Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01009425.1 Kokia drynarioides strain JFW-HI SEQ_124132, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 219986
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 77 characters in sequence are not A, C, G, or T
Found at i:384 original size:216 final size:216
Alignment explanation
Indices: 1--4454 Score: 4257
Period size: 216 Copynumber: 20.7 Consensus size: 216
* * * * *
1 TTGTATTTGAATTAAAAAGTTATTTACA-TGAGAATTGTTTCTCTATTAGTTCTTTGCAGAACTT
1 TTGTATTTGAATTAAAAACTTATTTA-AGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTT
* * * * *
65 TCGAACTTGTCAAACTTTTACGAGTTCTTTTAT-ATTTTTGGGTCCTTAAGGTATTCAAGATGAT
65 TCGAACTTGTCAAACTTTTATGAGTTCTTTTATAAATTTT-GTTCCTTAAAGTATTCAAGACGAT
* * * ** *
129 CCATTCCTTCGAGTAATTTTACGAACATTCCATGCTCGGGAAATTGCATCATTTGGTCTGAAGAG
129 CCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCCAAATAG
*
194 TTTGTCATTTTGTAAAGAACTTT
194 TTTGTCATTTTGTAAACAACTTT
* * * * * *
217 TTGTCTTTAAATTAAAAACTTATTTAAGTAAGAATTGTTTCTCT-TGTGGTTCTTGCCCAAATTT
1 TTGTATTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCT-TGGTTCTTGGCCGAACTT
* *
281 TTGAACTTGTCAAACTTTTATGAGTTCTTTTATAAATTTTGTTCCTTAAAGTTTTCAAGACGATC
65 TCGAACTTGTCAAACTTTTATGAGTTCTTTTATAAATTTTGTTCCTTAAAGTATTCAAGACGATC
* * ** *
346 CATTCCGTT-GAGCAATTTTTCGAACATTCCATGCTCGGGGAATCACATCATTTATTGCAAATAG
130 CATTCC-TTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCCAAATAG
410 TTTGTCATTTTGTAAACAACTTT
194 TTTGTCATTTTGTAAACAACTTT
* * * * *
433 TGGTCA-TTGAATTACAAACTTATTTACGTGAGAATTATTTCTCTCTGGGTTCTTGGCCGAAC-T
1 TTGT-ATTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTT
** ** * *
496 TCTGAACTTGTCAAACTTTTATGAGTTCTTTTATATCTTAGGTTCCTTAAAGTATTCAGGATGAT
65 TC-GAACTTGTCAAACTTTTATGAGTTCTTTTATAAATTTTGTTCCTTAAAGTATTCAAGACGAT
* * * * * * * * * * *
561 CCAATCCTTCAAGCACTTTTTAGAAAATTCCATACTCTGGAAATCGCATTATCTGATCCAAAAAG
129 CCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCCAAATA-
* **
626 GTTT-TTATTTTGTAAACAAAATT
193 GTTTGTCATTTTGTAAACAACTTT
* * * ** *
649 TTGTCTTTGAATTAAAAACTTATCTACGTGAGAATTGTTTCTCTCTTGGGACTTGGCCGAACTTC
1 TTGTATTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTT
* * * * * *
714 CAAACTAGTCAAACATTGACT-AGTT-TTGTTATAACTTTTGTTCCTTAAAGTATTCAAGATGAT
66 CGAACTTGTCAAACTTTTA-TGAGTTCTT-TTATAAATTTTGTTCCTTAAAGTATTCAAGACGAT
* * *
777 ACATTCCTGT-GAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATAATTTGGTTCAAATA
129 CCATTCCT-TCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCCAAATA
*
841 GTTTGTCAATTTTGTAAGA-AATTTT
193 GTTTGTC-ATTTTGTAA-ACAACTTT
* * * * * *
866 TTGTATTTGAATTAAAAACTTATTTAAGTGAGAATTCTTTTCACTGTTGATTCTTTGCTGAACTT
1 TTGTATTTGAATTAAAAACTTATTTAAGTGAGAATT-GTTTCTCTCTTGGTTCTTGGCCGAACTT
* *
931 TCGAACTTGTCAAACTTTTATTAGTTCTTTTAT-AATTTTGTTTCCTTAAAGTATTCAAGACGGT
65 TCGAACTTGTCAAACTTTTATGAGTTCTTTTATAAATTTTG-TTCCTTAAAGTATTCAAGACGAT
* * * * * * * * *
995 CTATTGCTTGGAG-AAATTTTCAAAACATTCCGTGCTTGGGAAATCACATCATTTGGTCCAATTA
129 CCATTCCTTCGAGCAATTTTTC-GAACATTCCATGCTCGGGAAATCGCATCATTTGGTCCAAATA
1059 GTTT-TCCATTTTGTAAACAACTTT
193 GTTTGT-CATTTTGTAAACAACTTT
* * * * **
1083 TGGTCTTTGAATTAATAACTTATTTACA-TGAGAATTGTTTCACTCTT-GTTCTTGGTTGAACTT
1 TTGTATTTGAATTAAAAACTTATTTA-AGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTT
* * * * * *
1146 TCAAACTTTTCAAA-TTTTACGAGTTCTTTTATAACTTTGGTTCCATAAAGTATTCAAGACGATC
65 TCGAACTTGTCAAACTTTTATGAGTTCTTTTATAAATTTTGTTCCTTAAAGTATTCAAGACGATC
* * * * *
1210 CATTCCATTC-AGCAATTTTTTGAACATTCCATGGTCGGGAAATCACACCATTTAGTCCAAATAG
130 CATTCC-TTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCCAAATAG
1274 TTTGTCATTTTGTAAACAACTTT
194 TTTGTCATTTTGTAAACAACTTT
* * * * * * **
1297 TGGTCTTTGAATTAATAACTTCTTTTCAG-GAGAATTGTTTCTCTCTT-TTTCTTGGTTGAACTT
1 TTGTATTTGAATTAAAAACTT-ATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTT
* * * * * * * **
1360 TCAAACTTTTCAAAATTTTACGGGTTCTTTTACAACTTCGGTTCCTTAAAGTATTCAAGACGATC
65 TCGAACTTGTCAAACTTTTATGAGTTCTTTTATAAATTTTGTTCCTTAAAGTATTCAAGACGATC
* * * * *
1425 CATTCCATCCAGCAATTTTTTGAACATTCCATGGTCGGGAAATCGCATCATTTGGTCGAAATAGT
130 CATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCCAAATAGT
* *
1490 TTGTCCTTTTGTAAGCAACTTT
195 TTGTCATTTTGTAAACAACTTT
* * ** * * * **
1512 TGGTATTTGAATTAAAAACTTCTTTTCGGGAGAATTGTTTCTCTGTTGGTTTTTTCCCGAAC-TT
1 TTGTATTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTT
