
10960259 T-AAAAATAATATA
1 TAAAAAATAA-ATA
10960272 TAAAAAA
1 TAAAAAA
10960279 ACAAAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 7 0.24
13 5 0.17
14 12 0.41
15 5 0.17
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
TAAAAAATAAATA
Found at i:10962128 original size:18 final size:18
Alignment explanation
Indices: 10962073--10962163 Score: 71
Period size: 18 Copynumber: 5.1 Consensus size: 18
10962063 ATTCATAAGG
*
10962073 ATTTCCAAATTCGCAAG-
1 ATTTTCAAATTCGCAAGA
**
10962090 A-TTTCGAAGATTCATAA-A
1 ATTTTC-AA-ATTCGCAAGA
*
10962108 ATTTTCAAATTTGCAAGA
1 ATTTTCAAATTCGCAAGA
**
10962126 ATTTTCAGGTTCGCAAGA
1 ATTTTCAAATTCGCAAGA
* *
10962144 ATTTTCATATTCGCTAGA
1 ATTTTCAAATTCGCAAGA
10962162 AT
1 AT
10962164 GGAAGTTTTG
Statistics
Matches: 57, Mismatches: 12, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
16 3 0.05
17 8 0.14
18 42 0.74
19 4 0.07
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.36
Consensus pattern (18 bp):
ATTTTCAAATTCGCAAGA
Found at i:10962221 original size:24 final size:23
Alignment explanation
Indices: 10962194--10962266 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 23
10962184 GATTTGTAAG
10962194 AATTTCAAGTTCACAAGAATTCAA
1 AATTTCAAGTTCA-AAGAATTCAA
*
10962218 AATTACAAGAATTCAAA-AATTCAAA
1 AATTTCAAG--TTCAAAGAATTC-AA
*
10962243 AATTTTCAAATTCATAAGAATTCA
1 AA-TTTCAAGTTCA-AAGAATTCA
10962267 GATTCGCAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
24 17 0.43
25 9 0.22
26 14 0.35
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.30
Consensus pattern (23 bp):
AATTTCAAGTTCAAAGAATTCAA
Found at i:10962266 original size:16 final size:16
Alignment explanation
Indices: 10962191--10962277 Score: 63
Period size: 16 Copynumber: 5.2 Consensus size: 16
10962181 TCAGATTTGT
*
10962191 AAGAATTTCAAGTTCAC
1 AAGAA-TTCAAATTCAC
10962208 AAGAATTCAAAATT-AC
1 AAGAATTC-AAATTCAC
10962224 AAGAATTCAAAAATTCA-
1 AAGAATTC--AAATTCAC
*
10962241 AA-AATTTTCAAATTCAT
1 AAGAA--TTCAAATTCAC
* *
10962258 AAGAATTCAGATTCGC
1 AAGAATTCAAATTCAC
10962274 AAGA
1 AAGA
10962278 GTTTTAGATT
Statistics
Matches: 59, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
16 34 0.58
17 19 0.32
18 6 0.10
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.28
Consensus pattern (16 bp):
AAGAATTCAAATTCAC
Found at i:10964271 original size:6 final size:6
Alignment explanation
Indices: 10964260--10964328 Score: 70
Period size: 6 Copynumber: 11.5 Consensus size: 6
10964250 ACCTCATCAA
* * * *
10964260 TTTCTT TTTCTT TCTTCTT TTT-TC ATTCTT TCTCTT TTTTTT TTATCTT
1 TTTCTT TTTCTT T-TTCTT TTTCTT TTTCTT TTTCTT TTTCTT TT-TCTT
10964309 TTTCTT TTTCTT TTT-TT TTT
1 TTTCTT TTTCTT TTTCTT TTT
10964329 TTGCACTTCT
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
5 8 0.15
6 33 0.63
7 11 0.21
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTCTT
Found at i:10964281 original size:14 final size:14
Alignment explanation
Indices: 10964262--10964329 Score: 72
Period size: 13 Copynumber: 4.9 Consensus size: 14
10964252 CTCATCAATT
10964262 TCTTTTTCTTTCTTC
1 TCTTTTTCTTT-TTC
10964277 T-TTTTTCATTCTTTC
1 TCTTTTTC-TT-TTTC
*
10964292 TCTTTTT-TTTTTA
1 TCTTTTTCTTTTTC
10964305 TCTTTTTCTTTTTC
1 TCTTTTTCTTTTTC
10964319 T-TTTTT-TTTTT
1 TCTTTTTCTTTTT
10964330 TGCACTTCTC
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
12 5 0.11
13 15 0.32
14 14 0.30
15 7 0.15
16 6 0.13
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (14 bp):
TCTTTTTCTTTTTC
Found at i:10964308 original size:19 final size:20
Alignment explanation
Indices: 10964272--10964323 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
10964262 TCTTTTTCTT
* *
10964272 TCTTCTTTTTTCATTCTTTC
1 TCTTTTTTTTTTATTCTTTC
*
10964292 TCTTTTTTTTTTA-TCTTTT
1 TCTTTTTTTTTTATTCTTTC
10964311 TCTTTTTCTTTTT
1 TCTTTTT-TTTTT
10964324 TTTTTTTGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (20 bp):
TCTTTTTTTTTTATTCTTTC
Found at i:10966517 original size:6 final size:6
Alignment explanation
Indices: 10966506--10966599 Score: 82
Period size: 6 Copynumber: 15.0 Consensus size: 6
10966496 GCCCAATTGA
* **
10966506 TTTTAT TTTTAT TTTTAT TTTTAT TATTTGT CTATTTAT TAATAT TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT T-TTTAT -T-TTTAT TTTTAT TTTTAT
* **
10966557 TTTTAT TTTTAT TTTT-T TATCTAT TAATAT TTTTAT TATTTAT
1 TTTTAT TTTTAT TTTTAT T-TTTAT TTTTAT TTTTAT T-TTTAT
10966600 CTGCTTTTAT
Statistics
Matches: 72, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
5 2 0.03
6 52 0.72
7 12 0.17
8 6 0.08
ACGTcount: A:0.22, C:0.02, G:0.01, T:0.74
Consensus pattern (6 bp):
TTTTAT
