Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 93 of 173
Found at i:29201310 original size:16 final size:16
Alignment explanation
Indices: 29201291--29201321 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29201281 CTCTTGAAAT
29201291 TTATTTTTCTCTTATG
1 TTATTTTTCTCTTATG
*
29201307 TTATTTTTCTTTTAT
1 TTATTTTTCTCTTAT
29201322 TACTAGTACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.10, G:0.03, T:0.74
Consensus pattern (16 bp):
TTATTTTTCTCTTATG
Found at i:29205518 original size:138 final size:138
Alignment explanation
Indices: 29205239--29206400 Score: 1697
Period size: 138 Copynumber: 8.4 Consensus size: 138
29205229 TAGAAAAAGG
* * * *
29205239 AATTATATTGTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
29205304 TATAATT-TTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATCAATCAAATT
66 TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATCAATCAAATT
29205368 CATATATT
131 CATATATT
*
29205376 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATAATTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * *
29205441 TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAGTTAGTATTTTGTATCAATCAAATT
66 TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATCAATCAAATT
29205506 CATATATT
131 CATATATT
* * ** **
29205514 AATTATATTCTTTCCAAAATAATATTAATTTCCATGTCTTTTATATATTTTGGA-AAAAAAGAAT
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTC-TTT-TATATTTT-GACCGAAATTAAT
* * * * * * *
29205578 TAATATAATTGTTTATATTAATAAACTCGATAAACTGTATACAATTAAAAGTTTATATGAATCAA
63 TAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATCAATCAA
* *
29205643 TTTCATAAATT
128 ATTCATATATT
*
29205654 AATTATATTCTTTCCAAAAGAATATTAA-TTTCTATGTCTTTTATATTTTGACCGAAATTTATTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTC-ATGTCTTTTATATTTTGACCGAAATTAATTA
* * *
29205718 ATATAACTGTTTATATTAATAAATTCAGTAAAATATATATAATTAATATTTTATATCAATCAAAT
65 ATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATCAATCAAAT
*
29205783 TCATATACT
130 TCATATATT
* * *
29205792 AATTATATTCTTTCCAAAA-AATATTAATTTTCATATCTTTTATATTTTGACTGAAATTAGTTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * *
29205856 TATAACTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATCAATCAAATT
66 TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATCAATCAAATT
29205921 CATATATT
131 CATATATT
* * *
29205929 AATTATATTCTTTCCAAAAAAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATGAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * * * * *
29205994 TATAATTATTTATATTAATAAATTCGGTAAAATATAAACAACTAAAATTTTGTATGAATCAAATT
66 TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATCAATCAAATT
*
29206059 GATATATT
131 CATATATT
* *
29206067 AATTATTTTCTTTCCAAAAGAATATTAATTTTCATGTCTTTAATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * *
29206132 TAT-ATCTGATTATATTAATAAATTCGGTAAAATATATAAAATTAATATTTTATATCAATGAAAT
66 TATAAT-TGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATCAATCAAAT
29206196 TCATATATT
130 TCATATATT
* * *
29206205 ACTTATATTCTTTCCAAAA-AATAATAATTTTCATGTCTTTTATATTTTGACTGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
* *** *
29206269 TATAATTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGGGTAAATCAAATT
66 TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATCAATCAAATT
29206334 CATATATT
131 CATATATT
* * *
29206342 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTATTATAGTTTGACCGAAATT
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATT
29206401 GAAAATATAT
Statistics
Matches: 913, Mismatches: 101, Indels: 21
0.88 0.10 0.02
Matches are distributed among these distances:
137 318 0.35
138 475 0.52
139 9 0.01
140 109 0.12
141 2 0.00
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (138 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATCAATCAAATT
CATATATT
Found at i:29205976 original size:275 final size:276
Alignment explanation
Indices: 29205239--29206400 Score: 1711
Period size: 275 Copynumber: 4.2 Consensus size: 276
29205229 TAGAAAAAGG
* * *
29205239 AATTATATTGTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
*
29205304 TATAA-TTTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATCAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATCAATCAAATT
* * *
29205368 CATATATTAATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATAATTTGACCGAAA
131 CATATATTAATTATATTCTTTCCAAAAAAATATTAATTTCCATGTCTTTTATATTTTGACCGAAA
* *
29205433 TTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAGTTAGTATTTTGTATCA
196 TTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATCA
29205498 ATCAAATTCATATATT
261 ATCAAATTCATATATT
* ** **
29205514 AATTATATTCTTTCCAAAATAATATTAATTTCCATGTCTTTTATATATTTTGGA-AAAAAAGAAT
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTC-TTT-TATATTTT-GACCGAAATTAAT
* * * * * * * *
29205578 TAATATAATTGTTTATATTAATAAACTCGATAAACTGTATACAATTAAAAGTTTATATGAATCAA
63 TAATATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATCAATCAA
* * * *
29205643 TTTCATAAATTAATTATATTCTTTCCAAAAGAATATTAATTTCTATGTCTTTTATATTTTGACCG
128 ATTCATATATTAATTATATTCTTTCCAAAAAAATATTAATTTCCATGTCTTTTATATTTTGACCG
* * * * *
29205708 AAATTTATTAATATAACTGTTTATATTAATAAATTCAGTAAAATATATATAATTAATATTTTATA
193 AAATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTA
*
29205773 TCAATCAAATTCATATACT
258 TCAATCAAATTCATATATT
* * * *
29205792 AATTATATTCTTTCCAAAA-AATATTAATTTTCATATCTTTTATATTTTGACTGAAATTAGTTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* *
29205856 TATAACTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATCAATCAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATCAATCAAATT
29205921 CATATATTAATTATATTCTTTCCAAAAAAATATTAATTTCCATGTCTTTTATATTTTGACCGAAA
131 CATATATTAATTATATTCTTTCCAAAAAAATATTAATTTCCATGTCTTTTATATTTTGACCGAAA
* * * * * *
29205986 TGAATTAATATAATTATTTATATTAATAAATTCGGTAAAATATAAACAACTAAAATTTTGTATGA
196 TTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATCA
*
29206051 ATCAAATTGATATATT
261 ATCAAATTCATATATT
* * *
29206067 AATTATTTTCTTTCCAAAAGAATATTAATTTTCATGTCTTTAATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
* * * *
29206132 TATATCTGATTATATTAATAAATTCGGTAAAATATATAAAATTAATATTTTATATCAATGAAATT
66 TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATCAATCAAATT
* * * *
29206197 CATATATTACTTATATTCTTTCC-AAAAAATAATAATTTTCATGTCTTTTATATTTTGACTGAAA
131 CATATATTAATTATATTCTTTCCAAAAAAATATTAATTTCCATGTCTTTTATATTTTGACCGAAA
* ** *
29206261 TTAATTAATATAATTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGGGTAA
196 TTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATCA
29206326 ATCAAATTCATATATT
261 ATCAAATTCATATATT
* *
29206342 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTATTATAGTTTGACCGAAATT
1 AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATT
29206401 GAAAATATAT
Statistics
Matches: 790, Mismatches: 91, Indels: 12
0.88 0.10 0.01
Matches are distributed among these distances:
274 2 0.00
275 416 0.53
276 128 0.16
277 39 0.05
278 205 0.26
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (276 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATAACTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATCAATCAAATT
CATATATTAATTATATTCTTTCCAAAAAAATATTAATTTCCATGTCTTTTATATTTTGACCGAAA
TTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATCA
ATCAAATTCATATATT
Found at i:29206177 original size:413 final size:413
Alignment explanation
Indices: 29205239--29206399 Score: 1817
Period size: 413 Copynumber: 2.8 Consensus size: 413
29205229 TAGAAAAAGG
* * * *
29205239 AATTATATTGTTTCCAAAAGAATATTAATTTCCATATCTTTTATATTTTGACCAAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
*
29205304 TATAAT-T-TTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTATATCAATCAAAT
66 TAT-ATCTGTTTATATTAATAAATTCGGTAAAATATATAAAATTAATATTTTATATCAATCAAAT
* *
29205367 TCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATAATTTGACCGAA
130 TCATATATTAATTATATTCTTTCCAAAA-AATATTAATTTTCATGTCTTTTATATTTTGACTGAA
* *
29205432 ATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAGTTAGTATTTTGTATC
194 ATTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATC
*
29205497 AATCAAATTCATATATTAATTATATTCTTTCCAAAATAATATTAATTTCCATGTCTTTTATATAT
259 AATCAAATTCATATATTAATTATATTCTTTCCAAAAAAATATTAATTTCCATGTC-TTT-TATAT
** * * * * * *
29205562 TTTGGA-AAAAAAGAATTAATATAATTGTTTATATTAATAAACTCGATAAACTGTATACAATTAA
322 TTT-GACCGAAATGAATTAATATAATTATTTATATTAATAAACTCGATAAAATATAAACAACTAA
*
29205626 AAGTTTATATGAATCAATTTCATAAATT
386 AAGTTTATATGAATCAAATTCATAAATT
*
29205654 AATTATATTCTTTCCAAAAGAATATTAA-TTTCTATGTCTTTTATATTTTGACCGAAATTTATTA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTC-ATGTCTTTTATATTTTGACCGAAATTAATTA
* * *
29205718 ATATAACTGTTTATATTAATAAATTCAGTAAAATATATATAATTAATATTTTATATCAATCAAAT
65 ATATATCTGTTTATATTAATAAATTCGGTAAAATATATAAAATTAATATTTTATATCAATCAAAT
* *
29205783 TCATATACTAATTATATTCTTTCCAAAAAATATTAATTTTCATATCTTTTATATTTTGACTGAAA
130 TCATATATTAATTATATTCTTTCCAAAAAATATTAATTTTCATGTCTTTTATATTTTGACTGAAA
* * *
29205848 TTAGTTAATATAACTGTTTATATTAATAAATTCAGTAAAATATATACAATTAATATTTTGTATCA
195 TTAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATCA
29205913 ATCAAATTCATATATTAATTATATTCTTTCCAAAAAAATATTAATTTCCATGTCTTTTATATTTT
260 ATCAAATTCATATATTAATTATATTCTTTCCAAAAAAATATTAATTTCCATGTCTTTTATATTTT
* * *
29205978 GACCGAAATGAATTAATATAATTATTTATATTAATAAATTCGGTAAAATATAAACAACTAAAATT
325 GACCGAAATGAATTAATATAATTATTTATATTAATAAACTCGATAAAATATAAACAACTAAAAGT
* * *
29206043 TTGTATGAATCAAATTGATATATT
390 TTATATGAATCAAATTCATAAATT
* *
29206067 AATTATTTTCTTTCCAAAAGAATATTAATTTTCATGTCTTTAATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
* *
29206132 TATATCTGATTATATTAATAAATTCGGTAAAATATATAAAATTAATATTTTATATCAATGAAATT
66 TATATCTGTTTATATTAATAAATTCGGTAAAATATATAAAATTAATATTTTATATCAATCAAATT
* *
29206197 CATATATTACTTATATTCTTTCCAAAAAATAATAATTTTCATGTCTTTTATATTTTGACTGAAAT
131 CATATATTAATTATATTCTTTCCAAAAAATATTAATTTTCATGTCTTTTATATTTTGACTGAAAT
* ** *
29206262 TAATTAATATAATTGTTTATATTAATAAATTTGGTAAAATATATACAATTAATATTTTGGGTAAA
196 TAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATCAA
* * *
29206327 TCAAATTCATATATTAATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTATTATAGTTTG
261 TCAAATTCATATATTAATTATATTCTTTCCAAAAAAATATTAATTTCCATGTCTTTTATATTTTG
29206392 ACCGAAAT
326 ACCGAAAT
29206400 TGAAAATATA
Statistics
Matches: 686, Mismatches: 55, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
412 2 0.00
413 385 0.56
414 11 0.02
415 207 0.30
416 81 0.12
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (413 bp):
AATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTATATTTTGACCGAAATTAATTAA
TATATCTGTTTATATTAATAAATTCGGTAAAATATATAAAATTAATATTTTATATCAATCAAATT
CATATATTAATTATATTCTTTCCAAAAAATATTAATTTTCATGTCTTTTATATTTTGACTGAAAT
TAATTAATATAATTGTTTATATTAATAAATTCGGTAAAATATATACAATTAATATTTTGTATCAA
TCAAATTCATATATTAATTATATTCTTTCCAAAAAAATATTAATTTCCATGTCTTTTATATTTTG
ACCGAAATGAATTAATATAATTATTTATATTAATAAACTCGATAAAATATAAACAACTAAAAGTT
TATATGAATCAAATTCATAAATT
Found at i:29220873 original size:28 final size:28
Alignment explanation
Indices: 29220798--29221041 Score: 287
Period size: 28 Copynumber: 8.5 Consensus size: 28
29220788 AGAAAACATC
* *
29220798 ATACAGTAACAGTCTGGGCCTGAGCCCTATTA
1 ATACAGTAACAGTGTGGGCCTTAGCCC----A
29220830 AGTGACAGT-ACAGTGTGGGCCTTAGCCCA
1 A-T-ACAGTAACAGTGTGGGCCTTAGCCCA
* *
29220859 ATACAGTAACAGTGTAGGCTTTAGCCCA
1 ATACAGTAACAGTGTGGGCCTTAGCCCA
*
29220887 ATACAGTAATAGTGTGGGCCTTAGCCCA
1 ATACAGTAACAGTGTGGGCCTTAGCCCA
* *
29220915 ATATAGTAACAATGTGGGCCTTAGCCCA
1 ATACAGTAACAGTGTGGGCCTTAGCCCA
*
29220943 ATACAG-AATCACTGTGGGCCTTAGCCCA
1 ATACAGTAA-CAGTGTGGGCCTTAGCCCA
* *
29220971 ATACAG-AATCAATGTGGGCCTTAGCCCT
1 ATACAGTAA-CAGTGTGGGCCTTAGCCCA
* *
29220999 ATACAGTAACAATGTCGGCCTTAGCCCA
1 ATACAGTAACAGTGTGGGCCTTAGCCCA
29221027 ATACAGTAACAGTGT
1 ATACAGTAACAGTGT
29221042 AGTGCAATAA
Statistics
Matches: 190, Mismatches: 17, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
27 7 0.04
28 155 0.82
29 4 0.02
32 1 0.01
33 18 0.09
34 5 0.03
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.24
Consensus pattern (28 bp):
ATACAGTAACAGTGTGGGCCTTAGCCCA
Found at i:29221173 original size:26 final size:26
Alignment explanation