* * * ** * * * * *
1576 CAAAAGTTAT-AGAACTTTTACAAGTTCTTTTATAACTTTGGTTGCTTAAAGTATTAAAGATGAT
66 C-GAACTTGTCA-AACTTTTATGAGTTCTTTTATAAATTTTGTTCCTTAAAGTATTCAAGACGAT
** ** ** *
1640 TGATTCCTTCGAGC-ATTTATTAAAAACATTCCATGCTCGAAAAATC-CTATCATTTAGTCCAAA
129 CCATTCCTTCGAGCAATTT-TT-CGAACATTCCATGCTCGGGAAATCGC-ATCATTTGGTCCAAA
** ***
1703 TAGTTTGTCAAATTGTAAA-AAAAAT
191 TAGTTTGTCATTTTGTAAACAACTTT
* * * *
1728 ATGTATTTG-ATTAAAAAGTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGTCGAACTTT
1 TTGTATTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTT
* * * * * *
1792 CGAACTTGTCAGATTTTTAGGTGTTGTTTTAT-AATTTTGGTTCCTTAAAGTATTCAAGACGATT
66 CGAACTTGTCAAACTTTTATGAGTTCTTTTATAAATTTT-GTTCCTTAAAGTATTCAAGACGATC
* * **
1856 CATTCCTTCGAGCAATTTTCCGAGCATTCCATGCTCGAAAAATCGCATCATTTGGTCCAAATAGT
130 CATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCCAAATAGT
* *
1921 TTGTCATTTTGTAATCAATTTTT
195 TTGTCATTTTGTAAACAA-CTTT
* * *
1944 TTGTATTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTT-ATGTCTTGGTCGAACTT
1 TTGTATTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGT-TCTTGGCCGAACTT
* * * ** *
2008 TAGAACTTGTCAAGCTTTTATGAGTTCTTTTATAACTTCAGTTTCTTAAAGTATTCAAGACGATC
65 TCGAACTTGTCAAACTTTTATGAGTTCTTTTATAAATTTTGTTCCTTAAAGTATTCAAGACGATC
* * *
2073 CATTCCTTCGAGCAATTTTTCGAACATACCATGCTCGGAAAATCGCATCATTTGGTCCAAACA--
130 CATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCCAAATAGT
* **
2136 -----ATTTTGTAATCAGTTTT
195 TTGTCATTTTGTAAACAACTTT
* * *
2153 TTGTATTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCT-TCTGGTTCTTTGTCGAACTT
1 TTGTATTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCT-TGGTTCTTGGCCGAACTT
* ** *
2217 TCAAACTTGTCAATA-TTTTATGAGTTCTTTT-T---TCGT-TTCATTAAAGTATTCAAGACGAT
65 TCGAACTTGTCAA-ACTTTTATGAGTTCTTTTATAAATTTTGTTCCTTAAAGTATTCAAGACGAT
* * ** * * * **
2276 CCATTACTTCAAGCAATTTACCAAACATTCAATACTCGGGAAATCGCATCATTTGCACCAAATAG
129 CCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCCAAATAG
*
2341 TTTGTCATTTTGTAAACAACGTT
194 TTTGTCATTTTGTAAACAACTTT
* * ** * *
2364 TGGTATTTAAATTAAAAACTTGCTCACA-TGAGAATTATTTCTCTCTTGGTTCTTGGCCGAA-TT
1 TTGTATTTGAATTAAAAACTTATTTA-AGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTT
* * * * * * *
2427 TCTGAACTTTTCAAACTTTTACT-ATTTTTTTTTATAAATTTGGTTGCTTAAAGTATTAAAGCCG
65 TC-GAACTTGTCAAACTTTTA-TGA-GTTCTTTTATAAATTTTGTTCCTTAAAGTATTCAAGACG
* *
2491 ATCCATTCCTTC-AGGCAATTTTTCGAACATTCCACGCTTGGGAAATCGCATCATTTGGTCCAAA
127 ATCCATTCCTTCGA-GCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCCAAA
**
2555 TAGTTTGTCATTTTGTAAACATTTTT
191 TAGTTTGTCATTTTGTAAACAACTTT
* * * * *
2581 TTGTATTTGATTTAAAAAATTATTTAAGTGAGAATTCTTTCTCTATTGGCTCTTGGCCGAAC-TT
1 TTGTATTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTT
** * * * *
2645 ----C----CAAACTTTTACAAGTTATTTTATAACTTTGGTTGCTTAAAGTATTCAAGACGATCC
66 CGAACTTGTCAAACTTTTATGAGTTCTTTTATAAATTTTGTTCCTTAAAGTATTCAAGACGATCC
* * * ** * *
2702 ATTCCTTCTAGCAATTTTTTGAAAATTTTATGCTCGGGAAATCGCATTATTTGGTCCAAATATTT
131 ATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTT
* *
2767 TGTGATTTTGTGAACAACTTT
196 TGTCATTTTGTAAACAACTTT
* * * * * * *
2788 TTGTCTTTGAATTAAAAATTTATTTATGTGAGAATTGTTTCTGTCTTAGTTCTTGGCCAAACTTC
1 TTGTATTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTT
* * ** *
2853 CGAAATTGTCAAACTTTTATGAGTTCTTTTATAACTTCGGTT-CTATAAAGTATTCAAGACGATT
66 CGAACTTGTCAAACTTTTATGAGTTCTTTTATAAATTTTGTTCCT-TAAAGTATTCAAGACGATC
* * * * ** * *
2917 CATTCCTTCGAGCAATTTTTTGAACATACCATGCTTGGAAAATCATATCATTTGGTCTAAATAAT
130 CATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCCAAATAGT
* *
2982 TTGTCATTTTTGTAATCAAATTT
195 TTGTCA-TTTTGTAAACAACTTT
* * * * * *
3005 TTTTATTTGAACTAAAAACTTATTTACGTGAGAATTGCTTCTCT-TCTGGTTCTTTGCCAAACTT
1 TTGTATTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCT-TGGTTCTTGGCCGAACTT
* * *
3069 TCGAACTTGTCAAGCTTTTATGAGTTCTTTTAT-AATTTCAT-TTCATTAATGTATTCAAGACGA
65 TCGAACTTGTCAAACTTTTATGAGTTCTTTTATAAATTT--TGTTCCTTAAAGTATTCAAGACGA
* ** * * * * * **
3132 TCCATTCCTTCAAGCAATTTACCAAACATTCAATACTCAGGAAATCGCATAATTTGCACCAAATA
128 TCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCCAAATA
*
3197 GTTTGTCATTTTGTAAACAAGTTT
193 GTTTGTCATTTTGTAAACAACTTT
* * ** * * * *
3221 TGGTATTTGAATGAAAAACTTGCTCACA-TGAGAATTGTTTCTTTCTTAGTTCTTGGCTGAA-TT