Found at i:10966552 original size:33 final size:35
Alignment explanation
Indices: 10966515--10966666 Score: 143
Period size: 33 Copynumber: 4.3 Consensus size: 35
10966505 ATTTTATTTT
* *
10966515 TATTTTTATT-TTTAT-TATTTGTCTATTTATTAA
1 TATTTTTATTATTTATCTATTTTTTTATTTATTAA
* *
10966548 TATTTTTATT-TTTATTTTTATTTTTTTATCTATTAA
1 TATTTTTATTATTTA--TCTATTTTTTTATTTATTAA
** *
10966584 TATTTTTATTATTTATC--TGCTTTTATTTATTAT
1 TATTTTTATTATTTATCTATTTTTTTATTTATTAA
*
10966617 TATTATTATTATTTATCTATTTCTTTTATTTATCTAA
1 TATTTTTATTATTTATCTATTT-TTTTATTTAT-TAA
*
10966654 TTATTTTTTTTAT
1 -TATTTTTATTAT
10966667 CTATTAATAT
Statistics
Matches: 96, Mismatches: 14, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
33 42 0.44
35 3 0.03
36 35 0.36
37 6 0.06
38 10 0.10
ACGTcount: A:0.23, C:0.05, G:0.01, T:0.71
Consensus pattern (35 bp):
TATTTTTATTATTTATCTATTTTTTTATTTATTAA
Found at i:10966563 original size:39 final size:36
Alignment explanation
Indices: 10966509--10966599 Score: 137
Period size: 39 Copynumber: 2.4 Consensus size: 36
10966499 CAATTGATTT
*
10966509 TATTTTTATTTTTATTTTTATTATTTGTCTATTTATTAA
1 TATTTTTATTTTTATTTTTATT-TTT-T-TATCTATTAA
10966548 TATTTTTATTTTTATTTTTATTTTTTTATCTATTAA
1 TATTTTTATTTTTATTTTTATTTTTTTATCTATTAA
10966584 TATTTTTATTATTTAT
1 TATTTTTATT-TTTAT
10966600 CTGCTTTTAT
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
36 19 0.38
37 6 0.12
38 3 0.06
39 22 0.44
ACGTcount: A:0.23, C:0.02, G:0.01, T:0.74
Consensus pattern (36 bp):
TATTTTTATTTTTATTTTTATTTTTTTATCTATTAA
Found at i:10966618 original size:36 final size:35
Alignment explanation
Indices: 10966541--10966649 Score: 121
Period size: 36 Copynumber: 3.0 Consensus size: 35
10966531 ATTTGTCTAT
* *
10966541 TTATTAATATTTTTATT-TTTATTTTTATTTTTTTA
1 TTATTAATATTTTTATTATTTATTTCT-TTTATTTA
*
10966576 TCTATTAATATTTTTATTATTTATCTGCTTTTATTTA
1 T-TATTAATATTTTTATTATTTAT-TTCTTTTATTTA
* * *
10966613 TTATTATTATTATTATTTATCTATTTCTTTTATTTA
1 TTATTAATATTTTTA-TTATTTATTTCTTTTATTTA
10966649 T
1 T
10966650 CTAATTATTT
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
35 1 0.02
36 40 0.63
37 20 0.32
38 2 0.03
ACGTcount: A:0.24, C:0.05, G:0.01, T:0.71
Consensus pattern (35 bp):
TTATTAATATTTTTATTATTTATTTCTTTTATTTA
Found at i:10966621 original size:6 final size:6
Alignment explanation
Indices: 10966508--10966629 Score: 50
Period size: 6 Copynumber: 19.3 Consensus size: 6
10966498 CCAATTGATT
* * * * * * *
10966508 TTATTT TTATTT TTATTT TTATTA TTTGTCTA TTTATTA ATATTT TTATTT
1 TTATTA TTATTA TTATTA TTATTA -TTAT-TA -TTATTA TTATTA TTATTA
* * * * *
10966559 TTATTT TTATT- TTTTTA TCTATTA ATATTT TTATTA TTTATCTGC TT-TTA
1 TTATTA TTATTA TTATTA T-TATTA TTATTA TTATTA -TTAT-T-A TTATTA
10966609 TTTATTA TTATTA TTATTA TT
1 -TTATTA TTATTA TTATTA TT
10966630 TATCTATTTC
Statistics
Matches: 93, Mismatches: 14, Indels: 18
0.74 0.11 0.14
Matches are distributed among these distances:
5 4 0.04
6 63 0.68
7 17 0.18
8 9 0.10
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.72
Consensus pattern (6 bp):
TTATTA
Found at i:10966658 original size:21 final size:21
Alignment explanation
Indices: 10966634--10966680 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
10966624 ATTATTTATC
*
10966634 TATTTCTTTTATTTATCTAAT-
1 TATTTCTTTTATCTAT-TAATA
*
10966655 TATTTTTTTTATCTATTAATA
1 TATTTCTTTTATCTATTAATA
10966676 TATTT
1 TATTT
10966681 ATCTTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (21 bp):
TATTTCTTTTATCTATTAATA
Found at i:10966660 original size:17 final size:17
Alignment explanation
Indices: 10966604--10966684 Score: 76
Period size: 17 Copynumber: 4.7 Consensus size: 17
10966594 ATTTATCTGC
10966604 TTTTATTTAT-TATTATTA
1 TTTTATTTATCTA--ATTA
* *
10966622 TTATTATTTATCTATTTC
1 TT-TTATTTATCTAATTA
10966640 TTTTATTTATCTAATTA
1 TTTTATTTATCTAATTA
*
10966657 TTTTTTTTATCT-ATTA
1 TTTTATTTATCTAATTA
* *
10966673 ATATATTTATCT
1 TTTTATTTATCT
10966685 TTTTTATTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
16 13 0.25
17 24 0.45
18 6 0.11
19 8 0.15
20 2 0.04
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTATTTATCTAATTA
Found at i:10971298 original size:14 final size:14
Alignment explanation
Indices: 10971271--10971317 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
10971261 AAACAACCAT
10971271 TTAAAATAATAAATA
1 TTAAAAT-ATAAATA
10971286 TTAAAATATAAATA
1 TTAAAATATAAATA
10971300 -T-AAATAT-AATA
1 TTAAAATATAAATA
10971311 TATAAAA
1 T-TAAAA
10971318 AAATCAAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.14
12 6 0.21
13 2 0.07
14 10 0.34
15 7 0.24