Indices: 29221144--29221224 Score: 101
Period size: 26 Copynumber: 3.1 Consensus size: 26
29221134 AACACACCAA
29221144 TATCGCAGCAAAGCTGCTAGTAATAG
1 TATCGCAGCAAAGCTGCTAGTAATAG
* *
29221170 TATCGCAACAAAGCTACTAGT-ATCAG
1 TATCGCAGCAAAGCTGCTAGTAAT-AG
* * *
29221196 TATCGCAGTAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCTAGTAATAG
29221222 TAT
1 TAT
29221225 ATGTGGCAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
25 2 0.04
26 43 0.93
27 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCTAGTAATAG
Found at i:29221514 original size:54 final size:54
Alignment explanation
Indices: 29221445--29221820 Score: 388
Period size: 54 Copynumber: 6.9 Consensus size: 54
29221435 TTTTATCTCC
** * *
29221445 TAGGGGTATAATAGTCATTTTACCCTATAGAGGTATTTTGGTCATTTTACCCTA
1 TAGGGGTATTTTAGTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTA
* *
29221499 TAGGGGTATTTTAGTCATTTTACCCTA-AGAAGGTATTTCGATCATTTTACCCTA
1 TAGGGGTATTTTAGTCATTTTACCCTATAG-GGGTATTTCGGTCATTTTACCCTA
* * *
29221553 TGGGGGTATTTCAGTCATTTTACCCTATAGGAGTATTTCGGTCATTTTACCCTA
1 TAGGGGTATTTTAGTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTA
* * * * ** *
29221607 T-GGGAGTATTATGGTCATTTTATCCTATGGGGGTATTTCACTCATTTTATCCTA
1 TAGGG-GTATTTTAGTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTA
* * *
29221661 TGGGGGTATTTCT-GTTATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTA
1 TAGGGGTATTT-TAGTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTA
* * *
29221715 TGGGGGTATTTTAGTCATTTTACCCTAT-GGGGATATTTCAGTCATTTT-CATCTA
1 TAGGGGTATTTTAGTCATTTTACCCTATAGGGG-TATTTCGGTCATTTTAC-CCTA
* *** *
29221769 TTATGGGTAAAATAGTCATTTTACCCT-TCAGGGGT-TTATTGGTCATTTTACC
1 -TAGGGGTATTTTAGTCATTTTACCCTAT-AGGGGTATT-TCGGTCATTTTACC
29221821 TATTTTGGGG
Statistics
Matches: 274, Mismatches: 35, Indels: 25
0.82 0.10 0.07
Matches are distributed among these distances:
53 11 0.04
54 221 0.81
55 37 0.14
56 5 0.02
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.43
Consensus pattern (54 bp):
TAGGGGTATTTTAGTCATTTTACCCTATAGGGGTATTTCGGTCATTTTACCCTA
Found at i:29221534 original size:81 final size:80
Alignment explanation
Indices: 29221429--29221820 Score: 375
Period size: 81 Copynumber: 4.8 Consensus size: 80
29221419 AAAGCCATAA
* * *
29221429 CAGTCATTTTATCTCCTA-G-GGGTATAATAGTCATTTTACCCTATAGAGGTATTTTGGTCATTT
1 CAGTCATTTTA-C-CCTATGAGGGTAT-ATAGTCATTTTACCCTATGGGGGTATTTTAGTCATTT
29221492 TACCCTATAGGGGTATTT
63 TACCCTATAGGGGTATTT
* * * * * *
29221510 TAGTCATTTTACCCTAAGAAGGTATTTCGATCATTTTACCCTATGGGGGTATTTCAGTCATTTTA
1 CAGTCATTTTACCCTATGAGGGTATATAG-TCATTTTACCCTATGGGGGTATTTTAGTCATTTTA
*
29221575 CCCTATAGGAGTATTT
65 CCCTATAGGGGTATTT
* * * * *
29221591 CGGTCATTTTACCCTATG-GGAGTATTATGGTCATTTTATCCTATGGGGGTATTTCACTCATTTT
1 CAGTCATTTTACCCTATGAGG-GTA-TATAGTCATTTTACCCTATGGGGGTATTTTAGTCATTTT
* *
29221655 ATCCTATGGGGGTATTT
64 ACCCTATAGGGGTATTT
* * * * *
29221672 CTGTTATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTTAGTCATTTTA
1 CAGTCATTTTACCCTATGAGGGTATAT-AGTCATTTTACCCTATGGGGGTATTTTAGTCATTTTA
29221737 CCCTAT-GGGGATATTT
65 CCCTATAGGGG-TATTT
* * * * *
29221753 CAGTCATTTT-CATCTATTATGGGTAAAATAGTCATTTTACCCT-TCAGGGGT-TTATTGGTCAT
1 CAGTCATTTTAC-CCTATGA-GGGT-ATATAGTCATTTTACCCTAT-GGGGGTATT-TTAGTCAT
29221815 TTTACC
61 TTTACC
29221821 TATTTTGGGG
Statistics
Matches: 261, Mismatches: 37, Indels: 25
0.81 0.11 0.08
Matches are distributed among these distances:
79 4 0.02
80 12 0.05
81 203 0.78
82 40 0.15
83 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.19, T:0.43
Consensus pattern (80 bp):
CAGTCATTTTACCCTATGAGGGTATATAGTCATTTTACCCTATGGGGGTATTTTAGTCATTTTAC
CCTATAGGGGTATTT
Found at i:29221769 original size:27 final size:27
Alignment explanation
Indices: 29221457--29221762 Score: 382
Period size: 27 Copynumber: 11.3 Consensus size: 27
29221447 GGGGTATAAT
* * *
29221457 AGTCATTTTACCCTATAGAGGTATTTT
1 AGTCATTTTACCCTATGGGGGTATTTC
* * *
29221484 GGTCATTTTACCCTATAGGGGTATTTT
1 AGTCATTTTACCCTATGGGGGTATTTC
* **
29221511 AGTCATTTTACCCTAAGAAGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
29221538 -GATCATTTTACCCTATGGGGGTATTTC
1 AG-TCATTTTACCCTATGGGGGTATTTC
* *
29221565 AGTCATTTTACCCTATAGGAGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
* *
29221592 GGTCATTTTACCCTATGGGAGTATTAT-
1 AGTCATTTTACCCTATGGGGGTATT-TC
* *
29221619 GGTCATTTTATCCTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
* *
29221646 ACTCATTTTATCCTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
* *
29221673 TGTTATTTTACCCTATGGGGGTATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
* *
29221700 GGTCATTTTACCCTATGGGGGTATTTT
1 AGTCATTTTACCCTATGGGGGTATTTC
*
29221727 AGTCATTTTACCCTATGGGGATATTTC
1 AGTCATTTTACCCTATGGGGGTATTTC
29221754 AGTCATTTT
1 AGTCATTTT
29221763 CATCTATTAT
Statistics
Matches: 246, Mismatches: 29, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
26 2 0.01
27 242 0.98
28 2 0.01
ACGTcount: A:0.21, C:0.16, G:0.20, T:0.43
Consensus pattern (27 bp):
AGTCATTTTACCCTATGGGGGTATTTC
Found at i:29222072 original size:17 final size:18
Alignment explanation
Indices: 29222050--29222084 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
29222040 CATCTGTGTG
29222050 GGGCCCACA-AGCCCATT
1 GGGCCCACACAGCCCATT
29222067 GGGCCCACACAGCCCATT
1 GGGCCCACACAGCCCATT
29222085 TCGGCCCAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.23, C:0.43, G:0.23, T:0.11
Consensus pattern (18 bp):
GGGCCCACACAGCCCATT
Found at i:29222090 original size:19 final size:19
Alignment explanation
Indices: 29222051--29222110 Score: 63
Period size: 20 Copynumber: 3.2 Consensus size: 19
29222041 ATCTGTGTGG
*
29222051 GGCCCACA-AGCCCA-TTG
1 GGCCCACACAGCCCATTTC
29222068 GGCCCACACAGCCCATTTC
1 GGCCCACACAGCCCATTTC
*
29222087 GGCCCA-ACGTGGCCCATTTC
1 GGCCCACAC--AGCCCATTTC
29222107 GGCC
1 GGCC
29222111 TAAGCCCATG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
17 8 0.22
18 8 0.22
19 8 0.22
20 13 0.35
ACGTcount: A:0.18, C:0.43, G:0.23, T:0.15
Consensus pattern (19 bp):
GGCCCACACAGCCCATTTC
Found at i:29231087 original size:19 final size:19
Alignment explanation
Indices: 29230997--29231095 Score: 83
Period size: 19 Copynumber: 5.2 Consensus size: 19
29230987 GGGTGGTACA
*
29230997 CATACTAGCATATGAAGTG
1 CATACTAGCACATGAAGTG
* **
29231016 CATCCT-GACACACAAAGTG
1 CATACTAG-CACATGAAGTG
* **
29231035 TATACTAGCACAAAAAGTG
1 CATACTAGCACATGAAGTG
* *
29231054 CATCCTAGCATATGAAGTG
1 CATACTAGCACATGAAGTG
* *
29231073 CATACTGGCACATGAAATG
1 CATACTAGCACATGAAGTG
29231092 CATA
1 CATA
29231096 GACCCATACA
Statistics
Matches: 62, Mismatches: 16, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
18 1 0.02
19 60 0.97
20 1 0.02
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.22
Consensus pattern (19 bp):
CATACTAGCACATGAAGTG
Found at i:29231226 original size:21 final size:19
Alignment explanation
Indices: 29231194--29231235 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 19
29231184 ATATGAACCA
29231194 ATTTATTTATCAT-AATCTC
1 ATTTATTTATCATCAAT-TC
29231213 ATTTCATTTCATCATCAATTC
1 ATTT-ATTT-ATCATCAATTC
29231234 AT
1 AT
29231236 GTATGTCCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.20
20 4 0.20
21 9 0.45
22 3 0.15
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTATTTATCATCAATTC
Found at i:29233723 original size:25 final size:25
Alignment explanation
Indices: 29233664--29233725 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
29233654 GCTATGAATT
*
29233664 AGTATGCTCAC-TCGAGCGGTAAATC
1 AGTATGCTCTCAT-GAGCGGTAAATC
*
29233689 AGTATGCTCTCATGAGCTGTAAATC
1 AGTATGCTCTCATGAGCGGTAAATC
*
29233714 GGTATGCTCTCA
1 AGTATGCTCTCA
29233726 CAAGCTGTGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 32 0.97
26 1 0.03
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (25 bp):
AGTATGCTCTCATGAGCGGTAAATC
Found at i:29233731 original size:25 final size:25
Alignment explanation
Indices: 29233664--29233733 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
29233654 GCTATGAATT
* * * *
29233664 AGTATGCTCACTCGAGCGGTAAATC
1 AGTATGCTCTCACAAGCTGTAAATC
**
29233689 AGTATGCTCTCATGAGCTGTAAATC
1 AGTATGCTCTCACAAGCTGTAAATC
*
29233714 GGTATGCTCTCACAAGCTGT
1 AGTATGCTCTCACAAGCTGT
29233734 GGGTCGGAAC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (25 bp):
AGTATGCTCTCACAAGCTGTAAATC
Found at i:29243538 original size:29 final size:26
Alignment explanation
Indices: 29243506--29243574 Score: 77
Period size: 26 Copynumber: 2.5 Consensus size: 26
29243496 AAAAATAAAA
29243506 ATTTATCAAAATATTACAAACTTTTTTTT
1 ATTTA-CAAAATATTACAAA--TTTTTTT
*
29243535 ATTTACTAAAATA-TATAAATTTTTTT
1 ATTTAC-AAAATATTACAAATTTTTTT
29243561 ATTTACCAAAATAT
1 ATTTA-CAAAATAT
29243575 ATAAAAAAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
26 18 0.50
27 1 0.03
28 6 0.17
29 11 0.31
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (26 bp):
ATTTACAAAATATTACAAATTTTTTT
Found at i:29243564 original size:26 final size:26
Alignment explanation
Indices: 29243528--29243579 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
29243518 ATTACAAACT
*
29243528 TTTTTTTATTTACTAAAATATATAAA
1 TTTTTTTATTTACCAAAATATATAAA
29243554 TTTTTTTATTTACCAAAATATATAAA
1 TTTTTTTATTTACCAAAATATATAAA
29243580 AAAACCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (26 bp):
TTTTTTTATTTACCAAAATATATAAA
Found at i:29243642 original size:27 final size:27
Alignment explanation
Indices: 29243612--29243697 Score: 104
Period size: 27 Copynumber: 3.2 Consensus size: 27
29243602 CCTGACACCA
* *
29243612 GCCAATTAAATTGGCGGCACCAAAGGT
1 GCCAAATAAATTGGCGGCACCAATGGT
* *
29243639 GCCAAATAAATTGGTGGCACCATTGGT
1 GCCAAATAAATTGGCGGCACCAATGGT
*
29243666 GCCAAAGT-CATTGGCGGCACC-ATGGT
1 GCCAAA-TAAATTGGCGGCACCAATGGT
29243692 GCCAAA
1 GCCAAA
29243698 GGAAAAAATG
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 10 0.20
27 40 0.78
28 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.27, T:0.20
Consensus pattern (27 bp):
GCCAAATAAATTGGCGGCACCAATGGT
Found at i:29243796 original size:19 final size:19
Alignment explanation
Indices: 29243769--29243838 Score: 106
Period size: 19 Copynumber: 3.7 Consensus size: 19
29243759 TCAACTCATT
*
29243769 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
29243788 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
*
29243806 TTTTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
29243825 TTTTAATTTAATAA
1 TTTTAATTTAATAA
29243839 ACTATTAAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
18 16 0.36
19 29 0.64
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:29243819 original size:37 final size:37
Alignment explanation
Indices: 29243769--29243844 Score: 143
Period size: 37 Copynumber: 2.1 Consensus size: 37
29243759 TCAACTCATT
*
29243769 TTTTTATTTAATAACTCTATTTTAATTTAATAAACTA
1 TTTTCATTTAATAACTCTATTTTAATTTAATAAACTA
29243806 TTTTCATTTAATAACTCTATTTTAATTTAATAAACTA
1 TTTTCATTTAATAACTCTATTTTAATTTAATAAACTA
29243843 TT
1 TT
29243845 AAGTAATACT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (37 bp):
TTTTCATTTAATAACTCTATTTTAATTTAATAAACTA
Found at i:29244100 original size:18 final size:19
Alignment explanation
Indices: 29244062--29244100 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
29244052 TCAACTCATT
* *
29244062 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAAATCTA
29244081 TTTTAATTTAATAAAT-TA
1 TTTTAATTTAATAAATCTA
29244099 TT
1 TT
29244101 AAGTAACTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTAATTTAATAAATCTA
Found at i:29244444 original size:37 final size:37
Alignment explanation
Indices: 29244402--29244472 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
29244392 AGTATTACTT
29244402 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
29244439 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
1 AATAGTTTATTAAATTAAAATAGAGTTATTAAAT
29244473 AAAAAATGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.39
Consensus pattern (37 bp):
AATAGTTTATTAAATTAAAATAGAGTTATTAAATGAG
Found at i:29244484 original size:19 final size:19
Alignment explanation
Indices: 29244408--29244476 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
29244398 ACTTAATAGT
29244408 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
* * *
29244427 TTATTAAATGAGAATAG-T