1 TTGTATTTGAATTAAAAACTTATTTA-AGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTT
* * * * * * * *
3284 TCTAAACTTTTCAAACTTTTACGAGTTTTTTTTATAAATTTGGTTGCTTAAAGTATTAAAGCCGA
65 TC-GAACTTGTCAAACTTTTATGAG-TTCTTTTATAAATTTTGTTCCTTAAAGTATTCAAGACGA
* * * ** * **
3349 TCCATTCCTTCGAGCAATTTTTTGAACATTTCATACTCGAAAAATCACATCATTTACTCCAAATA
128 TCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCCAAATA
* ** ***
3414 GTTTTTCAAATTGTAAA-AAAAAT
193 GTTTGTCATTTTGTAAACAACTTT
* * ** * *
3437 TTGTATTTAAATTAAAAAATTATTTACTTGAGAATTGTTTCTCTATTGGTTCTTGGCTGAACTTT
1 TTGTATTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTT
* * * * * * *
3502 CGAACTTATCAGACTTTTAAGAGTTCTTTTATAATTTTTGTTCCTTAAAGTATTCAAGGCTATCT
66 CGAACTTGTCAAACTTTTATGAGTTCTTTTATAAATTTTGTTCCTTAAAGTATTCAAGACGATCC
* * *
3567 ATTCCTTTGAGCAATTTTTCGAACATTCCATGCTC-GGAGAATCACATCATTTGGTCCAACTAGT
131 ATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGA-AATCGCATCATTTGGTCCAAATAGT
3631 TTGTCATTTTGTAAACAACTTT
195 TTGTCATTTTGTAAACAACTTT
* * * * * * *
3653 TGGTCTTTGAATTACAAACTTATTTATGTAAGAATTATTTCTCTCTTGGTTCTTGGCTGAA-TTT
1 TTGTATTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTT
* * *
3717 CCAAACTTGTCAAACTTTTATAAGTTCTTTTAT-AACTTTGTTTCCTTAAAGTATTCAAGACGAT
66 -CGAACTTGTCAAACTTTTATGAGTTCTTTTATAAATTTTG-TTCCTTAAAGTATTCAAGACGAT
* * * * * * * *
3781 CAAATT-CTTAGAGCAATTATTCAAAAATTCCATGCTCGGGAAATCGCATTATCTGATCCAAATA
129 C-CATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCCAAATA
* *
3845 GATTGTCATTTTGTAAACAAATTT
193 GTTTGTCATTTTGTAAACAACTTT
* * * * * *
3869 TGGTCTTTGAATTAAAAACTTATTTATGTGAGAATTATTTCTCTCTTGGGTCTTGGCCGTAC-TT
1 TTGTATTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTT
* * * * * *
3933 CTGAACTAGTCAAAC-TTGATGAGTTATTTTAT-AACTTCGATTCCTTAAAGTATTTAAGACGAT
66 C-GAACTTGTCAAACTTTTATGAGTTCTTTTATAAATTTTG-TTCCTTAAAGTATTCAAGACGAT
* * * * * * *
3996 ACATTCTTTTGAGCAATTTTTTGAACACTCCATGCTCGGGAAATCACATCATTTGGTCCAAAAAG
129 CCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCCAAATAG
* *
4061 TTTGTCACTTTGTAAATAA-TTT
194 TTTGTCATTTTGTAAACAACTTT
* * *
4083 TTCGTATTTGAATTAAAAACTTATTTAAGTGAGAATTCTTTCTCTGTTGGTTCTTGGCCGAATTT
1 TT-GTATTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTT
* * * *
4148 TAGAACTTGTCTAACTTTTACGAGTTCTTTTAT-AATTTTGTTTCCTTACAA-TATTCAAGATGA
65 TCGAACTTGTCAAACTTTTATGAGTTCTTTTATAAATTTTG-TTCCTTA-AAGTATTCAAGACGA
* * * * *
4211 TCCATTCCTTAGAGTAATTTTTCGAACATTCCATGATCTGGAAATCGCATCATTTGGTCCAATTA
128 TCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCCAAATA
*
4276 GTTTGTTATTTTGTAAACAACTTT
193 GTTTGTCATTTTGTAAACAACTTT
* * * * ** * *
4300 TAGTCTTCGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTC-TAATTCTCGGCTGAACTTT
1 TTGTATTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTT
* ** * * * ** * *
4364 CGAACTTTTCAAAAATTTACGAGTTCTTCTATAACTTCGGTTCCTTAAAGTATTCAAGACAATTC
66 CGAACTTGTCAAACTTTTATGAGTTCTTTTATAAATTTTGTTCCTTAAAGTATTCAAGACGATCC
* * * *
4429 ATTCCTTCCAACGATTTTCCGAACAT
131 ATTCCTTCGAGCAATTTTTCGAACAT
4455 ATTTTGTAAT
Statistics
Matches: 3487, Mismatches: 635, Indels: 233
0.80 0.15 0.05
Matches are distributed among these distances:
204 73 0.02
205 1 0.00
207 162 0.05
208 15 0.00
209 89 0.03
210 18 0.01
211 77 0.02
212 9 0.00
213 1 0.00
214 240 0.07
215 684 0.20
216 1248 0.36
217 745 0.21
218 123 0.04
219 2 0.00
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (216 bp):
TTGTATTTGAATTAAAAACTTATTTAAGTGAGAATTGTTTCTCTCTTGGTTCTTGGCCGAACTTT
CGAACTTGTCAAACTTTTATGAGTTCTTTTATAAATTTTGTTCCTTAAAGTATTCAAGACGATCC
ATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCCAAATAGTT
TGTCATTTTGTAAACAACTTT
Found at i:4585 original size:180 final size:180
Alignment explanation
Indices: 4277--4602 Score: 519
Period size: 180 Copynumber: 1.8 Consensus size: 180
4267 GTCCAATTAG
* * *
4277 TTTGTTATTTTGTAAACAACTTTTAGTCTTCGAATTAAAAACTTATTTACGTGAGAATTGTTTCT
1 TTTGTAATTTTGTAAACAACTTTTAGTCTTCGAATTAAAAACATATTTACGTGAGAATTATTTCT
*
4342 CTCTAATTCTCGGCTGAACTTTCGAACTTTTCAAAAATTTACGAGTTCTTCTATAACTTCGGTTC
66 CTCTAATTCTCGGCTGAACTTCCGAACTTTTCAAAAATTTACGAGTTCTTCTATAACTTCGGTTC
4407 CTTAAAGTATTCAAGACAATTCATTCCTTCCAACGATTTTCCGAACATAT
131 CTTAAAGTATTCAAGACAATTCATTCCTTCCAACGATTTTCCGAACATAT
* *
4457 TTTGTAATTTTGTAACCAACTTTTGGT-TTCTGAATTAAAAACATATTTACGTGAGAATTATTTC
1 TTTGTAATTTTGTAAACAACTTTTAGTCTTC-GAATTAAAAACATATTTACGTGAGAATTATTTC