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
TTAAAATATAAATA
Found at i:10971300 original size:6 final size:6
Alignment explanation
Indices: 10971274--10971316 Score: 50
Period size: 6 Copynumber: 6.5 Consensus size: 6
10971264 CAACCATTTA
10971274 AAATAAT AAATATT AAAATAT AAATAT AAATAT AATATAT AAA
1 AAAT-AT AAATA-T -AAATAT AAATAT AAATAT AA-ATAT AAA
10971317 AAAATCAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
6 16 0.48
7 12 0.36
8 5 0.15
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAATAT
Found at i:10971334 original size:19 final size:20
Alignment explanation
Indices: 10971312--10971361 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
10971302 AATATAATAT
10971312 ATAAAAAAATCAAAGT-AAA
1 ATAAAAAAATCAAAGTAAAA
10971331 ATAAAAAAATCAAAGTAGAAA
1 ATAAAAAAATCAAAGTA-AAA
10971352 ATAAACAAAA
1 ATAAA-AAAA
10971362 AAAGAAAGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.57
21 8 0.29
22 4 0.14
ACGTcount: A:0.74, C:0.06, G:0.06, T:0.14
Consensus pattern (20 bp):
ATAAAAAAATCAAAGTAAAA
Found at i:10978662 original size:12 final size:12
Alignment explanation
Indices: 10978647--10978676 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
10978637 TTAAAAAAAT
10978647 AGTCAAAATAAA
1 AGTCAAAATAAA
10978659 AGTC-AAATAAA
1 AGTCAAAATAAA
10978670 AGTCAAA
1 AGTCAAA
10978677 GGTTGCAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.63, C:0.10, G:0.10, T:0.17
Consensus pattern (12 bp):
AGTCAAAATAAA
Found at i:10981301 original size:30 final size:29
Alignment explanation
Indices: 10981265--10981328 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
10981255 TTTCATCCAT
*
10981265 TTAAGGGT-TCAATTGAGTTGAAATAAAATA
1 TTAAGGGTAT-AATT-AATTGAAATAAAATA
*
10981295 TTAAGGGTATAATTAATTGTAATAAAATA
1 TTAAGGGTATAATTAATTGAAATAAAATA
10981324 TTAAG
1 TTAAG
10981329 AGCTTAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 18 0.58
30 12 0.39
31 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.17, T:0.36
Consensus pattern (29 bp):
TTAAGGGTATAATTAATTGAAATAAAATA
Found at i:10985981 original size:21 final size:21
Alignment explanation
Indices: 10985956--10986685 Score: 218
Period size: 21 Copynumber: 35.1 Consensus size: 21
10985946 AATAGTTACA
10985956 TAATTTAATAATATTAAATAT
1 TAATTTAATAATATTAAATAT
** * *
10985977 TAATTTGGTAACATGAAATAT
1 TAATTTAATAATATTAAATAT
*
10985998 TAGTTTAATAAT-TATAAATAT
1 TAATTTAATAATAT-TAAATAT
*
10986019 TAATTTAATAACATTAAA-ATT
1 TAATTTAATAATATTAAATA-T
*
10986040 TAATTTAACAATATTAAATAT
1 TAATTTAATAATATTAAATAT
* * *
10986061 TAATTTTAA-AATGTTGAATCT
1 TAA-TTTAATAATATTAAATAT
*
10986082 TAATTTTAA-AATATTTTAATA-
1 TAA-TTTAATAATA-TTAAATAT
* *
10986103 TAATTAAATGAAT-TT-AATAA
1 TAATTTAAT-AATATTAAATAT
* *
10986123 T-ATTT-ATGAAT-TTGAATTT
1 TAATTTAAT-AATATTAAATAT
* * *
10986142 TATTTTAATACA-ATT-GA-AG
1 TAATTTAATA-ATATTAAATAT
*
10986161 TAA-TT--TAAGATTAAAT-T
1 TAATTTAATAATATTAAATAT
* *
10986178 CAATTTCATAATATTTTATAGATATT
1 TAATTTAATAATA--TTA-A-ATA-T
*
10986204 TAATTTTAA-ATTCATT-AATAT
1 TAA-TTTAATAAT-ATTAAATAT
*
10986225 T-ATTT-AT--TATTAAAATTTTT
1 TAATTTAATAATATT-AAA--TAT
* *
10986245 TTATTTAATAATAAT-AATAT
1 TAATTTAATAATATTAAATAT
* * *
10986265 TAATTAAATAAATATTACATTAA
1 TAATTTAAT-AATATTA-AATAT
*
10986288 TAATATT-A-AATCTT--A-A-
1 TAAT-TTAATAATATTAAATAT
* * *
10986304 T---TTAATGATACTAAATCT
1 TAATTTAATAATATTAAATAT
* *
10986322 TAATTTAATTATCA-TAAATAA
1 TAATTTAATAAT-ATTAAATAT
*
10986343 TAATTTAATAAAATTAAATAT
1 TAATTTAATAATATTAAATAT
*
10986364 TAATTTAAT-TTA-TAGAATAT
1 TAATTTAATAATATTA-AATAT
* *
10986384 TAATTTAATAATATTGAATAC
1 TAATTTAATAATATTAAATAT
* * *
10986405 TAGTTTAATAAAACTTACATAT
1 TAATTTAATAATA-TTAAATAT
* *
10986427 AAATTTAATAATATTAAAAAT
1 TAATTTAATAATATTAAATAT
* * **
10986448 TAATTTAATATTGTTAAATCC
1 TAATTTAATAATATTAAATAT
* *
10986469 TAATTTAATAATCA-TCAATAA
1 TAATTTAATAAT-ATTAAATAT
*
10986490 TAATTTAAT-TTACTTAAATAT
1 TAATTTAATAATA-TTAAATAT
10986511 TAATTTAATTTAAT-TTATGGAA-AT
1 TAATTTAA--TAATATTA---AATAT
* *
10986535 TAATTTAATAATATTGAATAC
1 TAATTTAATAATATTAAATAT
* * *
10986556 TAGTTTAATAAAACTTAAAATTT
1 TAATTTAATAATA-TT-AAATAT
** *
10986579 TGAATTTAATAATGCTGAATAT
1 T-AATTTAATAATATTAAATAT
*
10986601 TAATTTAATAATATGTTAATAT
1 TAATTTAATAATAT-TAAATAT
* * * *
10986623 CATTTTAATATTATT-TA-AT
1 TAATTTAATAATATTAAATAT
* *
10986642 TAATTATAATATTATCTTAATAT
1 TAATT-TAATAATAT-TAAATAT
10986665 T-ATTTAATTAAT-TT-AATAT
1 TAATTTAA-TAATATTAAATAT
10986684 TA
1 TA
10986686 TATTAATTTT
Statistics
Matches: 522, Mismatches: 110, Indels: 155
0.66 0.14 0.20
Matches are distributed among these distances:
12 2 0.00
13 1 0.00
14 3 0.01
15 1 0.00
16 10 0.02
17 5 0.01
18 16 0.03
19 30 0.06
20 61 0.12
21 252 0.48
22 80 0.15
23 21 0.04
24 26 0.05
25 4 0.01
26 5 0.01
27 5 0.01
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (21 bp):
TAATTTAATAATATTAAATAT
Found at i:10986444 original size:147 final size:149
Alignment explanation
Indices: 10986284--10986572 Score: 424
Period size: 147 Copynumber: 1.9 Consensus size: 149
10986274 AAATATTACA
** * *
10986284 TTAATAATATTAAATCTTAATTTAATGA-TACTAAATCTTAATTTAATTATCATAAATAATAATT
1 TTAATAATATTAAAAATTAATTTAAT-ATTACTAAATCCTAATTTAATAATCATAAATAATAATT
10986348 TAATAAAATTAAATATTAATTTAATTT-A-TA-GAATATTAATTTAATAATATTGAATACTAGTT
65 TAATAAAATTAAATATTAATTTAATTTAATTAGGAA-ATTAATTTAATAATATTGAATACTAGTT
10986410 TAATAAAACTTACATATAAAT
129 TAATAAAACTTACATATAAAT
** *
10986431 TTAATAATATTAAAAATTAATTTAATATTGTTAAATCCTAATTTAATAATCATCAATAATAATTT
1 TTAATAATATTAAAAATTAATTTAATATTACTAAATCCTAATTTAATAATCATAAATAATAATTT
** *
10986496 AATTTACTTAAATATTAATTTAATTTAATTTATGGAAATTAATTTAATAATATTGAATACTAGTT
66 AATAAAATTAAATATTAATTTAATTTAA-TTA-GGAAATTAATTTAATAATATTGAATACTAGTT
10986561 TAATAAAACTTA
129 TAATAAAACTTA
10986573 AAATTTTGAA
Statistics
Matches: 126, Mismatches: 10, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
146 1 0.01
147 79 0.63
148 1 0.01
150 2 0.02
151 40 0.32
152 3 0.02
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (149 bp):
TTAATAATATTAAAAATTAATTTAATATTACTAAATCCTAATTTAATAATCATAAATAATAATTT
AATAAAATTAAATATTAATTTAATTTAATTAGGAAATTAATTTAATAATATTGAATACTAGTTTA
ATAAAACTTACATATAAAT
Found at i:10986519 original size:26 final size:24
Alignment explanation
Indices: 10986490--10986543 Score: 72
Period size: 26 Copynumber: 2.2 Consensus size: 24
10986480 TCATCAATAA
*
10986490 TAATTTAATTTACTTAAATATTAATT
1 TAATTTAATTTA-TGAAA-ATTAATT
*
10986516 TAATTTAATTTATGGAAATTAATT
1 TAATTTAATTTATGAAAATTAATT
10986540 TAAT
1 TAAT
10986544 AATATTGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 11 0.42
25 3 0.12
26 12 0.46
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.52
Consensus pattern (24 bp):
TAATTTAATTTATGAAAATTAATT
Found at i:10986563 original size:66 final size:65
Alignment explanation
Indices: 10986469--10986614 Score: 147
Period size: 66 Copynumber: 2.2 Consensus size: 65
10986459 TGTTAAATCC
** * *
10986469 TAATTTAATAATCA-TCAATAATAATTTAAT-TTACTTAAATATTAATTTAATTTAATTTATG-G
1 TAATTTAATAAT-ATTCAATAATAATTTAATAAAACTTAAA-ATT--TTGAATTTAA-TAATGCG
10986531 AA-AT
61 AATAT
* * *
10986535 TAATTTAATAATATTGAATACTAGTTTAATAAAACTTAAAATTTTGAATTTAATAATGCTGAATA
1 TAATTTAATAATATTCAATAATAATTTAATAAAACTTAAAATTTTGAATTTAATAATGC-GAATA
10986600 T
65 T
10986601 TAATTTAATAATAT
1 TAATTTAATAATAT
10986615 GTTAATATCA
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
63 4 0.06
64 9 0.13
65 4 0.06
66 44 0.65
67 7 0.10
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (65 bp):
TAATTTAATAATATTCAATAATAATTTAATAAAACTTAAAATTTTGAATTTAATAATGCGAATAT
Found at i:10986630 original size:11 final size:11
Alignment explanation
Indices: 10986596--10986716 Score: 81
Period size: 11 Copynumber: 10.9 Consensus size: 11
10986586 AATAATGCTG
*
10986596 AATATTAATTT
1 AATATTATTTT
* *
10986607 AATAATATGTT
1 AATATTATTTT
*
10986618 AATATCATTTT
1 AATATTATTTT
10986629 AATATTA-TTT
1 AATATTATTTT
* *
10986639 AAT-TAATTAT
1 AATATTATTTT
*
10986649 AATATTATCTT
1 AATATTATTTT
10986660 AATATTA-TTT
1 AATATTATTTT
*
10986670 AAT-TAATTTAAT
1 AATATTATTT--T
10986682 ATTATATTAATTTT
1 A--ATATT-ATTTT
10986696 AATATT-TTGTT
1 AATATTATT-TT
10986707 AATATTATTT
1 AATATTATTT
10986717 AGTGTTATTG
Statistics
Matches: 84, Mismatches: 15, Indels: 22
0.69 0.12 0.18
Matches are distributed among these distances:
9 4 0.05
10 20 0.24
11 42 0.50
12 9 0.11
14 4 0.05
15 1 0.01
16 4 0.05
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (11 bp):
AATATTATTTT
Found at i:10986662 original size:31 final size:30
Alignment explanation
Indices: 10986633--10986692 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
10986623 CATTTTAATA
*
10986633 TTATTTAATTAATTATAATATTATCTTAATA
1 TTATTTAATTAATT-TAATATTATATTAATA
10986664 TTATTTAATTAATTTAATATTATATTAAT
1 TTATTTAATTAATTTAATATTATATTAAT
10986693 TTTAATATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 14 0.50
31 14 0.50
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (30 bp):
TTATTTAATTAATTTAATATTATATTAATA
Found at i:10986674 original size:19 final size:20
Alignment explanation
Indices: 10986599--10986693 Score: 66
Period size: 19 Copynumber: 5.2 Consensus size: 20
10986589 AATGCTGAAT