1 TTATTAAATTAAAATAGAG
29244445 TTATTAAATTAAAATAGAG
1 TTATTAAATTAAAATAGAG
29244464 TTATTAAA-TAAAA
1 TTATTAAATTAAAA
29244477 AATGAGTTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 20 0.47
19 23 0.53
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
TTATTAAATTAAAATAGAG
Found at i:29244602 original size:27 final size:26
Alignment explanation
Indices: 29244546--29244631 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 26
29244536 ATTTTTTTCC
*
29244546 TTTGGCACCATGGTGCCGCCAA-TGA
1 TTTGGCACCATGGTGCCGCCAATTTA
*
29244571 CTTTGGCACCAATGGTGCCACCAATTTA
1 -TTTGGCACC-ATGGTGCCGCCAATTTA
* *
29244599 TTTGGCACCTTTGGTGCTGCCAATTTA
1 TTTGGCACC-ATGGTGCCGCCAATTTA
*
29244626 ATTGGC
1 TTTGGC
29244632 TGGTGTCAAG
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 9 0.18
27 40 0.78
28 2 0.04
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (26 bp):
TTTGGCACCATGGTGCCGCCAATTTA
Found at i:29244730 original size:27 final size:27
Alignment explanation
Indices: 29244672--29244759 Score: 126
Period size: 28 Copynumber: 3.3 Consensus size: 27
29244662 TTTTTTTGAT
*
29244672 ATATTTTGATAAATAAAAAAAAGTT-TA
1 ATATTTTGGTAAATAAAAAAAA-TTGTA
29244699 TATATTTTGGTAAATAAAAAAAATTGTA
1 -ATATTTTGGTAAATAAAAAAAATTGTA
*
29244727 ATATTTTGGTAAAT-AAAAAAGTTGTA
1 ATATTTTGGTAAATAAAAAAAATTGTA
29244753 ATATTTT
1 ATATTTT
29244760 AATAAATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
26 18 0.32
27 16 0.28
28 23 0.40
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAATTGTA
Found at i:29244751 original size:26 final size:27
Alignment explanation
Indices: 29244672--29244759 Score: 126
Period size: 27 Copynumber: 3.3 Consensus size: 27
29244662 TTTTTTTGAT
*
29244672 ATATTTTGATAAATAAAAAAAAGTT-TA
1 ATATTTTGGTAAAT-AAAAAAAGTTGTA
*
29244699 TATATTTTGGTAAATAAAAAAAATTGTA
1 -ATATTTTGGTAAATAAAAAAAGTTGTA
29244727 ATATTTTGGTAAAT-AAAAAAGTTGTA
1 ATATTTTGGTAAATAAAAAAAGTTGTA
29244753 ATATTTT
1 ATATTTT
29244760 AATAAATTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
26 18 0.32
27 23 0.41
28 15 0.27
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (27 bp):
ATATTTTGGTAAATAAAAAAAGTTGTA
Found at i:29244765 original size:26 final size:27
Alignment explanation
Indices: 29244672--29244766 Score: 122
Period size: 26 Copynumber: 3.5 Consensus size: 27
29244662 TTTTTTTGAT
29244672 ATATTTTGATAAATAAAAAAAAGTT-TA
1 ATATTTTGATAAAT-AAAAAAAGTTGTA
* *
29244699 TATATTTTGGTAAATAAAAAAAATTGTA
1 -ATATTTTGATAAATAAAAAAAGTTGTA
*
29244727 ATATTTTGGTAAAT-AAAAAAGTTGTA
1 ATATTTTGATAAATAAAAAAAGTTGTA
*
29244753 ATATTTTAATAAAT
1 ATATTTTGATAAAT
29244767 TTTTATTTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
26 23 0.38
27 23 0.38
28 15 0.25
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (27 bp):
ATATTTTGATAAATAAAAAAAGTTGTA
Found at i:29257218 original size:109 final size:109
Alignment explanation
Indices: 29257027--29257251 Score: 441
Period size: 109 Copynumber: 2.1 Consensus size: 109
29257017 ACGAGTATTG
29257027 AAACATTGAAGTATGGCTAAGTATGTATATTTCTGAAATGCATGCTATGAGATGTGTGTACTGAT
1 AAACATTGAAGTATGGCTAAGTATGTATATTTCTGAAATGCATGCTATGAGATGTGTGTACTGAT
29257092 TGAATGTATGTTAGTAAAGTAAAATATTGAATTTAAATTGTCTC
66 TGAATGTATGTTAGTAAAGTAAAATATTGAATTTAAATTGTCTC
29257136 AAACATTGAAGTATGGCTAAGTATGTATATTTCTGAAATGCATGCTATGAGATGTGTGTACTGAT
1 AAACATTGAAGTATGGCTAAGTATGTATATTTCTGAAATGCATGCTATGAGATGTGTGTACTGAT
29257201 TGAATGTATGTTAGTAAAGTAAAATATTGAATTTAAATTGTCTC
66 TGAATGTATGTTAGTAAAGTAAAATATTGAATTTAAATTGTCTC
29257245 AATACAT
1 AA-ACAT
29257252 GAAAAGTCTG
Statistics
Matches: 115, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
109 111 0.97
110 4 0.03
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.37
Consensus pattern (109 bp):
AAACATTGAAGTATGGCTAAGTATGTATATTTCTGAAATGCATGCTATGAGATGTGTGTACTGAT
TGAATGTATGTTAGTAAAGTAAAATATTGAATTTAAATTGTCTC
Found at i:29257531 original size:27 final size:27
Alignment explanation
Indices: 29257493--29257653 Score: 162
Period size: 27 Copynumber: 6.0 Consensus size: 27
29257483 CATGACAGCT
*
29257493 AAAGAATAGCCTTTGTGGCAAACTCTG
1 AAAGAATAGCCTTTGTGGCGAACTCTG
* *
29257520 AAAGGATAGCCTTTGTGGCGAACTCTA
1 AAAGAATAGCCTTTGTGGCGAACTCTG
* * * *
29257547 AAAGAATAACCCTTATGGCAAACTCTG
1 AAAGAATAGCCTTTGTGGCGAACTCTG
*
29257574 AAAGAATAGCCTTTGTGGCGAACTTTG
1 AAAGAATAGCCTTTGTGGCGAACTCTG
* * *
29257601 AAAGGAAT-GTCTTTGTGGTGAACTCGG
1 AAA-GAATAGCCTTTGTGGCGAACTCTG
* * * * *
29257628 AATGGATCGCCTTAGTGGCGTACTCT
1 AAAGAATAGCCTTTGTGGCGAACTCT
29257654 ATCTGATTTC
Statistics
Matches: 107, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
26 3 0.03
27 100 0.93
28 4 0.04
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (27 bp):
AAAGAATAGCCTTTGTGGCGAACTCTG
Found at i:29264715 original size:5 final size:5
Alignment explanation
Indices: 29264686--29264724 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
29264676 TAAATTTAGC
* *
29264686 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCA
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA
29264725 CATCCTAGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:29268255 original size:3 final size:3
Alignment explanation
Indices: 29268249--29268358 Score: 166
Period size: 3 Copynumber: 36.7 Consensus size: 3
29268239 CTAGTACTCT
*
29268249 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTT TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
* * * *
29268297 TTC TCC TTC TTC TTC TCC TTC TTT TTC TTC TTC TTC TTC TTC TTC TTA
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
*
29268345 TTC TTT TTC TTC TT
1 TTC TTC TTC TTC TT
29268359 GAGTCGGGCT
Statistics
Matches: 95, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 95 1.00
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:29273251 original size:101 final size:101
Alignment explanation
Indices: 29273076--29273268 Score: 350
Period size: 101 Copynumber: 1.9 Consensus size: 101
29273066 GAAGATGCTT
* *
29273076 CAAGTGTGGATCCAAAGAACATATGCTTAGGGACTGGTTGGAACGCGTGGAGAGGTCACAAACTC
1 CAAGTGTGGATCCAAAGAACATATGCTAAGGGACTGGTTGAAACGCGTGGAGAGGTCACAAACTC
*
29273141 AGAGTTTAATCCCCATACCACTACAAGTAGGTGAAG
66 AAAGTTTAATCCCCATACCACTACAAGTAGGTGAAG
*
29273177 CAAGTGTGGATCCAAAGAACATATGCTAAGGGACTGGTTGAAACGGGTGGAGAGGTCACAAACTC
1 CAAGTGTGGATCCAAAGAACATATGCTAAGGGACTGGTTGAAACGCGTGGAGAGGTCACAAACTC
29273242 AAAGTTTAATCCCCATACCACTACAAG
66 AAAGTTTAATCCCCATACCACTACAAG
29273269 AAGATGCTCG
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 88 1.00
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.20
Consensus pattern (101 bp):
CAAGTGTGGATCCAAAGAACATATGCTAAGGGACTGGTTGAAACGCGTGGAGAGGTCACAAACTC
AAAGTTTAATCCCCATACCACTACAAGTAGGTGAAG
Found at i:29277494 original size:53 final size:53
Alignment explanation
Indices: 29277414--29277514 Score: 148
Period size: 53 Copynumber: 1.9 Consensus size: 53
29277404 TCACAACACT
* * * * *
29277414 GAAGACCATATCGTGTAAGATCGTAACTGGTGGATTATGGCATCATATATACA
1 GAAGACCATATCATGTAAGACCATAACTAGTGGATTATGACATCATATATACA
*
29277467 GAAGACTATATCATGTAAGACCATAACTAGTGGATTATGACATCATAT
1 GAAGACCATATCATGTAAGACCATAACTAGTGGATTATGACATCATAT
29277515 GAAAGAATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 42 1.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29
Consensus pattern (53 bp):
GAAGACCATATCATGTAAGACCATAACTAGTGGATTATGACATCATATATACA
Found at i:29277734 original size:61 final size:61
Alignment explanation
Indices: 29277637--29277801 Score: 215
Period size: 60 Copynumber: 2.7 Consensus size: 61
29277627 CAGGAAAGGA
* * * * *
29277637 AAAGCCTTTTGTGGCGAGTACTGGATGTAAAAGAATGCCTTTGTTGCAAAACTTTGGATAGG
1 AAAGCC-TTTGTGGTGAGTACTGAATGTAAAAGAATGCCTTTGTTGCAAAAATCTGGACAGG
* * * *
29277699 AAAGCCTTTGTCGTGAGTACTGAATGTAAATGAATGCCTTT-ATGTAAAAATCTGGACAGG
1 AAAGCCTTTGTGGTGAGTACTGAATGTAAAAGAATGCCTTTGTTGCAAAAATCTGGACAGG
* *
29277759 AAAGCCTTTGTGGTGAGTATTGAATGTAAAGGAATGCCTTTGT
1 AAAGCCTTTGTGGTGAGTACTGAATGTAAAAGAATGCCTTTGT
29277802 GGTGATTACT
Statistics
Matches: 89, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
60 52 0.58
61 31 0.35
62 6 0.07
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (61 bp):
AAAGCCTTTGTGGTGAGTACTGAATGTAAAAGAATGCCTTTGTTGCAAAAATCTGGACAGG
Found at i:29277798 original size:32 final size:32
Alignment explanation
Indices: 29277756--29277836 Score: 101
Period size: 32 Copynumber: 2.5 Consensus size: 32
29277746 AAATCTGGAC
*
29277756 AGGAAAGCCTTTGTGGTGAGTATTGA-ATGTAA
1 AGGAAAGCCTTTGTGGTGAGTACT-ATATGTAA
* *
29277788 AGGAATGCCTTTGTGGTGATTACTATATGTAA
1 AGGAAAGCCTTTGTGGTGAGTACTATATGTAA
* *
29277820 AGGAACGTCTTTGTGGT
1 AGGAAAGCCTTTGTGGT
29277837 AAAAATTTGG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
31 1 0.02
32 42 0.98
ACGTcount: A:0.27, C:0.09, G:0.30, T:0.35
Consensus pattern (32 bp):
AGGAAAGCCTTTGTGGTGAGTACTATATGTAA
Found at i:29277818 original size:92 final size:94
Alignment explanation
Indices: 29277696--29277868 Score: 217
Period size: 92 Copynumber: 1.9 Consensus size: 94
29277686 AACTTTGGAT
* * *
29277696 AGGAAAGCCTTTGTCGTGAGTACTGAATGTAAATGAATGCCTTTAT-GTAAAAATCTGGACAGGA
1 AGGAAAGCCTTTGTCGTGAGTACTGAATGTAAAGGAACGCCTTTATGGTAAAAATCTGGACAAGA
* *
29277760 A-AGCCTTTGTGGTGAGTATTGAATGTAA
66 ATAGACTTTATGGTGAGTATTGAATGTAA
* * * * * *
29277788 AGGAATGCCTTTGTGGTGATTACT-ATATGTAAAGGAACGTCTTTGTGGTAAAAATTTGGACAAG
1 AGGAAAGCCTTTGTCGTGAGTACTGA-ATGTAAAGGAACGCCTTTATGGTAAAAATCTGGACAAG
29277852 AATAGACTTTATGGTGA
65 AATAGACTTTATGGTGA
29277869 CCTCTGTTAA
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
91 1 0.01
92 37 0.55
93 17 0.25
94 12 0.18
ACGTcount: A:0.32, C:0.10, G:0.26, T:0.32
Consensus pattern (94 bp):
AGGAAAGCCTTTGTCGTGAGTACTGAATGTAAAGGAACGCCTTTATGGTAAAAATCTGGACAAGA
ATAGACTTTATGGTGAGTATTGAATGTAA
Found at i:29278815 original size:63 final size:63
Alignment explanation
Indices: 29278716--29278836 Score: 224
Period size: 63 Copynumber: 1.9 Consensus size: 63
29278706 AAGTATGTAC
*
29278716 CGAGGGACAATTACAGGGCTGCAACAAAGGAGTGGCAAAATGGGCTATTATGCATACATGTGT
1 CGAGGGACAACTACAGGGCTGCAACAAAGGAGTGGCAAAATGGGCTATTATGCATACATGTGT
*
29278779 CGAGGGACAACTGCAGGGCTGCAACAAAGGAGTGGCAAAATGGGCTATTATGCATACA
1 CGAGGGACAACTACAGGGCTGCAACAAAGGAGTGGCAAAATGGGCTATTATGCATACA
29278837 GATCTAGCTA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 56 1.00
ACGTcount: A:0.34, C:0.17, G:0.31, T:0.18
Consensus pattern (63 bp):
CGAGGGACAACTACAGGGCTGCAACAAAGGAGTGGCAAAATGGGCTATTATGCATACATGTGT
Found at i:29281400 original size:26 final size:26
Alignment explanation
Indices: 29281371--29281456 Score: 82
Period size: 26 Copynumber: 3.2 Consensus size: 26
29281361 TGGAAAACCC
29281371 TAAAGAATGATATGTATGGCTAACTT
1 TAAAGAATGATATGTATGGCTAACTT
** * * *
29281397 TAAAGAATGGCAAGTATGACAAACTT
1 TAAAGAATGATATGTATGGCTAACTT
* * *
29281423 TGAAGAAATGATATGTGTGGCTAGCTT
1 TAAAG-AATGATATGTATGGCTAACTT
29281450 TGAAAGA
1 T-AAAGA
29281457 CTGGTAGGTA
Statistics
Matches: 44, Mismatches: 14, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
26 25 0.57
27 16 0.36
28 3 0.07
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (26 bp):
TAAAGAATGATATGTATGGCTAACTT
Found at i:29281481 original size:54 final size:53
Alignment explanation
Indices: 29281376--29281481 Score: 131
Period size: 54 Copynumber: 2.0 Consensus size: 53
29281366 AACCCTAAAG
*
29281376 AATGATATGTATGGCTAACTTTAAAGAATGGCAAGTATGACAAACTTTGAAGA
1 AATGATATGTATGGCTAACTTTAAAGAATGGCAAGTATGACAAACTCTGAAGA
* * * * * **
29281429 AATGATATGTGTGGCTAGCTTTGAAAGACTGGTAGGTATGATGAACTCTGAAG
1 AATGATATGTATGGCTAACTTT-AAAGAATGGCAAGTATGACAAACTCTGAAG
29281482 GAATAGTACA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
53 20 0.45
54 24 0.55
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.29
Consensus pattern (53 bp):
AATGATATGTATGGCTAACTTTAAAGAATGGCAAGTATGACAAACTCTGAAGA
Found at i:29286023 original size:20 final size:20
Alignment explanation
Indices: 29285981--29286026 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
29285971 ATCATGATCT
*
29285981 TTACTTCTTTACTTTCTCTC
1 TTACTTCTTTACTTACTCTC
*
29286001 TTACTTGTTTACTTACT-TGC
1 TTACTTCTTTACTTACTCT-C
29286021 TTACTT
1 TTACTT
29286027 AAATAACTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 22 0.96