** * * * *
4521 TCTCTGGTTTTTGGCTGAACTTCCGAACTTTTCAAAATTTTACGAGTTCTTTTATAACTTCGGTT
65 TCTCTAATTCTCGGCTGAACTTCCGAACTTTTCAAAAATTTACGAGTTCTTCTATAACTTCGGTT
*
4586 CCTTGAAGTATTCAAGA
130 CCTTAAAGTATTCAAGA
4603 TGATCCATTC
Statistics
Matches: 132, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
179 3 0.02
180 129 0.98
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (180 bp):
TTTGTAATTTTGTAAACAACTTTTAGTCTTCGAATTAAAAACATATTTACGTGAGAATTATTTCT
CTCTAATTCTCGGCTGAACTTCCGAACTTTTCAAAAATTTACGAGTTCTTCTATAACTTCGGTTC
CTTAAAGTATTCAAGACAATTCATTCCTTCCAACGATTTTCCGAACATAT
Found at i:5253 original size:216 final size:216
Alignment explanation
Indices: 4457--6318 Score: 2052
Period size: 216 Copynumber: 8.7 Consensus size: 216
4447 CCGAACATAT
* * * * *
4457 TTTGTAATTTTGTAACCAACTTTTGGT-TTCTGAATTAAAAACATATTTACGTGAGAATTATTTC
1 TTTGTCATTTTGTAAACAACTTTTTGTATT-TGAATTAAAAACTTATTTACGTGAGAATTGTTTC
* *
4521 TCTC-TGGTTTTTGGCTGAACTTCCGAACTTTTCAAAATTTTACGAGTTCTTTTATAACTTCGGT
65 TCTCTTGGTTTTTGGCTGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGT
* * * * * *
4585 TCCTTGAAGTATTCAAGATGATCCATTCCATTC-AGCAATTTTTCGAACACTCCATGGTTGGGAT
130 TCCTTAAAGTATTCAAGACGATCCATTCC-TTCGAGCAATTTTTCGAACATTCCATGCTCGGGAA
* *
4649 ATTGCATCATTTGGTCTAAATAG
194 ATCGCATCATTTGGTCCAAATAG
* * * *
4672 TTTGTCATTTTGTAAGCAAC-TTTTATATTTGAATTAAAAACTTATTTTCGGGAGAATTGTTTCT
1 TTTGTCATTTTGTAAACAACTTTTTGTATTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT
* * * * * *
4736 CTCTTGGTTTTTGG-TCGTACTTCCAAACTCGTAAAACTTTTACGAGTTCTTTTAAAACTTAGGT
66 CTCTTGGTTTTTGGCT-GAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGT
* * * * * *
4800 TCCTTAATGTATTCAAGAAGATCCATTCCTTCAAGCAAATTTTCAAACATTCAATGCTCGGGAAA
130 TCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAA
** * *
4865 TTACATCATTTAGTCCATATAG
195 TCGCATCATTTGGTCCAAATAG
* * * *
4887 TTTGTCATTTTGTAATCAAATTTTTTGCATTTGAATTAAAAAACTTATTTACGTAAGAATTGTTT
1 TTTGTCATTTTGTAAAC-AACTTTTTGTATTTGAATT-AAAAACTTATTTACGTGAGAATTGTTT
* * * * * * *
4952 CTCTCGTGGTTCTTGCCCGAA-TTTCGAACTTGTCAAACTTTTATGAGTTCTTTTATAACTTTGG
64 CTCTCTTGGTTTTTGGCTGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGG
* * * *
5016 TTCCATAAAGTATTCAAGACGATCCATTCCTTCAAGCAATTTTCCGAACATTCCATGCTCGGGGA
129 TTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAA
* *
5081 ATCGCATCTTTTGGTCCAAGTAG
194 ATCGCATCATTTGGTCCAAATAG
* * * * *
5104 TTTGTCATTTTGTAAACAACTTTTGGTCTTAGAATTACAAACTTATTTACGTGATAATTGTTTCT
1 TTTGTCATTTTGTAAACAACTTTTTGTATTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT
* * * *
5169 CTCTTGGTTTTTAGCTGAACTTCCTAACTTGTCAAATTTTTATGAGTTCTTTTATAACCTT-GGT
66 CTCTTGGTTTTTGGCTGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAA-CTTCGGT
* * * * *
5233 TCCTTAAAGTATTTAAGACGATCCAATCCATCGAGCAATTTTTTGAAAATTCCATGCTCGGGAAA
130 TCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAA
* * *
5298 TCGCATTATCTGATCCAAATAG
195 TCGCATCATTTGGTCCAAATAG
* * *
5320 TTTGTCATTTTGTAAACAA-TTTTT-TGTCT---TT-AAAACTTATTTACATGAGAATTGTTTCT
1 TTTGTCATTTTGTAAACAACTTTTTGTATTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT
* * * **
5379 CTCTTGGGTCTTGGCCGAACTTCCGAACTTGTCAAACTTTGT-TTAGTTCTTTTATAACTTCGGT
66 CTCTTGGTTTTTGGCTGAACTTCCGAACTTGTCAAACTTT-TACGAGTTCTTTTATAACTTCGGT
* * * * * * *
5443 TCCTTAAAGTATTCAAGATGATACATTCCTTTGAGCAATTTTTCGAACATTCTATACTCGAGAAG
130 TCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAA
* * *
5508 TCACATCATTTGTTCCAAAAAG
195 TCGCATCATTTGGTCCAAATAG
* * * * * *
5530 TTTGTCATTTTATAAACAATTTTTTGTATTTAAATTAAAAACTTATTTAAGTGAGAATTTTTTGT
1 TTTGTCATTTTGTAAACAACTTTTTGTATTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT
* * ** *** * *
5595 CTGTTGGTTCTTGGCCAAACTTTTAAACTTGTCAAACTTTTACGAGTTCTTTTATAATTTCGTTT
66 CTCTTGGTTTTTGGCTGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTT
* * * *
5660 CCTTAAAG-AGTTCAAGAAGATCCATTCCTTGGAGCAATTTTTCGAACATTCTATGCTCTGGAAA
131 CCTTAAAGTA-TTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAA
* * *
5724 TCGCATCAATTGCTCCAATTAG
195 TCGCATCATTTGGTCCAAATAG
* * * * * * *
5746 TTTGTCATTTTGTAACCAACTTTTGGTTTTTTAATTAAAAACATATTTATGTAAGAATTGTTTCT
1 TTTGTCATTTTGTAAACAACTTTTTGTATTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT
** * *
5811 CTC-TGGTTTTTGGCTGAACTTTTGAACTTTTCAAAATTTTACGAGTTCTTTTATAACTTCGGTT
66 CTCTTGGTTTTTGGCTGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTT
* ** * * * * * *