* *
10986599 ATTAATTTAATAATATGTTA
1 ATTAATTTAATATTATATTA
*
10986619 ATATCATTTTAATATTAT-TTA
1 AT-T-AATTTAATATTATATTA
10986640 ATTAA-TT-ATA--ATATT-
1 ATTAATTTAATATTATATTA
*
10986655 A-T--CTTAATATTAT-TTA
1 ATTAATTTAATATTATATTA
10986671 ATTAATTTAATATTATATTA
1 ATTAATTTAATATTATATTA
10986691 ATT
1 ATT
10986694 TTAATATTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 24
0.68 0.05 0.28
Matches are distributed among these distances:
13 2 0.03
14 4 0.07
15 5 0.08
16 5 0.08
17 4 0.07
18 2 0.03
19 11 0.19
20 9 0.15
21 6 0.10
22 11 0.19
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (20 bp):
ATTAATTTAATATTATATTA
Found at i:10986675 original size:14 final size:14
Alignment explanation
Indices: 10986627--10986676 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
10986617 TAATATCATT
10986627 TTAATATTATTTAA
1 TTAATATTATTTAA
* *
10986641 TTAATTATAATATTATC
1 TTAA-TATTAT-TTA-A
10986658 TTAATATTATTTAA
1 TTAATATTATTTAA
10986672 TTAAT
1 TTAAT
10986677 TTAATATTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
14 9 0.31
15 8 0.28
16 8 0.28
17 4 0.14
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (14 bp):
TTAATATTATTTAA
Found at i:10986709 original size:17 final size:17
Alignment explanation
Indices: 10986624--10986701 Score: 74
Period size: 17 Copynumber: 4.6 Consensus size: 17
10986614 TGTTAATATC
10986624 ATTTTAATATTATTTAATTA
1 ATTTTAATATTA--T-ATTA
* *
10986644 ATTATAATATTATCTTA
1 ATTTTAATATTATATTA
*
10986661 ATATT-AT-TTA-ATTA
1 ATTTTAATATTATATTA
10986675 A-TTTAATATTATATTA
1 ATTTTAATATTATATTA
10986691 ATTTTAATATT
1 ATTTTAATATT
10986702 TTGTTAATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
13 2 0.04
14 6 0.12
15 6 0.12
16 7 0.15
17 15 0.31
18 1 0.02
20 11 0.23
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTTTAATATTATATTA
Found at i:10986738 original size:47 final size:46
Alignment explanation
Indices: 10986637--10986739 Score: 125
Period size: 47 Copynumber: 2.2 Consensus size: 46
10986627 TTAATATTAT
* *
10986637 TTAATTAATTATAATATTATCTTAATATTATTTAATTAATTTAATA
1 TTAATTAATTATAATATTATCTTAATATTATTTAATTAATTGAAGA
* * * * *
10986683 TTATATTAATTTTAATATTTTGTTAATATTATTTAGTGTTATTGAAGA
1 TTA-ATTAATTATAATATTATCTTAATATTATTTAAT-TAATTGAAGA
10986731 TTAATTAAT
1 TTAATTAAT
10986740 AATATCAAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
46 3 0.06
47 35 0.73
48 10 0.21
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (46 bp):
TTAATTAATTATAATATTATCTTAATATTATTTAATTAATTGAAGA
Found at i:10986873 original size:26 final size:27
Alignment explanation
Indices: 10986831--10986881 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
10986821 CTTAAGTCGA
10986831 TATTGATTTAATATTAAATTCATTTTT
1 TATTGATTTAATATTAAATTCATTTTT
* *
10986858 TATT-ATTTAATGTTAAATTTATTT
1 TATTGATTTAATATTAAATTCATTT
10986882 AATATTTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (27 bp):
TATTGATTTAATATTAAATTCATTTTT
Found at i:10986887 original size:26 final size:27
Alignment explanation
Indices: 10986830--10986887 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 27
10986820 ACTTAAGTCG
*
10986830 ATATTGATTTAATATTAAATTCATTTT
1 ATATTGATTTAATATTAAATTCATTTA
* * *
10986857 TTATT-ATTTAATGTTAAATTTATTTA
1 ATATTGATTTAATATTAAATTCATTTA
10986883 ATATT
1 ATATT
10986888 TAGTAGACAC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 22 0.85
27 4 0.15
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (27 bp):
ATATTGATTTAATATTAAATTCATTTA
Found at i:10986932 original size:3 final size:3
Alignment explanation
Indices: 10986921--10986954 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
10986911 TGTGATTTTT
10986921 TTA TATA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10986955 AATGATTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:10986986 original size:11 final size:11
Alignment explanation
Indices: 10986970--10986998 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
10986960 TTAATGAATT
10986970 AAAAAAAAG-A
1 AAAAAAAAGTA
10986980 AAAAAAAAGTA
1 AAAAAAAAGTA
10986991 AAAAAAAA
1 AAAAAAAA
10986999 TCATTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.90, C:0.00, G:0.07, T:0.03
Consensus pattern (11 bp):
AAAAAAAAGTA
Found at i:10987422 original size:10 final size:10
Alignment explanation
Indices: 10987395--10987428 Score: 59
Period size: 10 Copynumber: 3.3 Consensus size: 10
10987385 AAAGGAGCAA
10987395 TTTAGAATTT
1 TTTAGAATTT
10987405 TTTGAGAATTT
1 TTT-AGAATTT
10987416 TTTAGAATTT
1 TTTAGAATTT
10987426 TTT
1 TTT
10987429 TGGGTCTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.62