ACGTcount: A:0.13, C:0.24, G:0.04, T:0.59
Consensus pattern (20 bp):
TTACTTCTTTACTTACTCTC
Found at i:29286371 original size:50 final size:50
Alignment explanation
Indices: 29286317--29286420 Score: 120
Period size: 50 Copynumber: 2.1 Consensus size: 50
29286307 ATATGGGAGT
* * *
29286317 TCTCATATCGTTGCCCATGCCATGTCCCAGACATGGCCTTACG-GCGGACC
1 TCTCATATCGGTGCCAAGGCCATGTCCCAGACATGGCCTTACGTG-GGACC
* * * * *
29286367 TCTCATCTCGGTGCCAAGGCTATGTCCCATACATGGTCTTATGTGGGACC
1 TCTCATATCGGTGCCAAGGCCATGTCCCAGACATGGCCTTACGTGGGACC
29286417 TCTC
1 TCTC
29286421 GTTACTTCAA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
50 44 0.98
51 1 0.02
ACGTcount: A:0.17, C:0.33, G:0.22, T:0.28
Consensus pattern (50 bp):
TCTCATATCGGTGCCAAGGCCATGTCCCAGACATGGCCTTACGTGGGACC
Found at i:29291756 original size:13 final size:13
Alignment explanation
Indices: 29291738--29291796 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
29291728 AAATGAATAA
29291738 ATGAATTGGTTAT
1 ATGAATTGGTTAT
29291751 ATGAATTGGTTAT
1 ATGAATTGGTTAT
* * *
29291764 ATAGAAATAGATAT
1 AT-GAATTGGTTAT
*
29291778 ATGAAATGGTTAT
1 ATGAATTGGTTAT
29291791 ATGAAT
1 ATGAAT
29291797 CGATTATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
13 29 0.74
14 10 0.26
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.39
Consensus pattern (13 bp):
ATGAATTGGTTAT
Found at i:29291793 original size:40 final size:40
Alignment explanation
Indices: 29291738--29291826 Score: 151
Period size: 40 Copynumber: 2.2 Consensus size: 40
29291728 AAATGAATAA
* * *
29291738 ATGAATTGGTTATATGAATTGGTTATATAGAAATAGATAT
1 ATGAAATGGTTATATGAATCGATTATATAGAAATAGATAT
29291778 ATGAAATGGTTATATGAATCGATTATATAGAAATAGATAT
1 ATGAAATGGTTATATGAATCGATTATATAGAAATAGATAT
29291818 ATGAAATGG
1 ATGAAATGG
29291827 AACATTGGAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.43, C:0.01, G:0.20, T:0.36
Consensus pattern (40 bp):
ATGAAATGGTTATATGAATCGATTATATAGAAATAGATAT
Found at i:29291803 original size:13 final size:13
Alignment explanation
Indices: 29291728--29291825 Score: 67
Period size: 13 Copynumber: 7.4 Consensus size: 13
29291718 ATCGGGTGAA
* *
29291728 AAATGAATAAATG
1 AAATGATTATATG
* *
29291741 AATTGGTTATATG
1 AAATGATTATATG
* *
29291754 AATTGGTTATATAG
1 AAATGATTATAT-G
29291768 AAATAGA-TATATG
1 AAAT-GATTATATG
*
29291781 AAATGGTTATATG
1 AAATGATTATATG
29291794 -AATCGATTATATAG
1 AAAT-GATTATAT-G
29291808 AAATAGA-TATATG
1 AAAT-GATTATATG
29291821 AAATG
1 AAATG
29291826 GAACATTGGA
Statistics
Matches: 70, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
12 5 0.07
13 44 0.63
14 15 0.21
15 6 0.09
ACGTcount: A:0.46, C:0.01, G:0.18, T:0.35
Consensus pattern (13 bp):
AAATGATTATATG
Found at i:29291810 original size:27 final size:26
Alignment explanation
Indices: 29291738--29291822 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 26
29291728 AAATGAATAA
* * *
29291738 ATGAATTGGTTATATGAATTGGTTAT
1 ATGAATAGATTATATGAAATGGTTAT
29291764 ATAGAAATAGA-TATATGAAATGGTTAT
1 AT-G-AATAGATTATATGAAATGGTTAT
* * *
29291791 ATGAATCGATTATATAGAAATAGATAT
1 ATGAATAGATTATAT-GAAATGGTTAT
29291818 ATGAA
1 ATGAA
29291823 ATGGAACATT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
25 5 0.10
26 8 0.16
27 32 0.65
28 4 0.08
ACGTcount: A:0.44, C:0.01, G:0.19, T:0.36
Consensus pattern (26 bp):
ATGAATAGATTATATGAAATGGTTAT
Found at i:29293286 original size:24 final size:24
Alignment explanation
Indices: 29293259--29293310 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
29293249 AAGCTATGAT
29293259 TTGTAAGTACAACTAGAACATTAC
1 TTGTAAGTACAACTAGAACATTAC
***
29293283 TTGTTTTTACAACTAGAACATTAC
1 TTGTAAGTACAACTAGAACATTAC
29293307 TTGT
1 TTGT
29293311 TTTTATTATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (24 bp):
TTGTAAGTACAACTAGAACATTAC
Found at i:29293311 original size:24 final size:24
Alignment explanation
Indices: 29293266--29293315 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
29293256 GATTTGTAAG
29293266 TACAACTAGAACATTACTTGTTTT
1 TACAACTAGAACATTACTTGTTTT
29293290 TACAACTAGAACATTACTTGTTTT
1 TACAACTAGAACATTACTTGTTTT
29293314 TA
1 TA
29293316 TTATGTAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.16, G:0.08, T:0.42
Consensus pattern (24 bp):
TACAACTAGAACATTACTTGTTTT
Found at i:29313008 original size:7 final size:7
Alignment explanation
Indices: 29312998--29313022 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
29312988 TTTTCTTTTT
29312998 TTTTTAA
1 TTTTTAA
29313005 TTTTTAA
1 TTTTTAA
29313012 TTTTTAA
1 TTTTTAA
29313019 TTTT
1 TTTT
29313023 GTGTCTCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTAA
Found at i:29316341 original size:24 final size:24
Alignment explanation
Indices: 29316295--29316340 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
29316285 TTATGTGTAC
29316295 TTATTTTTTCTCTTCTTTCTTTTA
1 TTATTTTTTCTCTTCTTTCTTTTA
29316319 TTATTATTTT-TCTT-TTTCTTTT
1 TTATT-TTTTCTCTTCTTTCTTTT
29316341 TTTTTCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 8 0.38
24 9 0.43
25 4 0.19
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.78
Consensus pattern (24 bp):
TTATTTTTTCTCTTCTTTCTTTTA
Found at i:29322583 original size:10 final size:10
Alignment explanation
Indices: 29322568--29322645 Score: 56
Period size: 10 Copynumber: 7.9 Consensus size: 10
29322558 TTTAAAAAAC
29322568 AATAATTTTT
1 AATAATTTTT
29322578 AATAATTTTT
1 AATAATTTTT
*
29322588 -ACAATCTTTT
1 AATAAT-TTTT
** *
29322598 -GCAATTTTA
1 AATAATTTTT
29322607 AATAATTATTTT
1 AATAA-T-TTTT
29322619 AATAATTTTT
1 AATAATTTTT
*
29322629 AAT-TTTTTT
1 AATAATTTTT
29322638 AAT-ATTTT
1 AATAATTTT
29322646 AACATATTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
9 19 0.34
10 27 0.48
11 2 0.04
12 8 0.14
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (10 bp):
AATAATTTTT
Found at i:29322637 original size:19 final size:18
Alignment explanation
Indices: 29322609--29322645 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
29322599 CAATTTTAAA
29322609 TAATTATTTTAATAATTTT
1 TAATTATTTTAAT-ATTTT
*
29322628 TAATTTTTTTAATATTTT
1 TAATTATTTTAATATTTT
29322646 AACATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TAATTATTTTAATATTTT
Found at i:29322655 original size:19 final size:19
Alignment explanation
Indices: 29322600--29322657 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
29322590 AATCTTTTGC
29322600 AATTTTAAATAATTATTTTAAT
1 AATTTTAAAT-A-T-TTTTAAT
* *
29322622 AATTTTTAATTTTTTTAAT
1 AATTTTAAATATTTTTAAT
29322641 -ATTTTAACATATTTTTA
1 AATTTTAA-ATATTTTTA
29322658 TTTTTTTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
18 6 0.19
19 15 0.48
20 1 0.03
22 9 0.29
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
AATTTTAAATATTTTTAAT
Found at i:29344392 original size:29 final size:29
Alignment explanation
Indices: 29344359--29344526 Score: 152
Period size: 29 Copynumber: 5.9 Consensus size: 29
29344349 CGAAAGCGTC
*
29344359 CTTTTAACAGAAATAGCCACAAAGGCATAT
1 CTTTTAACAGAGATAGCCACAAAGGCAT-T
*
29344389 -TTTTAATAGAGATAGCCACAAAGGCATT
1 CTTTTAACAGAGATAGCCACAAAGGCATT
* * **
29344417 CTTTTAA-ATAAGATAGCCACAAATGCAAA
1 CTTTTAACA-GAGATAGCCACAAAGGCATT
* *
29344446 CTTATAATAGAGATCA-CCACAAAGGCATT
1 CTTTTAACAGAGAT-AGCCACAAAGGCATT
29344475 CTTTTAACTA-AGATAGCCACAAAGGC-TT
1 CTTTTAAC-AGAGATAGCCACAAAGGCATT
* * *
29344503 CCTTT--CAGAGATAACCATAAAGGC
1 CTTTTAACAGAGATAGCCACAAAGGC
29344527 GTGCATTCAG
Statistics
Matches: 115, Mismatches: 16, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
25 1 0.01
26 15 0.13
28 9 0.08
29 87 0.76
30 3 0.03
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (29 bp):
CTTTTAACAGAGATAGCCACAAAGGCATT
Found at i:29344422 original size:58 final size:57
Alignment explanation
Indices: 29344359--29344500 Score: 180
Period size: 58 Copynumber: 2.4 Consensus size: 57
29344349 CGAAAGCGTC
* * *
29344359 CTTTTAACAGAAATAGCCACAAAGGCATATTTTTAATAGAGAT-AGCCACAAAGGCATT
1 CTTTTAACA-AAATAGCCACAAAGGCAAACTTATAATAGAGATCA-CCACAAAGGCATT
*
29344417 CTTTTAA-ATAAGATAGCCACAAATGCAAACTTATAATAGAGATCACCACAAAGGCATT
1 CTTTTAACA-AA-ATAGCCACAAAGGCAAACTTATAATAGAGATCACCACAAAGGCATT
*
29344475 CTTTTAACTAAGATAGCCACAAAGGC
1 CTTTTAAC-AAAATAGCCACAAAGGC
29344501 TTCCTTTCAG
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
57 3 0.04
58 67 0.92
59 2 0.03
60 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (57 bp):
CTTTTAACAAAATAGCCACAAAGGCAAACTTATAATAGAGATCACCACAAAGGCATT
Found at i:29344524 original size:26 final size:26
Alignment explanation
Indices: 29344485--29344553 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 26
29344475 CTTTTAACTA
* *
29344485 AGATAGCCACAAAGGCTTCCTTTCAG
1 AGATAACCACAAAGGCTTCCATTCAG
* * *
29344511 AGATAACCATAAAGGCGTGCATTCAG
1 AGATAACCACAAAGGCTTCCATTCAG
*
29344537 AGATAACCGCAAAGGCT
1 AGATAACCACAAAGGCT
29344554 CTATAACCCC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (26 bp):
AGATAACCACAAAGGCTTCCATTCAG
Found at i:29344712 original size:23 final size:24
Alignment explanation
Indices: 29344686--29344730 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
29344676 AAACATCGTG
29344686 TTCC-TTTCAATAAAAAATATTTA
1 TTCCTTTTCAATAAAAAATATTTA
* *
29344709 TTCCTTTTTAATTAAAAATATT
1 TTCCTTTTCAATAAAAAATATT
29344731 CTTATTGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (24 bp):
TTCCTTTTCAATAAAAAATATTTA
Found at i:29345845 original size:29 final size:29
Alignment explanation
Indices: 29345803--29345861 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
29345793 TCCTCTTTGA
29345803 TTGAGTTTTTTCAACTCCACTCGAGTACT
1 TTGAGTTTTTTCAACTCCACTCGAGTACT
29345832 TTGAGTTTTTTCAACTCCACTCGAGTACT
1 TTGAGTTTTTTCAACTCCACTCGAGTACT
29345861 T
1 T
29345862 AATGTACTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (29 bp):
TTGAGTTTTTTCAACTCCACTCGAGTACT
Found at i:29347857 original size:26 final size:27
Alignment explanation
Indices: 29347828--29347889 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
29347818 AGGGGTAAAA
*
29347828 TGGTAATTTTA-CCTCTAGGGGTATTT
1 TGGTCATTTTACCCTCTAGGGGTATTT
* *
29347854 TGGTCATTTTACCCTTTATGGGTATTT
1 TGGTCATTTTACCCTCTAGGGGTATTT
29347881 TGGTCATTT
1 TGGTCATTT
29347890 AATAACTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 10 0.31
27 22 0.69
ACGTcount: A:0.16, C:0.13, G:0.21, T:0.50
Consensus pattern (27 bp):
TGGTCATTTTACCCTCTAGGGGTATTT
Found at i:29358897 original size:42 final size:42
Alignment explanation
Indices: 29358838--29358979 Score: 169
Period size: 42 Copynumber: 3.2 Consensus size: 42
29358828 ATACTGACCT
29358838 TAAAGTAAGTCATAGCTTTCTGGTTCCACAAACGTCTAATAG
1 TAAAGTAAGTCATAGCTTTCTGGTTCCACAAACGTCTAATAG
*
29358880 TAAAGTAAGTCATAGCTTTCTGGTTCCACATATGTCTCGACTTCTAAATAG
1 TAAAGTAAGTCATAGCTTTCTGGTTCCACA-A-------ACGTCT-AATAG
* *
29358931 -GAAGTAAGTCATAGCTTTTTGGTTCCACAAACGTCTAATAG
1 TAAAGTAAGTCATAGCTTTCTGGTTCCACAAACGTCTAATAG
29358972 TAAAGTAA
1 TAAAGTAA
29358980 AAAATGTCTA
Statistics
Matches: 85, Mismatches: 5, Indels: 20
0.77 0.05 0.18
Matches are distributed among these distances:
41 5 0.06
42 41 0.48
43 1 0.01
49 1 0.01
50 32 0.38
51 5 0.06
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (42 bp):
TAAAGTAAGTCATAGCTTTCTGGTTCCACAAACGTCTAATAG
Found at i:29365351 original size:18 final size:18
Alignment explanation
Indices: 29365328--29365363 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
29365318 CTTTTTTCCA
*
29365328 TATTAGTACGTCCTAGGT
1 TATTAGCACGTCCTAGGT
*
29365346 TATTAGCACGTCTTAGGT
1 TATTAGCACGTCCTAGGT
29365364 CTACATAGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (18 bp):
TATTAGCACGTCCTAGGT
Found at i:29365423 original size:37 final size:37
Alignment explanation
Indices: 29365366--29365443 Score: 120
Period size: 37 Copynumber: 2.1 Consensus size: 37
29365356 TCTTAGGTCT
** *
29365366 ACATAGTTGGTGTTCTGTTTTGCAATGACAAAATTTG
1 ACATAGTTGACGTTCAGTTTTGCAATGACAAAATTTG
*
29365403 ACATAGTTGACGTTCAGTTTTGCAATGACATAATTTG
1 ACATAGTTGACGTTCAGTTTTGCAATGACAAAATTTG
29365440 ACAT
1 ACAT
29365444 TATGTTAAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.38
Consensus pattern (37 bp):
ACATAGTTGACGTTCAGTTTTGCAATGACAAAATTTG
Found at i:29371091 original size:31 final size:28
Alignment explanation
Indices: 29371019--29371093 Score: 80
Period size: 31 Copynumber: 2.6 Consensus size: 28