5875 CCTTAAAGTATCCAAGACGATCCATTCCACCCAACAATTTTTCGAACATTCCATGGTTGGCATAT
131 CCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAAT
* *
5940 TGCATCATTTGGTCTAAATAG
196 CGCATCATTTGGTCCAAATAG
* * * *
5961 TTTGTCATTTTGTAAGCAACTTTTTGTATTTGAATAAAAAACTTATTTCCGGGAGAATTGTTTCT
1 TTTGTCATTTTGTAAACAACTTTTTGTATTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT
* * * * * * *
6026 CTCTTGGTTTTTGG-TCGTACTTCCAAACTCGTAAAACTTTTATGAGTTCTTTGATAACTTAGGT
66 CTCTTGGTTTTTGGCT-GAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGT
* * **
6090 TCCCTAAAGTATTCAAGACGATCCATTCCTTCGAGTAATTTTTCGAACATTCCATGCTCGAAAAA
130 TCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAA
*
6155 TCGCATCAATTGGTCCAAATAG
195 TCGCATCATTTGGTCCAAATAG
* * * * * *
6177 TTTTTCATTTTGTAAACAATTTTTTGTATCTGAATTAAAAACTTACTTAAGTGAGAATTCTTTCT
1 TTTGTCATTTTGTAAACAACTTTTTGTATTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT
* * * * * **
6242 CTGTT-GTCTCTTGGCCGAACTTCCGAACTTTTCAAACTTTT-CGAGTTTTTTTATAACTTTTGT
66 CTCTTGGT-TTTTGGCTGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGT
*
6305 TGCTTAAAGTATTC
130 TCCTTAAAGTATTC
6319 TCTTCTTTAG
Statistics
Matches: 1369, Mismatches: 253, Indels: 50
0.82 0.15 0.03
Matches are distributed among these distances:
209 3 0.00
210 164 0.12
211 8 0.01
212 3 0.00
214 44 0.03
215 412 0.30
216 554 0.40
217 142 0.10
218 39 0.03
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (216 bp):
TTTGTCATTTTGTAAACAACTTTTTGTATTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT
CTCTTGGTTTTTGGCTGAACTTCCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGGTT
CCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAAT
CGCATCATTTGGTCCAAATAG
Found at i:6003 original size:431 final size:429
Alignment explanation
Indices: 4457--6318 Score: 2116
Period size: 431 Copynumber: 4.3 Consensus size: 429
4447 CCGAACATAT
* * * *
4457 TTTGTAATTTTGTAACCAACTTTTGGTTTCTGAATTAAAAACATATTTACGTGAGAATTATTTCT
1 TTTGTCATTTTGTAACCAACTTTTGGTTTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT
* * *
4522 CTCTGGTTTTTGGCTGAACTTCCGAACTTTTCAAAATTTTACGAGTTCTTTTATAACTTCGGTTC
66 CTCTGGTTCTTGGCCGAACTTCCGAACTTTTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTC
* * * * * *
4587 CTTGAAGTATTCAAGATGATCCATTCCATTCAGCAATTTTTCGAACACTCCATGGTTGGGATATT
131 CTTAAAGTATTCAAGACGATCCATTCCATTCAACAATTTTTCGAACATTCCATGCTTGGGA-ATC
* * *
4652 GCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAGCAAC-TTTTATATTTGAATTAAAAACTTA
195 GCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTTGTATTTGAATTAAAAACTTA
* * *
4716 TTTTCGGGAGAATTGTTTCTCTCTTGGTTTTTGGTCGTACTTCCAAACTCGTAAAACTTTTACGA
260 TTTACGGGAGAATTGTTTCTCTCTTGGTTTTTGGCCGAACTTCCAAACTCGTAAAACTTTTACGA
* * * * *
4781 GTTCTTTTAAAACTTAGGTTCCTTAATGTATTCAAGAAGATCCATTCCTTCAAGCAAATTTTCAA
325 GTTCTTTTATAACTTAGGTTCCTTAAAGTATTCAAGAAGATCCATTCCTTCGAGCAATTTTTCGA
* ** * *
4846 ACATTCAATGCTCGGGAAATTACATCATTTAGTCCATATAG
390 ACATTCCATGCTCGGGAAATCGCATCAATT-GTCCAAATAG
* * * ** *
4887 TTTGTCATTTTGTAATCAAATTTTTTGCATTTGAATTAAAAAACTTATTTACGTAAGAATTGTTT
1 TTTGTCATTTTGTAA-CCAACTTTTGGTTTTTGAATT-AAAAACTTATTTACGTGAGAATTGTTT
* * * * *
4952 CTCTCGTGGTTCTTGCCCGAA-TTTCGAACTTGTCAAACTTTTATGAGTTCTTTTATAACTTTGG
64 CTCTC-TGGTTCTTGGCCGAACTTCCGAACTTTTCAAACTTTTACGAGTTCTTTTATAACTTCGG
* * *
5016 TTCCATAAAGTATTCAAGACGATCCATTCC-TTCAAGCAATTTTCCGAACATTCCATGCTCGGGG
128 TTCCTTAAAGTATTCAAGACGATCCATTCCATTCAA-CAATTTTTCGAACATTCCATGCT-TGGG
* * * * * *
5080 AATCGCATCTTTTGGTCCAAGTAGTTTGTCATTTTGTAAACAACTTTTGGTCTTAGAATTACAAA
191 AATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTTGTATTTGAATTAAAAA
* * * * * * * *
5145 CTTATTTACGTGATAATTGTTTCTCTCTTGGTTTTTAGCTGAACTTCCTAACTTGTCAAATTTTT
256 CTTATTTACGGGAGAATTGTTTCTCTCTTGGTTTTTGGCCGAACTTCCAAACTCGTAAAACTTTT
* * * * *
5210 ATGAGTTCTTTTATAACCTT-GGTTCCTTAAAGTATTTAAGACGATCCAATCCATCGAGCAATTT
321 ACGAGTTCTTTTATAA-CTTAGGTTCCTTAAAGTATTCAAGAAGATCCATTCCTTCGAGCAATTT
* * *
5274 TTTGAAAATTCCATGCTCGGGAAATCGCAT-TATCTGATCCAAATAG
385 TTCGAACATTCCATGCTCGGGAAATCGCATCAAT-TG-TCCAAATAG
* * *
5320 TTTGTCATTTTGTAAACAA-TTTT--TTGTCT---TT-AAAACTTATTTACATGAGAATTGTTTC
1 TTTGTCATTTTGTAACCAACTTTTGGTT-TTTGAATTAAAAACTTATTTACGTGAGAATTGTTTC
* * **
5378 TCTCTTGGGTCTTGGCCGAACTTCCGAACTTGTCAAACTTTGT-TTAGTTCTTTTATAACTTCGG
65 TCTC-TGGTTCTTGGCCGAACTTCCGAACTTTTCAAACTTT-TACGAGTTCTTTTATAACTTCGG
* * * * * * * * *