Consensus pattern (10 bp):
TTTAGAATTT
Found at i:10987429 original size:11 final size:11
Alignment explanation
Indices: 10987395--10987429 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
10987385 AAAGGAGCAA
10987395 TTTAGAATTTT
1 TTTAGAATTTT
*
10987406 TTGAGAA-TTT
1 TTTAGAATTTT
10987416 TTTAGAATTTT
1 TTTAGAATTTT
10987427 TTT
1 TTT
10987430 GGGTCTTCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (11 bp):
TTTAGAATTTT
Found at i:10988494 original size:34 final size:35
Alignment explanation
Indices: 10988456--10988537 Score: 89
Period size: 34 Copynumber: 2.3 Consensus size: 35
10988446 GGGATAATCT
10988456 AAATTTTTTAATAA-AATAATTAATAAA-TAA-TAAA
1 AAATTTTTTAATAATAATAA-TAA-AAATTAATTAAA
* * *
10988490 AAATTTTTAAATAATCATAATAAAAATTAATTAAT
1 AAATTTTTTAATAATAATAATAAAAATTAATTAAA
10988525 AAATTTCTTTAAT
1 AAATTT-TTTAAT
10988538 TACAAAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
33 3 0.08
34 19 0.47
35 13 0.32
36 5 0.12
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (35 bp):
AAATTTTTTAATAATAATAATAAAAATTAATTAAA
Found at i:10988500 original size:18 final size:19
Alignment explanation
Indices: 10988464--10988504 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
10988454 CTAAATTTTT
10988464 TAATAAAATAATTAATAAA
1 TAATAAAATAATTAATAAA
**
10988483 TAATAAAA-AATTTTTAAA
1 TAATAAAATAATTAATAAA
10988501 TAAT
1 TAAT
10988505 CATAATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
TAATAAAATAATTAATAAA
Found at i:10992683 original size:15 final size:15
Alignment explanation
Indices: 10992663--10992691 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
10992653 TTGATAATCC
10992663 CACCAAAATTTAAAG
1 CACCAAAATTTAAAG
10992678 CACCAAAATTTAAA
1 CACCAAAATTTAAA
10992692 AAATATGACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.21, G:0.03, T:0.21
Consensus pattern (15 bp):
CACCAAAATTTAAAG
Found at i:11000392 original size:39 final size:40
Alignment explanation
Indices: 11000322--11000417 Score: 113
Period size: 39 Copynumber: 2.4 Consensus size: 40
11000312 CCTCTCAGCC
* * * * *
11000322 TTTTGAATTTAAAGTTTGTTGCTTCTGGTCAGATG-AGTT
1 TTTTGAATTTAAAGTTTATTGCCTCTAGTCAGAGGAAGCT
* *
11000361 TTTTGAATTTATATTTTATTGCCTCTAGTCAGAGGAAGCT
1 TTTTGAATTTAAAGTTTATTGCCTCTAGTCAGAGGAAGCT
*
11000401 TTTTAAATTTAAAGTTT
1 TTTTGAATTTAAAGTTT
11000418 CATAGCCTTT
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
39 29 0.63
40 17 0.37
ACGTcount: A:0.25, C:0.08, G:0.18, T:0.49
Consensus pattern (40 bp):
TTTTGAATTTAAAGTTTATTGCCTCTAGTCAGAGGAAGCT
Found at i:11000625 original size:40 final size:40
Alignment explanation
Indices: 11000571--11000830 Score: 328
Period size: 40 Copynumber: 6.5 Consensus size: 40
11000561 TCAGAGGAGC
* *
11000571 CTTTTTAACATTTAAAGCTTGTTGCCTTTAGTTAAAAGAG
1 CTTTTTAACATTTAAAGTTTGTTGCCTTTGGTTAAAAGAG
*
11000611 CTTTTTAACATTTAAAGTTTGTTGCCTTTGGTTAAATGAG
1 CTTTTTAACATTTAAAGTTTGTTGCCTTTGGTTAAAAGAG
* * * * *
11000651 CGTTTTTTA-ATTTAAAGTTCGTTGCCTCTGGTGAGAAGAG
1 C-TTTTTAACATTTAAAGTTTGTTGCCTTTGGTTAAAAGAG
* * *
11000691 CCTTTTAATATTTAAAGCTTGTTGCCTTTGGTTAAACA-AG
1 CTTTTTAACATTTAAAGTTTGTTGCCTTTGGTTAAA-AGAG
*
11000731 CTTTTTAACATTTAAAGTTTGTTGCTTTTGGTTAAAAGAG
1 CTTTTTAACATTTAAAGTTTGTTGCCTTTGGTTAAAAGAG
* *
11000771 CTTTTTAACATTTAAAGTTTGTTGCTTTTGGTTAAAGGAG
1 CTTTTTAACATTTAAAGTTTGTTGCCTTTGGTTAAAAGAG
* *
11000811 CTCTTTTGA-ATTCAAAGTTT
1 CT-TTTTAACATTTAAAGTTT
11000831 CATAGCCTCT
Statistics
Matches: 192, Mismatches: 23, Indels: 10
0.85 0.10 0.04
Matches are distributed among these distances:
39 6 0.03
40 174 0.91
41 12 0.06
ACGTcount: A:0.26, C:0.11, G:0.18, T:0.45
Consensus pattern (40 bp):
CTTTTTAACATTTAAAGTTTGTTGCCTTTGGTTAAAAGAG
Found at i:11000711 original size:120 final size:121
Alignment explanation
Indices: 11000532--11000795 Score: 390
Period size: 120 Copynumber: 2.2 Consensus size: 121
11000522 TCTTCTTAGA
** *
11000532 TTTTAACATTTAAAGTTCGTTATCTCTAGTCAGAGGAGCCTTTTTAACATTTAAAGCTTGTTGCC
1 TTTTAACATTTAAAGTTCGTTGCCTCTAGTCAGAAGAGCCTTTTTAACATTTAAAGCTTGTTGCC
*
11000597 TTTAGTTAAA-AGAGCTTTTTAACATTTAAAGTTTGTTGCCTTTGGTTAAATGAGCGT
66 TTTAGTTAAACA-AGCTTTTTAACATTTAAAGTTTGTTGCCTTTGGTTAAAAGAGC-T
* * * *
11000654 TTTTTA-ATTTAAAGTTCGTTGCCTCTGGTGAGAAGAGCC-TTTTAATATTTAAAGCTTGTTGCC
1 TTTTAACATTTAAAGTTCGTTGCCTCTAGTCAGAAGAGCCTTTTTAACATTTAAAGCTTGTTGCC
* *
11000717 TTTGGTTAAACAAGCTTTTTAACATTTAAAGTTTGTTGCTTTTGGTTAAAAGAGCT
66 TTTAGTTAAACAAGCTTTTTAACATTTAAAGTTTGTTGCCTTTGGTTAAAAGAGCT
*
11000773 TTTTAACATTTAAAGTTTGTTGC
1 TTTTAACATTTAAAGTTCGTTGC
11000796 TTTTGGTTAA
Statistics