29371009 AAATATGTAT
29371019 TTTTTATTTTTTA-AATAAATTTAATAA
1 TTTTTATTTTTTATAATAAATTTAATAA
** *
29371046 TTATTTATGATTTATAATAATTTTTATATAA
1 TT-TTTATTTTTTATAATAA-ATTTA-ATAA
29371077 TTTTATATTTTTTATAA
1 TTTT-TATTTTTTATAA
29371094 CTACAATTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 2 0.05
28 9 0.24
29 5 0.13
30 6 0.16
31 16 0.42
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (28 bp):
TTTTTATTTTTTATAATAAATTTAATAA
Found at i:29371247 original size:16 final size:17
Alignment explanation
Indices: 29371226--29371264 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
29371216 TTTTAAATAA
29371226 TTATTTTAAA-TTTTAT
1 TTATTTTAAAGTTTTAT
29371242 TTA-TTTAAAGTTTTAT
1 TTATTTTAAAGTTTTAT
29371258 TTATTTT
1 TTATTTT
29371265 TTAAAAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.29
16 12 0.57
17 3 0.14
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (17 bp):
TTATTTTAAAGTTTTAT
Found at i:29372270 original size:17 final size:16
Alignment explanation
Indices: 29372226--29372294 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
29372216 AGTGGTTCGC
*
29372226 TGTATTAGATTAGAGG
1 TGTATTGGATTAGAGG
*
29372242 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
29372258 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
29372275 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
29372291 TGTA
1 TGTA
29372295 ATAGCTAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
16 33 0.67
17 16 0.33
ACGTcount: A:0.26, C:0.01, G:0.36, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:29372359 original size:44 final size:45
Alignment explanation
Indices: 29372275--29372365 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
29372265 GGATTAGAGG
* * *
29372275 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
29372320 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
29372364 TG
1 TG
29372366 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:29372551 original size:18 final size:17
Alignment explanation
Indices: 29372530--29372564 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
29372520 TTATTATTAA
*
29372530 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
29372548 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
29372565 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:29372792 original size:18 final size:17
Alignment explanation
Indices: 29372771--29372805 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
29372761 TTATTATTAA
*
29372771 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
29372789 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
29372806 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:29372998 original size:119 final size:120
Alignment explanation
Indices: 29372513--29373134 Score: 1142
Period size: 119 Copynumber: 5.2 Consensus size: 120
29372503 ATCATATTTA
29372513 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
29372578 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
* *
29372633 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGA-T
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAA-T-AATT
*
29372697 AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
64 AATATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
29372754 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
29372819 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
29372874 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAA-AAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
29372938 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
29372993 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAA-AAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
29373057 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTCTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
29373112 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
29373135 AACTTGAAAA
Statistics
Matches: 492, Mismatches: 7, Indels: 7
0.97 0.01 0.01
Matches are distributed among these distances:
119 215 0.44
120 160 0.33
121 116 0.24
122 1 0.00
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:29373127 original size:241 final size:241
Alignment explanation
Indices: 29372513--29373134 Score: 1144
Period size: 241 Copynumber: 2.6 Consensus size: 241
29372503 ATCATATTTA
29372513 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
29372578 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
* *
29372643 TTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATTGGATAATATTCTTAT
131 TTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATTGAATAATATTCTTAT
*
29372708 ATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
196 ATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
29372754 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
29372819 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
*
29372884 TTATTAAATATATTTTAATTAAACTATATAATTTAA-AAAATTCTTAA-T-AATTAATATTCTTA
131 TTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATTGAA-TAATATTCTTA
29372946 TATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
195 TATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
29372993 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAA-AAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
29373057 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTCTAAAATATAAATTAACATAATTA
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
29373122 TTATTAAATATAT
131 TTATTAAATATAT
29373135 AACTTGAAAA
Statistics
Matches: 373, Mismatches: 7, Indels: 5
0.97 0.02 0.01
Matches are distributed among these distances:
238 96 0.26
239 103 0.28
240 10 0.03
241 164 0.44
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (241 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATTAACATAATTA
TTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATTGAATAATATTCTTAT
ATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:29376196 original size:33 final size:33
Alignment explanation
Indices: 29376157--29376266 Score: 136
Period size: 33 Copynumber: 3.3 Consensus size: 33
29376147 ATTATAAAGC
29376157 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* *
29376190 ATGTATAATTGACCTAAAATTACTTGTTGGTTT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTGT
* *
29376223 AATGT-T-ATTGTCCCTAAAA-AACATTGTTGGTGT
1 -ATGTATAATTG-ACCTAAAATTA-ATTGTTGGTGT
29376256 ATGTATAATTG
1 ATGTATAATTG
29376267 TTGGTTTAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
32 9 0.14
33 49 0.74
34 8 0.12
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTGT
Found at i:29376273 original size:51 final size:51
Alignment explanation
Indices: 29376213--29376429 Score: 303
Period size: 51 Copynumber: 4.0 Consensus size: 51
29376203 CTAAAATTAC
29376213 TTGTTGGTTTAATGTTATTGT-CCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATT-TACCCTAAAAAACATTGTTGGTGTATGTATAA
29376264 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAATTGTTGGTTTAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATG--T-A---------TAA
29376327 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
29376378 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATG-ATAA
1 TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
29376428 TT
1 TT
29376430 TTTACGTATA
Statistics
Matches: 153, Mismatches: 0, Indels: 27
0.85 0.00 0.15
Matches are distributed among these distances:
50 7 0.05
51 93 0.61
53 1 0.01
54 1 0.01
60 1 0.01
61 1 0.01
63 49 0.32
ACGTcount: A:0.28, C:0.07, G:0.18, T:0.46
Consensus pattern (51 bp):
TTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAA
Found at i:29376300 original size:33 final size:33
Alignment explanation
Indices: 29376263--29376367 Score: 92
Period size: 33 Copynumber: 3.3 Consensus size: 33
29376253 TGTATGTATA
29376263 ATTGTTGGTTTAATGTTATTTACCCTAAAAAAC
1 ATTGTTGGTTTAATGTTATTTACCCTAAAAAAC
* * ** *****
29376296 ATTGTTGGTGT-ATGTATAATT--GTTGGTTTA-
1 ATTGTTGGTTTAATGT-TATTTACCCTAAAAAAC
29376326 ATTGTTGGTTTAATGTTATTTACCCTAAAAAAC
1 ATTGTTGGTTTAATGTTATTTACCCTAAAAAAC
29376359 ATTGTTGGT
1 ATTGTTGGT
29376368 GTATGTATAA
Statistics
Matches: 49, Mismatches: 18, Indels: 10
0.64 0.23 0.13
Matches are distributed among these distances:
30 14 0.29
31 6 0.12
32 6 0.12
33 23 0.47
ACGTcount: A:0.28, C:0.08, G:0.18, T:0.47
Consensus pattern (33 bp):
ATTGTTGGTTTAATGTTATTTACCCTAAAAAAC
Found at i:29376329 original size:12 final size:12
Alignment explanation
Indices: 29376312--29376339 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
29376302 GGTGTATGTA
29376312 TAATTGTTGGTT
1 TAATTGTTGGTT
29376324 TAATTGTTGGTT
1 TAATTGTTGGTT
29376336 TAAT
1 TAAT
29376340 GTTATTTACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.57
Consensus pattern (12 bp):
TAATTGTTGGTT
Found at i:29376339 original size:63 final size:63
Alignment explanation
Indices: 29376261--29376390 Score: 260
Period size: 63 Copynumber: 2.1 Consensus size: 63
29376251 GGTGTATGTA
29376261 TAATTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAATTGTTGGTT
1 TAATTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAATTGTTGGTT
29376324 TAATTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAATTGTTGGTT
1 TAATTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAATTGTTGGTT
29376387 TAAT
1 TAAT
29376391 GTTATTTACC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.28, C:0.06, G:0.18, T:0.48
Consensus pattern (63 bp):
TAATTGTTGGTTTAATGTTATTTACCCTAAAAAACATTGTTGGTGTATGTATAATTGTTGGTT
Found at i:29376372 original size:114 final size:113
Alignment explanation
Indices: 29376213--29376429 Score: 409
Period size: 114 Copynumber: 1.9 Consensus size: 113
29376203 CTAAAATTAC
29376213 TTGTTGGTTTAATGTTATTGTCCCTAAAAAACATTGTTGGTGTATGTATAATTGTTGGTTTAATG
1 TTGTTGGTTTAATGTTATTGTCCCTAAAAAACATTGTTGGTGTATGTATAATTGTTGGTTTAATG
29376278 TTATTTACCCTAAAAAACATTGTTGGTGTATGTATAATTGTTGGTTTAA
66 TTATTTACCCTAAAAAACATTGTTGGTGTATG-ATAATTGTTGGTTTAA
29376327 TTGTTGGTTTAATGTTATT-TACCCTAAAAAACATTGTTGGTGTATGTATAATTGTTGGTTTAAT
1 TTGTTGGTTTAATGTTATTGT-CCCTAAAAAACATTGTTGGTGTATGTATAATTGTTGGTTTAAT
29376391 GTTATTTACCCTAAAAAACATTGTTGGTGTATGATAATT
65 GTTATTTACCCTAAAAAACATTGTTGGTGTATGATAATT
29376430 TTTACGTATA
Statistics
Matches: 102, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
113 7 0.07
114 95 0.93
ACGTcount: A:0.28, C:0.07, G:0.18, T:0.46
Consensus pattern (113 bp):
TTGTTGGTTTAATGTTATTGTCCCTAAAAAACATTGTTGGTGTATGTATAATTGTTGGTTTAATG
TTATTTACCCTAAAAAACATTGTTGGTGTATGATAATTGTTGGTTTAA
Found at i:29376596 original size:84 final size:86
Alignment explanation
Indices: 29376496--29376674 Score: 337
Period size: 84 Copynumber: 2.1 Consensus size: 86
29376486 TTCTCTCCAC
29376496 ATAA-AATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
1 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
29376560 TTAATATTAAA-AT-AAAATT
66 TTAATATTAAAGATAAAAATT
29376579 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
1 ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
29376644 TTAATATTAAAGATAAAAATT
66 TTAATATTAAAGATAAAAATT
29376665 ATAATAATTA
1 ATAATAATTA
29376675 CAATTATATT
Statistics
Matches: 93, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
83 4 0.04
84 71 0.76
85 2 0.02
86 16 0.17
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (86 bp):
ATAATAATTATATCAACATTAATACTTAACAAACAGGTTTCATGTTTATTATTAATTTCAAATTA
TTAATATTAAAGATAAAAATT
Found at i:29381329 original size:18 final size:20
Alignment explanation
Indices: 29381288--29381348 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 20
29381278 CAATTATTTT
29381288 AAAATT-TTCAAAAATATATA
1 AAAATTATT-AAAAATATATA
29381308 AAAATTATTAAAAA-AT-TA
1 AAAATTATTAAAAATATATA
* * *
29381326 AAAATCATTATAATTAT-TA
1 AAAATTATTAAAAATATATA
29381345 AAAA
1 AAAA
29381349 CAATAAAAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
18 13 0.36
19 10 0.28
20 11 0.31
21 2 0.06
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATTATTAAAAATATATA
Found at i:29381335 original size:10 final size:9
Alignment explanation
Indices: 29381297--29381348 Score: 52
Period size: 10 Copynumber: 5.6 Consensus size: 9
29381287 TAAAATTTTC
29381297 AAAAATATAT
1 AAAAATAT-T