5442 TTCCTTAAAGTATTCAAGATGATACATTCCTTTGAGCAATTTTTCGAACATTCTATACTCGAGAA
128 TTCCTTAAAGTATTCAAGACGATCCATTCCATTCAACAATTTTTCGAACATTCCATGCTTGGGAA
* * * * * *
5507 GTCACATCATTTGTTCCAAAAAGTTTGTCATTTTATAAACAATTTTTTGTATTTAAATTAAAAAC
193 -TCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTTGTATTTGAATTAAAAAC
* * * * * * * ** * *
5572 TTATTTAAGTGAGAATTTTTTGTCTGTTGGTTCTTGGCCAAACTTTTAAACTTGTCAAACTTTTA
257 TTATTTACGGGAGAATTGTTTCTCTCTTGGTTTTTGGCCGAACTTCCAAACTCGTAAAACTTTTA
* * * *
5637 CGAGTTCTTTTATAATTTCGTTTCCTTAAAG-AGTTCAAGAAGATCCATTCCTTGGAGCAATTTT
322 CGAGTTCTTTTATAACTTAGGTTCCTTAAAGTA-TTCAAGAAGATCCATTCCTTCGAGCAATTTT
* * *
5701 TCGAACATTCTATGCTCTGGAAATCGCATCAATTGCTCCAATTAG
386 TCGAACATTCCATGCTCGGGAAATCGCATCAATTG-TCCAAATAG
* * * *
5746 TTTGTCATTTTGTAACCAACTTTTGGTTTTTTAATTAAAAACATATTTATGTAAGAATTGTTTCT
1 TTTGTCATTTTGTAACCAACTTTTGGTTTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT
* * ** *
5811 CTCTGGTTTTTGGCTGAACTTTTGAACTTTTCAAAATTTTACGAGTTCTTTTATAACTTCGGTTC
66 CTCTGGTTCTTGGCCGAACTTCCGAACTTTTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTC
* ** * * *
5876 CTTAAAGTATCCAAGACGATCCATTCCACCCAACAATTTTTCGAACATTCCATGGTTGGCATATT
131 CTTAAAGTATTCAAGACGATCCATTCCATTCAACAATTTTTCGAACATTCCATGCTTGGGA-ATC
* * *
5941 GCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAGCAACTTTTTGTATTTGAATAAAAAACTTA
195 GCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTTGTATTTGAATTAAAAACTTA
* * * *
6006 TTTCCGGGAGAATTGTTTCTCTCTTGGTTTTTGGTCGTACTTCCAAACTCGTAAAACTTTTATGA
260 TTTACGGGAGAATTGTTTCTCTCTTGGTTTTTGGCCGAACTTCCAAACTCGTAAAACTTTTACGA
* * * *
6071 GTTCTTTGATAACTTAGGTTCCCTAAAGTATTCAAGACGATCCATTCCTTCGAGTAATTTTTCGA
325 GTTCTTTTATAACTTAGGTTCCTTAAAGTATTCAAGAAGATCCATTCCTTCGAGCAATTTTTCGA
**
6136 ACATTCCATGCTCGAAAAATCGCATCAATTGGTCCAAATAG
390 ACATTCCATGCTCGGGAAATCGCATCAATT-GTCCAAATAG
* * * * * * * * *
6177 TTTTTCATTTTGTAAACAATTTTTTGTATCTGAATTAAAAACTTACTTAAGTGAGAATTCTTTCT
1 TTTGTCATTTTGTAACCAACTTTTGGTTTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT
* * * **
6242 CTGTTGTCTCTTGGCCGAACTTCCGAACTTTTCAAACTTTT-CGAGTTTTTTTATAACTTTTGTT
66 CTCTGGT-TCTTGGCCGAACTTCCGAACTTTTCAAACTTTTACGAGTTCTTTTATAACTTCGGTT
*
6306 GCTTAAAGTATTC
130 CCTTAAAGTATTC
6319 TCTTCTTTAG
Statistics
Matches: 1184, Mismatches: 219, Indels: 57
0.81 0.15 0.04
Matches are distributed among these distances:
425 49 0.04
426 293 0.25
427 12 0.01
428 2 0.00
429 2 0.00
430 17 0.01
431 408 0.34
432 214 0.18
433 184 0.16
434 3 0.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (429 bp):
TTTGTCATTTTGTAACCAACTTTTGGTTTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCT
CTCTGGTTCTTGGCCGAACTTCCGAACTTTTCAAACTTTTACGAGTTCTTTTATAACTTCGGTTC
CTTAAAGTATTCAAGACGATCCATTCCATTCAACAATTTTTCGAACATTCCATGCTTGGGAATCG
CATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTTGTATTTGAATTAAAAACTTAT
TTACGGGAGAATTGTTTCTCTCTTGGTTTTTGGCCGAACTTCCAAACTCGTAAAACTTTTACGAG
TTCTTTTATAACTTAGGTTCCTTAAAGTATTCAAGAAGATCCATTCCTTCGAGCAATTTTTCGAA
CATTCCATGCTCGGGAAATCGCATCAATTGTCCAAATAG
Found at i:6158 original size:857 final size:860
Alignment explanation
Indices: 4490--6318 Score: 2279
Period size: 857 Copynumber: 2.1 Consensus size: 860
4480 TGGTTTCTGA
* * * * *
4490 ATTAAAAACATATTTACGTGAGAATTATTTCTCTC-TGGTTTTTGGCTGAACTTCCGAACTTTTC
1 ATTAAAAACTTATTTACATGAGAATTATTTCTCTCTTGGCTCTTGGCCGAACTTCCGAACTTTTC
* * *
4554 AAAATTTTACGAGTTCTTTTATAACTTCGGTTCCTTGAAGTATTCAAGATGATCCATTCCATTCA
66 AAACTTTT-CGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGATGATACATTCCATTCA
** * * ** * * *
4619 GCAATTTTTCGAACACTCCATGGTTGGGATATTGCATCATTTGGTCTAAATAGTTTGTCATTTTG
130 GCAATTTTTCGAACACTCCATACTCGAGATATCACATCATTTGGTCCAAAAAGTTTGTCATTTTA
* * ** *
4684 TAAGCAACTTTTATATTTGAATTAAAAACTTATTTTCGGGAGAATTGTTTCTCTCTTGGTTTTTG
195 TAAACAACTTTTATATTTAAATTAAAAACTTATTTAAGGGAGAATTGTTTCTCTCTTGGTTCTTG
* ** *
4749 GTCGTACTTCCAAACTCGTAAAACTTTTACGAGTTCTTTTAAAACTTAGGTTCCTTAATGTATTC
260 GCCAAACTTCCAAACTCGTAAAACTTTTACGAGTTCTTTTAAAACTTAGGTTCCTTAAAGTATTC
* *
4814 AAGAAGATCCATTCCTTCAAGCAAATTTTCAAACATTCAATGCTCGGGAAATTACATCATTTAGT
325 AAGAAGATCCATTCCTTCAAGCAAATTTTCAAACATTCAATGCTCGGGAAATCACATCAATTAGT
* * *
4879 CCATATAGTTTGTCATTTTGTAATCAAATTTTTTGCATTTGAATTAAAAAACTTATTTACGTAAG
390 CCATATAGTTTGTCATTTTGTAATCAAACTTTTGGCATTTGAATTAAAAAACATATTTACGTAAG
* *
4944 AATTGTTTCTCTCGTGGTTCTTGCCCGAATTTCGAACTTGTCAAACTTTTATGAGTTCTTTTATA