Matches: 128, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
119 6 0.05
120 88 0.69
121 29 0.23
122 5 0.04
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (121 bp):
TTTTAACATTTAAAGTTCGTTGCCTCTAGTCAGAAGAGCCTTTTTAACATTTAAAGCTTGTTGCC
TTTAGTTAAACAAGCTTTTTAACATTTAAAGTTTGTTGCCTTTGGTTAAAAGAGCT
Found at i:11001896 original size:27 final size:27
Alignment explanation
Indices: 11001864--11001918 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
11001854 TCTTCTTATT
*
11001864 TTCTATTTTGATATTTA-GTTTTATTTA
1 TTCTATGTT-ATATTTATGTTTTATTTA
* *
11001891 TTCTATGTTATTTTTATGTTTTTTTTA
1 TTCTATGTTATATTTATGTTTTATTTA
11001918 T
1 T
11001919 ATAATATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.18, C:0.04, G:0.07, T:0.71
Consensus pattern (27 bp):
TTCTATGTTATATTTATGTTTTATTTA
Found at i:11003272 original size:21 final size:20
Alignment explanation
Indices: 11003249--11003372 Score: 97
Period size: 21 Copynumber: 6.0 Consensus size: 20
11003239 TTATGACAAT
*
11003249 TATTAAATATTAAGTTAATAT
1 TATTAAATATTAA-TTAATAA
* * **
11003270 TATGAAATATTAATAAAATGT
1 TATTAAATATTAAT-TAATAA
* *
11003291 TATGAAAGATTAAATTAATAA
1 TATTAAATATT-AATTAATAA
*
11003312 TATTGAA-ATTAATTTAATAA
1 TATTAAATATTAA-TTAATAA
11003332 TATTAAATATTAATTGAATAA
1 TATTAAATATTAATT-AATAA
* *
11003353 TATTATATAATAATTTAATA
1 TATTAAATATTAA-TTAATA
11003373 CAATTCAATT
Statistics
Matches: 85, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
19 2 0.02
20 19 0.22
21 59 0.69
22 5 0.06
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.43
Consensus pattern (20 bp):
TATTAAATATTAATTAATAA
Found at i:11003420 original size:11 final size:11
Alignment explanation
Indices: 11003404--11003539 Score: 63
Period size: 11 Copynumber: 12.5 Consensus size: 11
11003394 ATAGCAATCA
11003404 TATTTTAATAT
1 TATTTTAATAT
11003415 TATTTT-AT-T
1 TATTTTAATAT
* * **
11003424 AAGTTTGTTAT
1 TATTTTAATAT
11003435 TATATTT-ATAT
1 TAT-TTTAATAT
11003446 TATTTTAATAT
1 TATTTTAATAT
11003457 TA-TTTAAT-T
1 TATTTTAATAT
* *
11003466 AATTTAAATAT
1 TATTTTAATAT
11003477 TATTTATTCAATGTAT
1 TA-TT-TT-AA--TAT
11003493 TA-TTT-A-AT
1 TATTTTAATAT
11003501 TATTTTTAATAT
1 TA-TTTTAATAT
* *
11003513 GAATTTAATAT
1 TATTTTAATAT
*
11003524 TATTCTAATAT
1 TATTTTAATAT
*
11003535 AATTT
1 TATTT
11003540 AATTAAAGGT
Statistics
Matches: 93, Mismatches: 17, Indels: 30
0.66 0.12 0.21
Matches are distributed among these distances:
8 4 0.04
9 7 0.08
10 20 0.22
11 43 0.46
12 8 0.09
13 3 0.03
14 3 0.03
16 5 0.05
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.60
Consensus pattern (11 bp):
TATTTTAATAT
Found at i:11003462 original size:20 final size:20
Alignment explanation
Indices: 11003404--11003544 Score: 77
Period size: 22 Copynumber: 7.1 Consensus size: 20
11003394 ATAGCAATCA
11003404 TATTTTAATATTATTT-TAT
1 TATTTTAATATTATTTATAT
*
11003423 TAAGTTTGTTAT-TATATTTATAT
1 T-A-TTT-TAATAT-TATTTATAT
11003446 TATTTTAATATTATTTA-AT
1 TATTTTAATATTATTTATAT
*
11003465 TAATTTAA-A-TA-TTAT-T
1 TATTTTAATATTATTTATAT
*
11003481 TA-TTCAATGTATTATTTA-AT
1 TATTTTAA--TATTATTTATAT
*
11003501 TATTTTTAATATGAATTTAATAT
1 TA-TTTTAATAT-TATTT-ATAT
* *
11003524 TATTCTAATATAATTTA-AT
1 TATTTTAATATTATTTATAT
11003543 TA
1 TA
11003545 AAGGTAAACT
Statistics
Matches: 97, Mismatches: 7, Indels: 36
0.69 0.05 0.26
Matches are distributed among these distances:
15 4 0.04
16 6 0.06
17 2 0.02
18 2 0.02
19 16 0.16
20 20 0.21
21 17 0.18
22 22 0.23
23 8 0.08
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.59
Consensus pattern (20 bp):
TATTTTAATATTATTTATAT
Found at i:11003520 original size:21 final size:22
Alignment explanation
Indices: 11003494--11003544 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
11003484 TCAATGTATT
11003494 ATTTAATTATT-TT-TAATATGA
1 ATTTAATTATTATTCTAATAT-A
11003515 ATTTAA-TATTATTCTAATATA
1 ATTTAATTATTATTCTAATATA
11003536 ATTTAATTA
1 ATTTAATTA
11003545 AAGGTAAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
20 4 0.15
21 15 0.56
22 8 0.30
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
ATTTAATTATTATTCTAATATA
Found at i:11006792 original size:21 final size:21
Alignment explanation
Indices: 11006768--11006819 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
11006758 AGAAACCAAA
11006768 GTGATCGATCCCCTTTGTAAG
1 GTGATCGATCCCCTTTGTAAG
** *
11006789 GTGATTAATCCCCTTTGTAGG
1 GTGATCGATCCCCTTTGTAAG
11006810 GTGATCGATC
1 GTGATCGATC
11006820 ATTTTTTGCT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.19, C:0.21, G:0.25, T:0.35
Consensus pattern (21 bp):
GTGATCGATCCCCTTTGTAAG
Found at i:11009819 original size:16 final size:16