29381307 AAAAATTATT
1 AAAAA-TATT
29381317 AAAAA-ATT
1 AAAAATATT
29381325 AAAAATCATT
1 AAAAAT-ATT
* *
29381335 ATAATTATT
1 AAAAATATT
29381344 AAAAA
1 AAAAA
29381349 CAATAAAAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
8 8 0.23
9 6 0.17
10 18 0.51
11 3 0.09
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (9 bp):
AAAAATATT
Found at i:29382219 original size:9 final size:9
Alignment explanation
Indices: 29382205--29382320 Score: 58
Period size: 10 Copynumber: 12.4 Consensus size: 9
29382195 CATGTGACAA
29382205 AAAAATTAT
1 AAAAATTAT
29382214 AAAAA-T-T
1 AAAAATTAT
*
29382221 AAAAATCAAT
1 AAAAAT-TAT
*
29382231 AAAAGTTAT
1 AAAAATTAT
29382240 AAAAATT-T
1 AAAAATTAT
* *
29382248 TAAATTTACT
1 AAAAATTA-T
*
29382258 AAAAATTAGAA
1 AAAAATT--AT
*
29382269 AAAAGAATAT
1 AAAA-ATTAT
*
29382279 AAAAATTGT
1 AAAAATTAT
*
29382288 AAAATTTTAT
1 AAAA-ATTAT
* *
29382298 AAATATCAT
1 AAAAATTAT
29382307 AAAAAATTAT
1 -AAAAATTAT
29382317 AAAA
1 AAAA
29382321 TAAATTAAAA
Statistics
Matches: 77, Mismatches: 20, Indels: 20
0.66 0.17 0.17
Matches are distributed among these distances:
7 6 0.08
8 7 0.09
9 27 0.35
10 30 0.39
11 4 0.05
12 3 0.04
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:29382643 original size:21 final size:20
Alignment explanation
Indices: 29382592--29382647 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 20
29382582 TTTTTCTATA
29382592 TTTCTATATATTTTATAAATTT
1 TTTCTA-AT-TTTTATAAATTT
* *
29382614 TTAC-CATTTTTATAATATTT
1 TTTCTAATTTTTATAA-ATTT
29382634 TTTCTAATTTTTAT
1 TTTCTAATTTTTAT
29382648 TAAAAATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
19 8 0.29
20 9 0.32
21 8 0.29
22 3 0.11
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTCTAATTTTTATAAATTT
Found at i:29382695 original size:20 final size:17
Alignment explanation
Indices: 29382662--29382718 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 17
29382652 AATTAAAAAA
*
29382662 ATTTATATTTTTTATTAAC
1 ATTTATAATTTTTATT--C
*
29382681 ATTTAATAATTTTTATTT
1 ATTT-ATAATTTTTATTC
29382699 ATTTATAATTTTTA-TC
1 ATTTATAATTTTTATTC
29382715 ATTT
1 ATTT
29382719 TGTCACATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 5 0.15
17 10 0.29
18 4 0.12
19 4 0.12
20 11 0.32
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTATAATTTTTATTC
Found at i:29382695 original size:29 final size:29
Alignment explanation
Indices: 29382626--29382704 Score: 70
Period size: 29 Copynumber: 2.8 Consensus size: 29
29382616 ACCATTTTTA
* * *
29382626 TAATATTTTTTCTAATTTTTATTAAAAAT
1 TAATAATTTTTATATTTTTTATTAAAAAT
* ** * *
29382655 TAAAAAAATTTATATTTTTTATTAACATT
1 TAATAATTTTTATATTTTTTATTAAAAAT
*
29382684 TAATAATTTTTAT-TTATTTAT
1 TAATAATTTTTATATTTTTTAT
29382705 AATTTTTATC
Statistics
Matches: 38, Mismatches: 12, Indels: 1
0.75 0.24 0.02
Matches are distributed among these distances:
28 7 0.18
29 31 0.82
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (29 bp):
TAATAATTTTTATATTTTTTATTAAAAAT
Found at i:29382708 original size:17 final size:18
Alignment explanation
Indices: 29382662--29382713 Score: 61
Period size: 17 Copynumber: 2.8 Consensus size: 18
29382652 AATTAAAAAA
*
29382662 ATTTATATTTTTTATTAAC
1 ATTTATAATTTTTATT-AC
*
29382681 ATTTAATAATTTTTATT-T
1 ATTT-ATAATTTTTATTAC
29382699 ATTTATAATTTTTAT
1 ATTTATAATTTTTAT
29382714 CATTTTGTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 11 0.37
18 4 0.13
19 4 0.13
20 11 0.37
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (18 bp):
ATTTATAATTTTTATTAC
Found at i:29385960 original size:27 final size:27
Alignment explanation
Indices: 29385857--29385965 Score: 128
Period size: 27 Copynumber: 4.0 Consensus size: 27
29385847 TAACAGTCAG
* *
29385857 TTTACCCTATGGGGGGTATTTCGATAAT
1 TTTACCC-ATCGGGGGTATTTCAATAAT
* * *
29385885 TTTACCTATCAGGGGTATTTCGATAAT
1 TTTACCCATCGGGGGTATTTCAATAAT
* **
29385912 TTTACCCTTCTAGGGTATTTCAATAAT
1 TTTACCCATCGGGGGTATTTCAATAAT
*
29385939 TTTACCCATCGGGGGTATTTCAGTAAT
1 TTTACCCATCGGGGGTATTTCAATAAT
29385966 GTTAACGACC
Statistics
Matches: 69, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
27 63 0.91
28 6 0.09
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (27 bp):
TTTACCCATCGGGGGTATTTCAATAAT
Found at i:29387442 original size:25 final size:25
Alignment explanation
Indices: 29387404--29387457 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
29387394 TGAACCTCTG
* *
29387404 ACCTCTTTATCACACCAGTGA-TGCC
1 ACCTCCTTACCACACCAGT-ATTGCC
*
29387429 ACCTCCTTACCACACCTGTATTGCC
1 ACCTCCTTACCACACCAGTATTGCC
29387454 ACCT
1 ACCT
29387458 TGCCACTACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.22, C:0.41, G:0.09, T:0.28
Consensus pattern (25 bp):
ACCTCCTTACCACACCAGTATTGCC
Found at i:29392381 original size:21 final size:21
Alignment explanation
Indices: 29392347--29392398 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
29392337 ATACGCCAAG
29392347 AGAAGCTC--AAAAGTTAAAC
1 AGAAGCTCGTAAAAGTTAAAC
*
29392366 AGAAGCTCGTAAAAGTTTAAC
1 AGAAGCTCGTAAAAGTTAAAC
29392387 AGAAGCTCGTAA
1 AGAAGCTCGTAA
29392399 GAGCTGAACA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 8 0.27
21 22 0.73
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.19
Consensus pattern (21 bp):
AGAAGCTCGTAAAAGTTAAAC
Found at i:29392408 original size:21 final size:21
Alignment explanation
Indices: 29392347--29392408 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
29392337 ATACGCCAAG
* *
29392347 AGAAGCTC--AAAAGTTAAAC
1 AGAAGCTCGTAAAAGCTGAAC
* *
29392366 AGAAGCTCGTAAAAGTTTAAC
1 AGAAGCTCGTAAAAGCTGAAC
*
29392387 AGAAGCTCGTAAGAGCTGAAC
1 AGAAGCTCGTAAAAGCTGAAC
29392408 A
1 A
29392409 AAAAGTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.22
21 29 0.78
ACGTcount: A:0.45, C:0.16, G:0.21, T:0.18
Consensus pattern (21 bp):
AGAAGCTCGTAAAAGCTGAAC
Found at i:29394557 original size:5 final size:5
Alignment explanation
Indices: 29394479--29394559 Score: 98
Period size: 5 Copynumber: 16.6 Consensus size: 5
29394469 TTTTTATGTT
* *
29394479 TTATA TT-TA TTAT- TT-TA TTATA TAATATA ATATA ATATA TTA-A TTATA
1 TTATA TTATA TTATA TTATA TTATA T--TATA TTATA TTATA TTATA TTATA
29394527 TTATA TTATA TTATA TTATA TTATA TTATA TTA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTA
29394560 AATAAACTAA
Statistics
Matches: 68, Mismatches: 2, Indels: 12
0.83 0.02 0.15
Matches are distributed among these distances:
3 1 0.01
4 12 0.18
5 51 0.75
7 4 0.06
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TTATA
Found at i:29395190 original size:23 final size:23
Alignment explanation
Indices: 29395156--29395199 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
29395146 TATGGCAAGA
29395156 AATTAATTAGAAAAG-AAGTATG
1 AATTAATTAGAAAAGTAAGTATG
29395178 AATTAAGTTAGAAAAGTAAGTA
1 AATTAA-TTAGAAAAGTAAGTA
29395200 AGCTTAGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 9 0.45
24 5 0.25
ACGTcount: A:0.55, C:0.00, G:0.18, T:0.27
Consensus pattern (23 bp):
AATTAATTAGAAAAGTAAGTATG
Found at i:29395477 original size:24 final size:23
Alignment explanation
Indices: 29395436--29395482 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
29395426 TATTCATGGG
29395436 ACATTTAAAGTAAGGTAAGTAATA
1 ACATTTAAAGTAAGGTAAG-AATA
*
29395460 ACATTTGAAATTAA-GTAAGAATA
1 ACATTT-AAAGTAAGGTAAGAATA
29395483 TGTGTGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 11 0.52
25 6 0.29
ACGTcount: A:0.51, C:0.04, G:0.15, T:0.30
Consensus pattern (23 bp):
ACATTTAAAGTAAGGTAAGAATA
Found at i:29401824 original size:34 final size:33
Alignment explanation
Indices: 29401782--29401854 Score: 80
Period size: 34 Copynumber: 2.3 Consensus size: 33
29401772 TTATGTTTAT
* *
29401782 ATATATT-ATTTTAT-TA-TATAATATAATATA
1 ATATATTAATTATATATATTATATTATAATATA
* *
29401812 ATATATTAATTATAGTATATTATATTATATTATT
1 ATATATTAATTATA-TATATTATATTATAATATA
29401846 ATATATTAA
1 ATATATTAA
29401855 ATAAACTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
30 7 0.20
31 5 0.14
32 1 0.03
33 2 0.06
34 20 0.57
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (33 bp):
ATATATTAATTATATATATTATATTATAATATA
Found at i:29401825 original size:24 final size:23
Alignment explanation
Indices: 29401793--29401848 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
29401783 TATATTATTT
29401793 TATTA-TATAATATAATATAATA
1 TATTATTATAATATAATATAATA
* * *
29401815 TATTAATTATAGTATATTATATTA
1 TATT-ATTATAATATAATATAATA
29401839 TATTATTATA
1 TATTATTATA
29401849 TATTAAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.14
23 7 0.24
24 18 0.62
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TATTATTATAATATAATATAATA
Found at i:29401830 original size:5 final size:5
Alignment explanation
Indices: 29401778--29401853 Score: 63
Period size: 5 Copynumber: 15.6 Consensus size: 5
29401768 ATTTTTATGT
* *
29401778 TTATA -TATA TTAT- TT-TA TTATA TAATATA ATATA ATATA TTA-A TTATA
1 TTATA TTATA TTATA TTATA TTATA T--TATA TTATA TTATA TTATA TTATA
*
29401826 GTATA TTATA TTATA TTAT- TATATA TTA
1 TTATA TTATA TTATA TTATA T-TATA TTA
29401854 AATAAACTAA
Statistics
Matches: 59, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
3 1 0.02
4 13 0.22
5 40 0.68
6 1 0.02
7 4 0.07
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (5 bp):
TTATA
Found at i:29401830 original size:14 final size:15
Alignment explanation
Indices: 29401778--29401849 Score: 71
Period size: 15 Copynumber: 5.1 Consensus size: 15
29401768 ATTTTTATGT
*
29401778 TTAT-ATATATTATT
1 TTATAATATATTATA
* *
29401792 TTATTATATAATATA
1 TTATAATATATTATA
*
29401807 ATATAATATATTA-A
1 TTATAATATATTATA
*
29401821 TTATAGTATATTATA
1 TTATAATATATTATA
29401836 TTAT-AT-TATTATA
1 TTATAATATATTATA
29401849 T
1 T
29401850 ATTAAATAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
13 8 0.17
14 17 0.35
15 23 0.48
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (15 bp):
TTATAATATATTATA
Found at i:29401831 original size:26 final size:23
Alignment explanation
Indices: 29401783--29401850 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 23
29401773 TATGTTTATA
* *
29401783 TATATTATTTTATTATATAATAT
1 TATAATATATTATTATATAATAT
29401806 AATATAATATATTAATTATAGT-ATAT
1 --TATAATATATT-ATTATA-TAATAT
*
29401832 TATATTATATTATTATATA
1 TATAATATATTATTATATA
29401851 TTAAATAAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
22 1 0.03
23 6 0.16
24 10 0.27
25 9 0.24
26 10 0.27
27 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (23 bp):
TATAATATATTATTATATAATAT
Found at i:29402121 original size:30 final size:29
Alignment explanation
Indices: 29402068--29402125 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
29402058 AAGAATAGAA
* * *
29402068 AAGAAACAGAGAAAGAGACGAAAACGGGGG
1 AAGAAAAAGAGAAAGAAAAGAAAA-GGGGG
*
29402098 AAGAAAAAGGGAAAGAAAAGAAAAGGGG
1 AAGAAAAAGAGAAAGAAAAGAAAAGGGG
29402126 AAAATTGAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.59, C:0.05, G:0.36, T:0.00
Consensus pattern (29 bp):
AAGAAAAAGAGAAAGAAAAGAAAAGGGGG
Found at i:29402738 original size:24 final size:23
Alignment explanation
Indices: 29402697--29402743 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
29402687 TATTCATGGG
29402697 ACATTTAAAGTAAGGTAAGTAATA
1 ACATTTAAAGTAAGGTAAG-AATA
*
29402721 ACATTTGAAATTAA-GTAAGAATA
1 ACATTT-AAAGTAAGGTAAGAATA
29402744 TGTGTGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 11 0.52
25 6 0.29
ACGTcount: A:0.51, C:0.04, G:0.15, T:0.30
Consensus pattern (23 bp):
ACATTTAAAGTAAGGTAAGAATA
Found at i:29403248 original size:4 final size:4
Alignment explanation
Indices: 29403229--29403298 Score: 122
Period size: 4 Copynumber: 17.2 Consensus size: 4
29403219 AATTGAATTA
*
29403229 GTAT GTAAT ATAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GT-AT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
29403278 GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT G
29403299 AATTTAAGAT
Statistics
Matches: 63, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
4 60 0.95
5 3 0.05
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (4 bp):
GTAT
Found at i:29408406 original size:60 final size:61
Alignment explanation
Indices: 29408291--29408421 Score: 140
Period size: 60 Copynumber: 2.2 Consensus size: 61
29408281 AGATTTTTTT
* * *