455 AATTGTTTCTCTCGTGGTTCTTGCCCGAATTTCGAACTTGTCAAAATTTTACGAGTTCTTTTATA
* * **
5009 ACTTTGGTTCCATAAAGTATTCAAGACGATCCATTCCTTCAAGCAATTTTCCGAACATTCCATGC
520 ACTTCGGTTCCATAAAGTATCCAAGACGATCCATTCCCCCAAGCAATTTTCCGAACATTCCATGC
* * * *
5074 TCGGGGAATCGCATCTTTTGGTCCAAGTAGTTTGTCATTTTGTAAACAACTTTTGGTCTTAGAAT
585 TCGGGCAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTATTAGAAT
* * * * * * *
5139 TACAAACTTATTTACGTGATAATTGTTTCTCTCTTGGTTTTTAGCTGAACTTCCTAACTTGTCAA
650 AAAAAACTTATTTACGGGAGAATTGTTTCTCTCTTGGTTTTTAGCTGAACTTCCAAACTCGTAAA
* * * *
5204 ATTTTTATGAGTTCTTTTATAACCTTGGTTCCTTAAAGTATTTAAGACGATCCAATCCATCGAGC
715 ACTTTTATGAGTTCTTTGATAACCTTGGTTCCCTAAAGTATTCAAGACGATCCAATCCATCGAGC
* ** *
5269 AATTTTTTGAAAATTCCATGCTCGGGAAATCGCAT-TATCTGATCCAAATAGTTTGTCATTTTGT
780 AATTTTTCGAAAATTCCATGCTCGAAAAATCGCATCAAT-TGATCCAAATAGTTTGTCATTTTGT
5333 AAACAATTTTTTG-TCT
844 AAACAATTTTTTGATCT
* * *
5349 -TT-AAAACTTATTTACATGAGAATTGTTTCTCTCTTGGGTCTTGGCCGAACTTCCGAACTTGTC
1 ATTAAAAACTTATTTACATGAGAATTATTTCTCTCTTGGCTCTTGGCCGAACTTCCGAACTTTTC
** * *
5412 AAACTTTGTTTAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGATGATACATTCCTTTGA
66 AAACTTT-TCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGATGATACATTCCATTCA
* * *
5477 GCAATTTTTCGAACATTCTATACTCGAGA-AGTCACATCATTTGTTCCAAAAAGTTTGTCATTTT
130 GCAATTTTTCGAACACTCCATACTCGAGATA-TCACATCATTTGGTCCAAAAAGTTTGTCATTTT
* * * * * *
5541 ATAAACAATTTTTTGTATTTAAATTAAAAACTTATTTAAGTGAGAATTTTTTGTCTGTTGGTTCT
194 ATAAACAA-CTTTTATATTTAAATTAAAAACTTATTTAAGGGAGAATTGTTTCTCTCTTGGTTCT
** * * * * * *
5606 TGGCCAAACTTTTAAACTTGTCAAACTTTTACGAGTTCTTTTATAATTTCGTTTCCTTAAAG-AG
258 TGGCCAAACTTCCAAACTCGTAAAACTTTTACGAGTTCTTTTAAAACTTAGGTTCCTTAAAGTA-
** * * * * *
5670 TTCAAGAAGATCCATTCCTTGGAGCAATTTTTCGAACATTCTATGCTCTGGAAATCGCATCAATT
322 TTCAAGAAGATCCATTCCTTCAAGCAAATTTTCAAACATTCAATGCTCGGGAAATCACATCAATT
* ** * *
5735 -GCTCCA-ATTAGTTTGTCATTTTGTAA-CCAACTTTTGGTTTTTTAATT-AAAAACATATTTAT
387 AG-TCCATA-TAGTTTGTCATTTTGTAATCAAACTTTTGGCATTTGAATTAAAAAACATATTTAC
* * * * *
5796 GTAAGAATTGTTTCTCTC-TGGTTTTTGGCTGAACTTTTGAACTTTTCAAAATTTTACGAGTTCT
450 GTAAGAATTGTTTCTCTCGTGGTTCTTGCCCGAA-TTTCGAACTTGTCAAAATTTTACGAGTTCT
* *
5860 TTTATAACTTCGGTTCCTTAAAGTATCCAAGACGATCCATTCCACCCAA-CAATTTTTCGAACAT
514 TTTATAACTTCGGTTCCATAAAGTATCCAAGACGATCCATTCC-CCCAAGCAATTTTCCGAACAT
* * * * * *
5924 TCCATGGT-TGGCATATTGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAGCAACTTTTTGT
578 TCCATGCTCGGGCA-ATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGT
* * * *
5988 ATTTGAATAAAAAACTTATTTCCGGGAGAATTGTTTCTCTCTTGGTTTTT-GGTCGTACTTCCAA
642 ATTAGAATAAAAAACTTATTTACGGGAGAATTGTTTCTCTCTTGGTTTTTAGCT-GAACTTCCAA
*
6052 ACTCGTAAAACTTTTATGAGTTCTTTGATAA-CTTAGGTTCCCTAAAGTATTCAAGACGATCCAT
706 ACTCGTAAAACTTTTATGAGTTCTTTGATAACCTT-GGTTCCCTAAAGTATTCAAGACGATCCAA
* * * * *
6116 TCCTTCGAGTAATTTTTCGAACATTCCATGCTCGAAAAATCGCATCAATTGGTCCAAATAGTTTT
770 TCCATCGAGCAATTTTTCGAAAATTCCATGCTCGAAAAATCGCATCAATTGATCCAAATAGTTTG
6181 TCATTTTGTAAACAATTTTTTGTATCT
835 TCATTTTGTAAACAATTTTTTG-ATCT
* * * *
6208 GAATTAAAAACTTACTTA-AGTGAGAATTCTTTCTCTGTTGTCTCTTGGCCGAACTTCCGAACTT
1 --ATTAAAAACTTATTTACA-TGAGAATTATTTCTCTCTTGGCTCTTGGCCGAACTTCCGAACTT
* ** *
6272 TTCAAACTTTTCGAGTTTTTTTATAACTTTTGTTGCTTAAAGTATTC
63 TTCAAACTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTC
6319 TCTTCTTTAG
Statistics
Matches: 824, Mismatches: 126, Indels: 37
0.83 0.13 0.04
Matches are distributed among these distances:
856 20 0.02
857 369 0.45
858 163 0.20
859 178 0.22
862 34 0.04
863 60 0.07
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.41
Consensus pattern (860 bp):
ATTAAAAACTTATTTACATGAGAATTATTTCTCTCTTGGCTCTTGGCCGAACTTCCGAACTTTTC
AAACTTTTCGAGTTCTTTTATAACTTCGGTTCCTTAAAGTATTCAAGATGATACATTCCATTCAG
CAATTTTTCGAACACTCCATACTCGAGATATCACATCATTTGGTCCAAAAAGTTTGTCATTTTAT
AAACAACTTTTATATTTAAATTAAAAACTTATTTAAGGGAGAATTGTTTCTCTCTTGGTTCTTGG
CCAAACTTCCAAACTCGTAAAACTTTTACGAGTTCTTTTAAAACTTAGGTTCCTTAAAGTATTCA
AGAAGATCCATTCCTTCAAGCAAATTTTCAAACATTCAATGCTCGGGAAATCACATCAATTAGTC
CATATAGTTTGTCATTTTGTAATCAAACTTTTGGCATTTGAATTAAAAAACATATTTACGTAAGA
ATTGTTTCTCTCGTGGTTCTTGCCCGAATTTCGAACTTGTCAAAATTTTACGAGTTCTTTTATAA
CTTCGGTTCCATAAAGTATCCAAGACGATCCATTCCCCCAAGCAATTTTCCGAACATTCCATGCT
CGGGCAATCGCATCATTTGGTCCAAATAGTTTGTCATTTTGTAAACAACTTTTGGTATTAGAATA
AAAAACTTATTTACGGGAGAATTGTTTCTCTCTTGGTTTTTAGCTGAACTTCCAAACTCGTAAAA