Alignment explanation
Indices: 11009798--11009829 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11009788 TTTCAATAAA
*
11009798 ATATCAAATAATTTTT
1 ATATCAAACAATTTTT
11009814 ATATCAAACAATTTTT
1 ATATCAAACAATTTTT
11009830 GTAATTCAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATCAAACAATTTTT
Found at i:11010534 original size:29 final size:30
Alignment explanation
Indices: 11010496--11010567 Score: 94
Period size: 29 Copynumber: 2.4 Consensus size: 30
11010486 AATTAATAAA
*
11010496 TTAATAATTTATATATCATATTAAATATTT
1 TTAATAATTTAAATATCATATTAAATATTT
*
11010526 TTAA-AATTTAAATATTATATTAAATATTT
1 TTAATAATTTAAATATCATATTAAATATTT
11010555 CATT-ATAATTTAA
1 --TTAATAATTTAA
11010568 GGATCATCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
29 23 0.62
30 5 0.14
31 9 0.24
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (30 bp):
TTAATAATTTAAATATCATATTAAATATTT
Found at i:11011207 original size:17 final size:18
Alignment explanation
Indices: 11011185--11011222 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
11011175 TTGATTTTTG
11011185 AAGGAAA-AAAACGAAA-A
1 AAGGAAAGAAAA-GAAAGA
11011202 AAGGAAAGAAAAGAAAGA
1 AAGGAAAGAAAAGAAAGA
11011220 AAG
1 AAG
11011223 ATCGAAACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.74, C:0.03, G:0.24, T:0.00
Consensus pattern (18 bp):
AAGGAAAGAAAAGAAAGA
Found at i:11011550 original size:15 final size:16
Alignment explanation
Indices: 11011514--11011554 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
11011504 TAGTGAGTTT
11011514 GAGAAAAGAAAGAAGAA
1 GAGAAAA-AAAGAAGAA
*
11011531 G-GAAAAAAAGGA-AA
1 GAGAAAAAAAGAAGAA
11011545 GAGAAAAAAA
1 GAGAAAAAAA
11011555 AGGGAAATGG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 3 0.14
15 13 0.59
16 5 0.23
17 1 0.05
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (16 bp):
GAGAAAAAAAGAAGAA
Found at i:11019097 original size:2 final size:2
Alignment explanation
Indices: 11019053--11019078 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11019043 TGTCAAAGCT
11019053 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
11019079 CGTAAGAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11037188 original size:27 final size:27
Alignment explanation
Indices: 11037143--11037195 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
11037133 AGGAAGGGTG
*
11037143 AAAAAAATGAGAAACAAAAACAAAAAC
1 AAAAAAATAAGAAACAAAAACAAAAAC
*
11037170 AAAAAAATAATGAAA-AAAAAGAAAAA
1 AAAAAAATAA-GAAACAAAAACAAAAA
11037196 AATTGTGATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.81, C:0.06, G:0.08, T:0.06
Consensus pattern (27 bp):
AAAAAAATAAGAAACAAAAACAAAAAC
Found at i:11038210 original size:53 final size:53
Alignment explanation
Indices: 11038148--11038304 Score: 185
Period size: 53 Copynumber: 3.0 Consensus size: 53
11038138 TTAAATAAGG
*
11038148 TTTTTAAAGTTTTAAAGCCTTTGTTTATGGGGAGTAATTTTCAAACAAGATTT
1 TTTTTAAAGTTTCAAAGCCTTTGTTTATGGGGAGTAATTTTCAAACAAGATTT
* * * * * * *
11038201 TTTTTAAAGTTTGAAAACCTCTATTTATGAGGAGCAATTTCCAAACAAGA---
1 TTTTTAAAGTTTCAAAGCCTTTGTTTATGGGGAGTAATTTTCAAACAAGATTT
* * * *
11038251 TCTTTAAAGTTTCAAAGCCTTTGTTTATAGGGAGTAGTTTTCAAACAAAATTT
1 TTTTTAAAGTTTCAAAGCCTTTGTTTATGGGGAGTAATTTTCAAACAAGATTT
11038304 T
1 T
11038305 AAGTTTCATA
Statistics
Matches: 83, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
50 39 0.47
53 44 0.53
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (53 bp):
TTTTTAAAGTTTCAAAGCCTTTGTTTATGGGGAGTAATTTTCAAACAAGATTT
Found at i:11038274 original size:103 final size:96
Alignment explanation
Indices: 11038149--11038362 Score: 286
Period size: 103 Copynumber: 2.2 Consensus size: 96
11038139 TAAATAAGGT
* * * *
11038149 TTTTAAAGTTTTAAAGCCTTTGTTTATGGGGAGTAATTTTCAAACAAGATTTTTTTTAAAGTTTG
1 TTTTAAAGTTTCAAAGCCTTTGTTTATAGGGAGTAATTTTCAAACAA-A---ATTTT-AAGTTTC
11038214 AAAACCTCTATTTATGA-GGAGCAATTTCCAAACAAGA
61 AAAACCTCTATTTAT-ATGGAGCAATTT-CAAACAAGA
* *
11038251 TCTTTAAAGTTTCAAAGCCTTTGTTTATAGGGAGTAGTTTTCAAACAAAATTTTAAGTTTCATAA
1 T-TTTAAAGTTTCAAAGCCTTTGTTTATAGGGAGTAATTTTCAAACAAAATTTTAAGTTTCAAAA
*
11038316 CCTCTATTTATATGGAGCAATTTTAAACAAGA
65 CCTCTATTTATATGGAGCAATTTCAAACAAGA
11038348 TTTTAAAGTTTCAAA
1 TTTTAAAGTTTCAAA
11038363 ACCTCTAATT
Statistics
Matches: 103, Mismatches: 7, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
96 14 0.14
97 10 0.10
98 30 0.29
99 4 0.04
102 2 0.02
103 43 0.42
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (96 bp):
TTTTAAAGTTTCAAAGCCTTTGTTTATAGGGAGTAATTTTCAAACAAAATTTTAAGTTTCAAAAC
CTCTATTTATATGGAGCAATTTCAAACAAGA
Done.