29408291 TTAAAATTTTTAGAATTAGAAATAAATTGATAAATTTTGTAAATATTTGTAGCTAAATTTA
1 TTAATATTTTTAGAATTAGAAATAAAATGATAAATTTCGTAAATATTTGTAGCTAAATTTA
* * * * * * * *
29408352 TTGATATTTTTATAATTTGAACTAAAATGGT-AATTTCGTAAATA-TTGATGGCTAATTTTG
1 TTAATATTTTTAGAATTAGAAATAAAATGATAAATTTCGTAAATATTTG-TAGCTAAATTTA
29408412 TTAATATTTT
1 TTAATATTTT
29408422 ATATTTAAGA
Statistics
Matches: 57, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
59 3 0.05
60 30 0.53
61 24 0.42
ACGTcount: A:0.38, C:0.03, G:0.11, T:0.47
Consensus pattern (61 bp):
TTAATATTTTTAGAATTAGAAATAAAATGATAAATTTCGTAAATATTTGTAGCTAAATTTA
Found at i:29408407 original size:22 final size:21
Alignment explanation
Indices: 29408378--29408419 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
29408368 TTGAACTAAA
29408378 ATGGTAATTTCGTAAATATTG
1 ATGGTAATTTCGTAAATATTG
* *
29408399 ATGGCTAATTTTGTTAATATT
1 ATGG-TAATTTCGTAAATATT
29408420 TTATATTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.31, C:0.05, G:0.17, T:0.48
Consensus pattern (21 bp):
ATGGTAATTTCGTAAATATTG
Found at i:29411388 original size:153 final size:150
Alignment explanation
Indices: 29411116--29412218 Score: 1400
Period size: 153 Copynumber: 7.3 Consensus size: 150
29411106 GTTTTTATTG
* * * *
29411116 AAAGTAATAAAATCC-GGTAAAAAATACGAATAACGGGCCGAAATAAGGTTTTTTTAAAATTTAT
1 AAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGAAATAAAGTTTTTTT-AAATTTAT
*
29411180 TT-AAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
65 TTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAA
*
29411244 TTCGAAAATATTATATTTTTCA
130 TTAGAAAATATTATATTTTT-A
* *
29411266 AAAGTAATAAAATCCGGAGAAAAAAATA-GAAACAAATGACCGAAATAATAGTTTTTTTAAATTT
1 AAAGTAATAAAATCCGG-GAAAAAAATACG-AACAAAGGGCCGAAATAA-AGTTTTTTTAAATTT
* *
29411330 ATTTAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATATAAAAT-ATAA
63 ATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAAT-A
*
29411394 AAATATA-AAAATAATATATTTTTA
127 AAAT-TAGAAAATATTATATTTTTA
* *
29411418 TTGAAAGTAATAAAATCC-GG-AAAAAATACGAATAAAGGGCCGAAATAAAGATTTTTTAAAATT
1 ---AAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGAAATAAAG-TTTTTTTAAATT
* *
29411481 TA-TTAAAAAA-A-ACTAAATGAATACATTTCAAACATAATGTACTAAAATAATATAAAATAATA
62 TATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
* *
29411543 AATTTAGAAAATA--ATATTTTTT
127 AAATTAGAAAATATTATATTTTTA
* * **
29411565 TAAGTAATAAAATCCATGG-AAAAAATACGAACAAAGGGCCGAAATGAGGGTTTTTTTTAAATTT
1 AAAGTAATAAAATCC-GGGAAAAAAATACGAACAAAGGGCCGAAAT-AAAG-TTTTTTTAAATTT
* * ** *
29411629 ATTTTAAAAACACAGTAAATTAATACATTTCAAACATAACATACTAAAATAATGTAAAGTAATAA
63 ATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
*
29411694 AATTATAAAATATTATATTTTTTA
128 AATTAGAAAATATTATA-TTTTTA
*
29411718 AAAGTAATAAAATCCGGGGAAAAAATACGAACAAAGGGCCGAAATAATAGTTTTTTTAAAATTTA
1 AAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGAAATAA-AGTTTTTTT-AAATTTA
* *
29411783 TTTAAAAAACACAGTAAATTAATACATTTAAAACATAATGTACTAAAATAATGTAAAATAATAAA
64 TTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAA
* *
29411848 ATTAGAAAATAGTATATTTTTTT
129 ATTAGAAAATATTATA-TTTTTA
* * * *
29411871 AAAGTAATAAACTCTAGGGAAAAGAATACGAACAAAGGGCCGAAATAAGGATTTTTTTTAAATTT
1 AAAGTAATAAAATC-CGGGAAAAAAATACGAACAAAGGGCCGAAATAA--AGTTTTTTTAAATTT
* *
29411936 ATTTAAAAAA-ACACTAAATTAATACATTTCAAACTTGATGTACTAAAATAATGTAAAATAATAA
63 ATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAA
*
29412000 AATTAGAAAATAATATATTTTTA
128 AATTAGAAAATATTATATTTTTA
* *
29412023 TTGAAAGTAATAAAATCCGGGGAAAAAATACTAACAAAGGGCCGAAATAAAGATTTTTTT-AATT
1 ---AAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGAAATAAAG-TTTTTTTAAATT
* * *
29412087 TATTT-AAAAACATACTAAATTAATACATTTAAAATATAATGTA-TAAAATAATGTAAAAT-A-A
62 TATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATA
29412148 AAATTAGAAAATATTATATTTTTTTA
127 AAATTAGAAAATATTATA--TTTTTA
* * *
29412174 AAAGTAATAAAATCCGGG-AAAAAATACGAATAGAGGGCCAAAATA
1 AAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGAAATA
29412219 CTAACAATTG
Statistics
Matches: 843, Mismatches: 75, Indels: 73
0.85 0.08 0.07
Matches are distributed among these distances:
144 14 0.02
146 27 0.03
147 46 0.05
148 27 0.03
149 74 0.09
150 75 0.09
151 39 0.05
152 127 0.15
153 301 0.36
154 77 0.09
155 36 0.04
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.31
Consensus pattern (150 bp):
AAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGAAATAAAGTTTTTTTAAATTTATT
TAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAAT
TAGAAAATATTATATTTTTA
Found at i:29411742 original size:452 final size:456
Alignment explanation
Indices: 29411107--29412203 Score: 1604
Period size: 452 Copynumber: 2.4 Consensus size: 456
29411097 ATTTAGTGTG
* * *
29411107 TTTTTATTGAAAGTAATAAAATCCGGTAAAAAATACGAATAACGGGCCGAAATAAGGTTTTTTTA
1 TTTTTATT-AAAGTAATAAAATCCGG-AAAAAATACGAACAAAGGGCCGAAATAAGGTTTTTTTT
*
29411172 AAATTTATTTAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAAT
64 AAATTTATTTAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAAT
* * *
29411237 AATAAAATTCGAAAATATTATATTTTTCAAAAGTAATAAAATCCGGAGAAAAAAATA-GAAACAA
129 AATAAAATTAGAAAATATTATATTTTTTAAAAGTAATAAAATCCGGGGAAAAAAATACG-AACAA
* *
29411301 ATGACCGAAATAATAGTTTTTTT-AAATTTATTTAAAAAACACAGTAAATTAATACATTTCAAAC
193 AGGACCGAAATAATAGTTTTTTTAAAATTTATTTAAAAAACACAGTAAATTAATACATTTAAAAC
29411365 ATAATGTACTAAAATAATATAAAAT-ATAAAAATATA-AAAATAATATATTTTTATTGAAAGTAA
258 ATAATGTACTAAAATAATATAAAATAAT-AAAAT-TAGAAAATAATATATTTTT-TT-AAAGTAA
*
29411428 TAAAATC-CGGAAAA-AATACGAATAAAGGGCCGAAATAAAGA-TTTTTTAAAATTTA-TTAAAA
319 TAAAATCACGGAAAAGAATACGAACAAAGGGCCGAAATAAAGATTTTTTTAAAATTTATTTAAAA
*
29411489 AAA-ACTAAATGAATACATTTCAAACATAATGTACTAAAATAATATAAAATAATAAATTTAGAAA
384 AAACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAATTAGAAA
29411553 AT-A-ATA
449 ATAATATA
*
29411559 TTTTT-TT-AAGTAATAAAATCCATGGAAAAAATACGAACAAAGGGCCGAAATGAGGGTTTTTTT
1 TTTTTATTAAAGTAATAAAATCC--GGAAAAAATACGAACAAAGGGCCGAAAT-AAGGTTTTTTT
* **
29411622 TAAATTTATTTTAAAAACACAGTAAATTAATACATTTCAAACATAACATACTAAAATAATGTAAA
63 TAAATTTA-TTTAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAA
* *
29411687 GTAATAAAATTATAAAATATTATATTTTTTAAAAGTAATAAAATCCGGGG-AAAAAATACGAACA
127 ATAATAAAATTAGAAAATATTATATTTTTTAAAAGTAATAAAATCCGGGGAAAAAAATACGAACA
*
29411751 AAGGGCCGAAATAATAGTTTTTTTAAAATTTATTTAAAAAACACAGTAAATTAATACATTTAAAA
192 AAGGACCGAAATAATAGTTTTTTTAAAATTTATTTAAAAAACACAGTAAATTAATACATTTAAAA
* *
29411816 CATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTTTTAAAGTAATAA
257 CATAATGTACTAAAATAATATAAAATAATAAAATTAGAAAATAATATATTTTTTTAAAGTAATAA
* * * *
29411881 ACTCTAGGGAAAAGAATACGAACAAAGGGCCGAAATAAGGATTTTTTTTAAATTTATTTAAAAAA
322 AATC-ACGGAAAAGAATACGAACAAAGGGCCGAAATAAAGATTTTTTTAAAATTTATTTAAAAAA
* * * *
29411946 ACACTAAATTAATACATTTCAAACTTGATGTACTAAAATAATGTAAAATAATAAAATTAGAAAAT
386 ACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAATTAGAAAAT
29412011 AATATA
451 AATATA
* * *
29412017 TTTTTATTGAAAGTAATAAAATCCGGGGAAAAAATACTAACAAAGGGCCGAAATAAAGATTTTTT
1 TTTTTATT-AAAGTAATAAAATCC--GGAAAAAATACGAACAAAGGGCCGAAATAAGGTTTTTTT
* * *
29412082 T-AATTTATTTAAAAACATACTAAATTAATACATTTAAAATATAATGTA-TAAAATAATGTAAAA
63 TAAATTTATTTAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAA
29412145 T-A-AAAATTAGAAAATATTATATTTTTTTAAAAGTAATAAAATCC-GGG-AAAAAATACGAA
128 TAATAAAATTAGAAAATATTATA-TTTTTTAAAAGTAATAAAATCCGGGGAAAAAAATACGAA
29412204 TAGAGGGCCA
Statistics
Matches: 583, Mismatches: 42, Indels: 37
0.88 0.06 0.06
Matches are distributed among these distances:
449 14 0.02
450 37 0.06
451 59 0.10
452 193 0.33
453 27 0.05
454 13 0.02
455 42 0.07
456 81 0.14
457 16 0.03
458 43 0.07
459 8 0.01
460 9 0.02
461 41 0.07
ACGTcount: A:0.52, C:0.08, G:0.09, T:0.31
Consensus pattern (456 bp):
TTTTTATTAAAGTAATAAAATCCGGAAAAAATACGAACAAAGGGCCGAAATAAGGTTTTTTTTAA
ATTTATTTAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAA
TAAAATTAGAAAATATTATATTTTTTAAAAGTAATAAAATCCGGGGAAAAAAATACGAACAAAGG
ACCGAAATAATAGTTTTTTTAAAATTTATTTAAAAAACACAGTAAATTAATACATTTAAAACATA
ATGTACTAAAATAATATAAAATAATAAAATTAGAAAATAATATATTTTTTTAAAGTAATAAAATC
ACGGAAAAGAATACGAACAAAGGGCCGAAATAAAGATTTTTTTAAAATTTATTTAAAAAAACACT
AAATGAATACATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAATTAGAAAATAATAT
A
Found at i:29411916 original size:605 final size:602
Alignment explanation
Indices: 29411116--29412217 Score: 1684
Period size: 605 Copynumber: 1.8 Consensus size: 602
29411106 GTTTTTATTG
* * * *
29411116 AAAGTAATAAAATCCGGTAAAAAATACGAATAACGGGCCGAAATAAGGTTTTTTTAAAATTTATT
1 AAAGTAATAAAATCCGGGAAAAAATACGAACAAAGGGCCGAAATAAAGTTTTTTTAAAATTTATT
*
29411181 TAAAAACACACTAAATGAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATT
66 TAAAAACACACTAAATGAATACATTTAAAACATAATGTACTAAAATAATGTAAAATAATAAAATT
* * * *
29411246 CGAAAATATTATATTTTTCAAAAGTAATAAAATCCGGAGAAAAAAATAGAAACAAATGACCGAAA
131 AGAAAATAGTATATTTTTCAAAAGTAATAAAATCAGGAGAAAAAAATAGAAACAAAGGACCGAAA
* *
29411311 TAA-TAGTTTTTTTAAATTTATTTAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACT
196 TAAGGAGTTTTTTTAAATTTATTTAAAAAA-ACACTAAATTAATACATTTCAAACATAATGTACT
29411375 AAAATAATATAAAAT-ATAAAAATATA-AAAATAATATATTTTTATTGAAAGTAATAAAATCC-G
260 AAAATAATATAAAATAAT-AAAAT-TAGAAAATAATATATTTTTATTGAAAGTAATAAAATCCGG
*
29411437 GAAAAAATACGAATAAAGGGCCGAAATAAAGATTTTTTAAAATTTA-TTAAAAA-AAACTAAATG
323 GAAAAAATACGAACAAAGGGCCGAAATAAAGATTTTTT-AAATTTATTTAAAAACAAACTAAATG
*
29411500 AATACATTTCAAACATAATGTACTAAAATAATATAAAATAATAAATTTAGAAAATA-ATATTTTT
387 AATACATTTAAAACATAATGTA-TAAAATAATATAAAATAA-AAA-TTAGAAAATATATATTTTT
* *
29411564 TT-AAGTAATAAAATCCATGGAAAAAATACGAACAAAGGGCCGAAATGAGGGTTTTTTTTAAATT
449 TTAAAGTAATAAAATCC-GGGAAAAAATACGAACAAAGGGCCAAAATGAGGGTTTTTTTTAAATT
29411628 TATTTTAAAAACACAGTAAATTAATACATTTCAAACATAACATACTAAAATAATGTAAAGTAATA
513 TATTTTAAAAACACAGTAAATTAATACATTTCAAACATAACATACTAAAATAATGTAAAGTAATA
29411693 AAATTATAAAATATTATATTTTTTA
578 AAATTATAAAATATTATATTTTTTA
29411718 AAAGTAATAAAATCCGGGGAAAAAATACGAACAAAGGGCCGAAATAATAGTTTTTTTAAAATTTA
1 AAAGTAATAAAATCC-GGGAAAAAATACGAACAAAGGGCCGAAATAA-AGTTTTTTTAAAATTTA
* *
29411783 TTTAAAAAACACAGTAAATTAATACATTTAAAACATAATGTACTAAAATAATGTAAAATAATAAA
64 TTT-AAAAACACACTAAATGAATACATTTAAAACATAATGTACTAAAATAATGTAAAATAATAAA
** * * *
29411848 ATTAGAAAATAGTATATTTTTTTAAAGTAATAAACTCTAGG-GAAAAGAATACG-AACAAAGGGC
128 ATTAGAAAATAGTATATTTTTCAAAAGTAATAAAATC-AGGAGAAAAAAATA-GAAACAAAGGAC
* * *
29411911 CGAAATAAGGATTTTTTTTAAATTTATTTAAAAAAACACTAAATTAATACATTTCAAACTTGATG
191 CGAAATAAGGAGTTTTTTTAAATTTATTTAAAAAAACACTAAATTAATACATTTCAAACATAATG
*
29411976 TACTAAAATAATGTAAAATAATAAAATTAGAAAATAATATATTTTTATTGAAAGTAATAAAATCC
256 TACTAAAATAATATAAAATAATAAAATTAGAAAATAATATATTTTTATTGAAAGTAATAAAATCC
* * *
29412041 GGGGAAAAAATACTAACAAAGGGCCGAAATAAAGATTTTTTTAATTTATTTAAAAACATACTAAA
321 -GGGAAAAAATACGAACAAAGGGCCGAAATAAAGATTTTTTAAATTTATTTAAAAACAAACTAAA
* * *
29412106 TTAATACATTTAAAATATAATGTATAAAATAATGTAAAATAAAAATTAGAAAATATTATATTTTT
385 TGAATACATTTAAAACATAATGTATAAAATAATATAAAATAAAAATTAGAAAATA-TATATTTTT
* *
29412171 TTAAAAGTAATAAAATCCGGGAAAAAATACGAATAGAGGGCCAAAAT
449 TT-AAAGTAATAAAATCCGGGAAAAAATACGAACAAAGGGCCAAAAT
29412218 ACTAACAATT
Statistics
Matches: 450, Mismatches: 34, Indels: 26
0.88 0.07 0.05
Matches are distributed among these distances:
602 15 0.03
603 28 0.06
604 21 0.05
605 210 0.47
606 38 0.08
607 71 0.16
608 53 0.12
609 14 0.03
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.31
Consensus pattern (602 bp):
AAAGTAATAAAATCCGGGAAAAAATACGAACAAAGGGCCGAAATAAAGTTTTTTTAAAATTTATT
TAAAAACACACTAAATGAATACATTTAAAACATAATGTACTAAAATAATGTAAAATAATAAAATT
AGAAAATAGTATATTTTTCAAAAGTAATAAAATCAGGAGAAAAAAATAGAAACAAAGGACCGAAA
TAAGGAGTTTTTTTAAATTTATTTAAAAAAACACTAAATTAATACATTTCAAACATAATGTACTA
AAATAATATAAAATAATAAAATTAGAAAATAATATATTTTTATTGAAAGTAATAAAATCCGGGAA
AAAATACGAACAAAGGGCCGAAATAAAGATTTTTTAAATTTATTTAAAAACAAACTAAATGAATA
CATTTAAAACATAATGTATAAAATAATATAAAATAAAAATTAGAAAATATATATTTTTTTAAAGT
AATAAAATCCGGGAAAAAATACGAACAAAGGGCCAAAATGAGGGTTTTTTTTAAATTTATTTTAA
AAACACAGTAAATTAATACATTTCAAACATAACATACTAAAATAATGTAAAGTAATAAAATTATA
AAATATTATATTTTTTA
Found at i:29412256 original size:22 final size:22
Alignment explanation
Indices: 29412228--29412270 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
29412218 ACTAACAATT
*
29412228 GGTGCCGCCTCTACCATAGGCG
1 GGTGCCGCCTCTACCACAGGCG
*
29412250 GGTGCCGCCTCTGCCACAGGC
1 GGTGCCGCCTCTACCACAGGC
29412271 ACCAAAGGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.12, C:0.40, G:0.33, T:0.16
Consensus pattern (22 bp):
GGTGCCGCCTCTACCACAGGCG
Found at i:29413861 original size:21 final size:22
Alignment explanation
Indices: 29413835--29413876 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
29413825 GGAGTTTTTG
29413835 GAAAGGAAAA-GAGAAAGGAAA
1 GAAAGGAAAATGAGAAAGGAAA
*
29413856 GAAAGGAAAATGAGAAGGGAA
1 GAAAGGAAAATGAGAAAGGAA
29413877 GGGACTTTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (22 bp):
GAAAGGAAAATGAGAAAGGAAA
Found at i:29417619 original size:27 final size:27
Alignment explanation
Indices: 29417589--29417654 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
29417579 CTAGACTAAT
*
29417589 GTAAAATGACTGTTATGCCCCCACGTG
1 GTAAAATGACTGTTATACCCCCACGTG
* *
29417616 GTAAAATGACTGTTATACCCCTACGTT
1 GTAAAATGACTGTTATACCCCCACGTG
*
29417643 ATAAAATGACTG
1 GTAAAATGACTG
29417655 CATGCTCTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (27 bp):
GTAAAATGACTGTTATACCCCCACGTG
Found at i:29421234 original size:2 final size:2
Alignment explanation
Indices: 29421227--29421253 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
29421217 CAATAATAAA
29421227 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
29421254 TATATATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:29422741 original size:8 final size:8
Alignment explanation
Indices: 29422728--29422755 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
29422718 TATACTAAAC
29422728 AATAAAAT
1 AATAAAAT
29422736 AATAAAAT
1 AATAAAAT
29422744 AATAAAAT
1 AATAAAAT
29422752 AATA
1 AATA
29422756 TTTAAAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (8 bp):
AATAAAAT
Found at i:29423780 original size:26 final size:26
Alignment explanation
Indices: 29423751--29423808 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
29423741 TGAAAGCTCC
29423751 CATTTTAGATACGCCACAAAGGCTTT
1 CATTTTAGATACGCCACAAAGGCTTT
* *
29423777 CATTTCAGATACGGCACAAAGGCTTT
1 CATTTTAGATACGCCACAAAGGCTTT
29423803 CATTTT
1 CATTTT
29423809 TTGACGTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (26 bp):
CATTTTAGATACGCCACAAAGGCTTT
Found at i:29435555 original size:47 final size:47
Alignment explanation
Indices: 29435494--29435601 Score: 130
Period size: 47 Copynumber: 2.3 Consensus size: 47
29435484 TTTGTGGACA
* * ** *
29435494 AAGCTACCACATAAATGT-TGAAAACAGTCACATAGCACATTG-TGAAC
1 AAGCCACCACATAAAT-TCCGAAAACAACCACATAGCACAATGTTG-AC
*
29435541 AAGCCATCACATAAATTCCGAAAACAACCACATAGCACAATGTTGAC
1 AAGCCACCACATAAATTCCGAAAACAACCACATAGCACAATGTTGAC
29435588 AAGCCACCACATAA
1 AAGCCACCACATAA
29435602 TTATCGATAA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 49 0.94
48 2 0.04
ACGTcount: A:0.44, C:0.26, G:0.12, T:0.18
Consensus pattern (47 bp):
AAGCCACCACATAAATTCCGAAAACAACCACATAGCACAATGTTGAC
Found at i:29439822 original size:27 final size:27
Alignment explanation
Indices: 29439792--29439879 Score: 167
Period size: 27 Copynumber: 3.3 Consensus size: 27
29439782 AGATGAATCC
29439792 AAATGTAAAAACCTTATGGCTTCATTA
1 AAATGTAAAAACCTTATGGCTTCATTA
29439819 AAATGTAAAAACCTTATGGCTTCATTA
1 AAATGTAAAAACCTTATGGCTTCATTA
*
29439846 AAATGTAAAAACCTTATGGTTTCATTA
1 AAATGTAAAAACCTTATGGCTTCATTA
29439873 AAATGTA
1 AAATGTA
29439880 TCACCTACTT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.34
Consensus pattern (27 bp):
AAATGTAAAAACCTTATGGCTTCATTA
Found at i:29443523 original size:13 final size:13
Alignment explanation
Indices: 29443505--29443547 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
29443495 AATTCAAAGT
29443505 AAATAATAATTTA
1 AAATAATAATTTA
29443518 AAATAAATAATTTA
1 AAAT-AATAATTTA
* * *
29443532 CAACAACAATTTA
1 AAATAATAATTTA
29443545 AAA
1 AAA
29443548 AAAATAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (13 bp):
AAATAATAATTTA
Found at i:29443528 original size:14 final size:14
Alignment explanation
Indices: 29443505--29443554 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
29443495 AATTCAAAGT
29443505 AAAT-AATAATTTA
1 AAATAAATAATTTA
29443518 AAATAAATAATTTA
1 AAATAAATAATTTA
* * *
29443532 CAA-CAACAATTTA
1 AAATAAATAATTTA
*
29443545 AAAAAAATAA
1 AAATAAATAA
29443555 AAAATAATAG
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
13 14 0.48
14 15 0.52
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (14 bp):
AAATAAATAATTTA
Found at i:29445285 original size:89 final size:89
Alignment explanation
Indices: 29445182--29445354 Score: 294
Period size: 89 Copynumber: 1.9 Consensus size: 89
29445172 ATTTAATCAA
*
29445182 TAAAAAAAACATATATATACATGCATATATAAATATAGAAAAATATTCGTTAGAA-AAAAATAAA
1 TAAAAAAAACATATATATACATACATATAT-AATATAGAAAAATATTCGTTAGAAGAAAAATAAA
29445246 TATACATACATGTACATATAATTTT
65 TATACATACATGTACATATAATTTT
* *
29445271 TAAAGAAAACATATATATATATACATATATAATATAGAAAAATATTCGTTAGAAGAAAAATAAAT
1 TAAAAAAAACATATATATACATACATATATAATATAGAAAAATATTCGTTAGAAGAAAAATAAAT
*
29445336 ATACATACATGTACGTATA
66 ATACATACATGTACATATA
29445355 TAAATAAATA
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
88 24 0.30
89 55 0.70
ACGTcount: A:0.55, C:0.08, G:0.07, T:0.31
Consensus pattern (89 bp):
TAAAAAAAACATATATATACATACATATATAATATAGAAAAATATTCGTTAGAAGAAAAATAAAT
ATACATACATGTACATATAATTTT
Found at i:29445463 original size:30 final size:31
Alignment explanation
Indices: 29445423--29445489 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 31
29445413 ATATATATGG
* *
29445423 AAATAAATATATACATAAAAATAAAA-ATAA
1 AAATAAATATATACATAAAAAGAAAAGAAAA
* * *
29445453 AAATACATATATATATAGAAAGAAAAGAAAA
1 AAATAAATATATACATAAAAAGAAAAGAAAA
29445484 AAATAA
1 AAATAA
29445490 TTGCATATGA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
30 22 0.73
31 8 0.27
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.21
Consensus pattern (31 bp):
AAATAAATATATACATAAAAAGAAAAGAAAA
Found at i:29447259 original size:44 final size:44
Alignment explanation
Indices: 29447106--29447626 Score: 268
Period size: 44 Copynumber: 12.0 Consensus size: 44
29447096 AAGATTCGCC
* * * ** *
29447106 ATTTTGAGTCTGCCCCACTGCAACTTCAGGGGGATAAGACCTACTT
1 ATTTT-AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTTGTG
* * * * *
29447152 A-TTCAGTCTGCTCTACTGCAACTTTAGGGAGATAAGA-CT-AG
1 ATTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTG
* * *
29447193 A--TGAGATCTGCT-CTCTGCAACTTCAGAGAGATAAGATTTGTG
1 ATTTTAG-TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTG
* * * * *
29447235 ATTTTAATCCGTTCCACTGCAACTTCAGTGAGATAGGATTATAG-G
1 ATTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATT-T-GTG
* * * * * **
29447280 -CTTAAATCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCC
1 ATTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTG
* * * * * ** *
29447323 ATTTTGGGTTTGCCCCACTGCAACTTTAGTGG-GATAAAACCTGCTT
1 ATTTT-AGTCTGCTCCACTGCAACTTCAG-GGAGATAAGATTTG-TG
* **
29447369 A-TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCC
1 ATTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTG
* * *
29447412 ATTTTGGGTCTG-TCCCACTGCAACTTCA-GGATGATAAGACTTGCTT
1 ATTTT-AGTCTGCT-CCACTGCAACTTCAGGGA-GATAAGATTTG-TG
* * * * *
29447458 A-CTTAGTCTGCTCCACTGCAACTTCAAGAAGATAAGA-CT-AG
1 ATTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTG
*** * * *
29447499 ATGCGA-TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTG
1 ATTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTG
* * * *
29447541 GTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAT-TG
1 ATTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATT-TGTG
** * *
29447585 GCTTTAGTCTGCTCCACTACAATTTCAGGGAGATAAGATTTG
1 ATTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
29447627 CCATCTTTAG
Statistics
Matches: 357, Mismatches: 90, Indels: 58
0.71 0.18 0.11
Matches are distributed among these distances:
40 43 0.12
41 17 0.05
42 7 0.02
43 14 0.04
44 205 0.57
45 65 0.18
46 6 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
ATTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTG
Found at i:29447387 original size:89 final size:89
Alignment explanation
Indices: 29447286--29447483 Score: 292
Period size: 89 Copynumber: 2.2 Consensus size: 89
29447276 TAGGCTTAAA
* *
29447286 TCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCCATTTTGGGTTTGCCCCACTGCAACTTTA
1 TCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCCATTTTGGGTCTGCCCCACTGCAACTTCA
29447351 GTG-GGATAAAACCTGCTTA-TTCAG
66 G-GAGGATAAAACCTGCTTACTT-AG
* * *
29447375 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATTTTGGGTCTGTCCCACTGCAACTTCA
1 TCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCCATTTTGGGTCTGCCCCACTGCAACTTCA
* * *
29447440 GGATGATAAGACTTGCTTACTTAG
66 GGAGGATAAAACCTGCTTACTTAG
29447464 TCTGCTCCACTGCAACTTCA
1 TCTGCTCCACTGCAACTTCA
29447484 AGAAGATAAG
Statistics
Matches: 99, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
88 1 0.01
89 96 0.97
90 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.31
Consensus pattern (89 bp):
TCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCCATTTTGGGTCTGCCCCACTGCAACTTCA
GGAGGATAAAACCTGCTTACTTAG
Found at i:29447944 original size:44 final size:44
Alignment explanation
Indices: 29447881--29447965 Score: 161
Period size: 44 Copynumber: 1.9 Consensus size: 44
29447871 AAAGTAAGAT
29447881 TCACAATCTTCAACCTATTCCACAGCTGACCAGGGAGATAGGAC
1 TCACAATCTTCAACCTATTCCACAGCTGACCAGGGAGATAGGAC
*
29447925 TCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAG
1 TCACAATCTTCAACCTATTCCACAGCTGACCAGGGAGATAG
29447966 AATTATATCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (44 bp):
TCACAATCTTCAACCTATTCCACAGCTGACCAGGGAGATAGGAC
Found at i:29448081 original size:88 final size:88
Alignment explanation
Indices: 29447971--29448236 Score: 442
Period size: 88 Copynumber: 3.0 Consensus size: 88
29447961 GATAGAATTA
* *
29447971 TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGTTATCTTTAACCTGCTCTACT
1 TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGTTATCTTCAACCTGCTCCACT
*
29448036 ACAACCCAGGGAGGCAAGGCTGG
66 ACAACCCAAGGAGGCAAGGCTGG
* * *
29448059 TATCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACTTGCTCCACT
1 TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGTTATCTTCAACCTGCTCCACT
29448124 ACAACCCAAGGAGGCAAGGCTGG
66 ACAACCCAAGGAGGCAAGGCTGG
* *
29448147 TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGTAAGATCTGTTATCTTCAACCTGTTCCACT
1 TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGTTATCTTCAACCTGCTCCACT
* *
29448212 ACAACTCAAGGAGGTAAGGCTGG
66 ACAACCCAAGGAGGCAAGGCTGG
29448235 TA
1 TA
29448237 ATTTCACCGA
Statistics
Matches: 165, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 165 1.00
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (88 bp):
TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGTTATCTTCAACCTGCTCCACT
ACAACCCAAGGAGGCAAGGCTGG
Found at i:29448095 original size:44 final size:45
Alignment explanation
Indices: 29447971--29448198 Score: 173
Period size: 44 Copynumber: 5.2 Consensus size: 45
29447961 GATAGAATTA
* * *
29447971 TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGT
1 TATCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGAGCTGG
** * * * ** *
29448016 TATCTTTAACCTGC-TCTACT-ACAACCCAGGGAGGCAAG-GCTGG
1 TATCTTCGATCTGCTTC-ACTGTCGATGCAGGAAGGCAAGAGCTGG
* *
29448059 TATCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGC
1 TATCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGAGCTGG
* * * * **
29448104 TATCTTC-AACTTGCTCCACT-ACAACCCAAGG-AGGCAAG-GCTGG
1 TATCTTCGATC-TGCTTCACTGTCGATGC-AGGAAGGCAAGAGCTGG
* * * *
29448147 TATCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGTAAGATCTGT
1 TATCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGAGCTGG
29448192 TATCTTC
1 TATCTTC
29448199 AACCTGTTCC
Statistics
Matches: 134, Mismatches: 39, Indels: 20
0.69 0.20 0.10
Matches are distributed among these distances:
43 37 0.28
44 53 0.40
45 44 0.33
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.29
Consensus pattern (45 bp):
TATCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGAGCTGG
Done.