CTTTTATGAGTTCTTTGATAACCTTGGTTCCCTAAAGTATTCAAGACGATCCAATCCATCGAGCA
ATTTTTCGAAAATTCCATGCTCGAAAAATCGCATCAATTGATCCAAATAGTTTGTCATTTTGTAA
ACAATTTTTTGATCT
Found at i:7618 original size:59 final size:58
Alignment explanation
Indices: 7555--7747 Score: 197
Period size: 61 Copynumber: 3.2 Consensus size: 58
7545 TTTAGGTAAT
* *
7555 AAATTTAATTTAAAAAAGATTAGGTACCAAATTAAGAAAAAATGTCAAGTTCAGGTATC
1 AAATTT-ATTTAAAAAAGATTAGGTACCAAATTAAGAAAAAGTGTCAAGTTCAGGTACC
* * * * *
7614 AAATTGTGTCCTTTAAAAAGTTTAGGTACTAAATTAGGAAAAAGTGTCAAGTTCAGGTACC
1 AAATT-TAT--TTAAAAAAGATTAGGTACCAAATTAAGAAAAAGTGTCAAGTTCAGGTACC
* * * * * * *
7675 AAATTGAGTCAAAAAAAATTTAGATACCAAATCAAGAAAAAGTGCCAAGTTCAGGTACC
1 AAATTTATTTAAAAAAGA-TTAGGTACCAAATTAAGAAAAAGTGTCAAGTTCAGGTACC
7734 AAATGTTATATTAA
1 AAAT-TTAT-TTAA
7748 GCCTTAGTAA
Statistics
Matches: 106, Mismatches: 22, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
58 6 0.06
59 45 0.42
60 3 0.03
61 52 0.49
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.28
Consensus pattern (58 bp):
AAATTTATTTAAAAAAGATTAGGTACCAAATTAAGAAAAAGTGTCAAGTTCAGGTACC
Found at i:7641 original size:61 final size:59
Alignment explanation
Indices: 7566--7737 Score: 218
Period size: 61 Copynumber: 2.9 Consensus size: 59
7556 AATTTAATTT
* * * * *
7566 AAAAAAGATTAGGTACCAAATTAAGAAAAAATGTCAAGTTCAGGTATCAAATTGTGTCCTT
1 AAAAAAGTTTAGGTACCAAATTAAGAAAAAGTGTCAAGTTCAGGTACCAAATTGAGT-C-A
* * *
7627 TAAAAAGTTTAGGTACTAAATTAGGAAAAAGTGTCAAGTTCAGGTACCAAATTGAGTCA
1 AAAAAAGTTTAGGTACCAAATTAAGAAAAAGTGTCAAGTTCAGGTACCAAATTGAGTCA
* * * *
7686 AAAAAAATTTAGATACCAAATCAAGAAAAAGTGCCAAGTTCAGGTACCAAAT
1 AAAAAAGTTTAGGTACCAAATTAAGAAAAAGTGTCAAGTTCAGGTACCAAAT
7738 GTTATATTAA
Statistics
Matches: 96, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
59 45 0.47
60 1 0.01
61 50 0.52
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (59 bp):
AAAAAAGTTTAGGTACCAAATTAAGAAAAAGTGTCAAGTTCAGGTACCAAATTGAGTCA
Found at i:12290 original size:11 final size:12
Alignment explanation
Indices: 12269--12312 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 12
12259 ATGAGTGAAA
12269 AAAAAATTATAT
1 AAAAAATTATAT
12281 AAAAAATATATTTAT
1 AAAAAAT-TA--TAT
12296 AAAAAATTATATT
1 AAAAAATTATA-T
12309 AAAA
1 AAAA
12313 TTAAGTGAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
12 9 0.32
13 7 0.25
14 2 0.07
15 10 0.36
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AAAAAATTATAT
Found at i:12300 original size:16 final size:17
Alignment explanation
Indices: 12275--12308 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
12265 GAAAAAAAAA
12275 TTATATAAAAAATATAT
1 TTATATAAAAAATATAT
*
12292 TTATA-AAAAATTATAT
1 TTATATAAAAAATATAT
12308 T
1 T
12309 AAAATTAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTATATAAAAAATATAT
Found at i:13003 original size:23 final size:23
Alignment explanation
Indices: 12951--13004 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
12941 TCCAGAGTTA
*
12951 AGGGTTTTAAATTTATTAGGGTT
1 AGGGTTTTAAATTTATTAGGATT
**
12974 AATGTTTTAAATTTATTAGGATT
1 AGGGTTTTAAATTTATTAGGATT
12997 AGGGTTTT
1 AGGGTTTT
13005 TGGGGTTTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.28, C:0.00, G:0.22, T:0.50
Consensus pattern (23 bp):
AGGGTTTTAAATTTATTAGGATT
Found at i:23564 original size:15 final size:15
Alignment explanation
Indices: 23532--23564 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
23522 ATAAAGGGTA
23532 AACTAGTAATTTAGT
1 AACTAGTAATTTAGT
23547 AACTGAGTAATTTA-T
1 AACT-AGTAATTTAGT
23562 AAC
1 AAC
23565 AAAACAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.36
Consensus pattern (15 bp):
AACTAGTAATTTAGT
Found at i:31531 original size:21 final size:21
Alignment explanation
Indices: 31507--31546 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
31497 CAAAATGACG
31507 TAGTTTT-ACTTTTTAACTTAA
1 TAGTTTTGAC-TTTTAACTTAA
31528 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
31547 TTGAAAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.25, C:0.10, G:0.07, T:0.57
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTAA
Found at i:31688 original size:14 final size:14
Alignment explanation
Indices: 31671--31728 Score: 61
Period size: 14 Copynumber: 4.4 Consensus size: 14
31661 TAAATTAGAA
31671 AAATTAATAATGTT
1 AAATTAATAATGTT
*
31685 AAATTAAATTAT-TT
1 AAATT-AATAATGTT
*
31699 ---TCAATAATGTT
1 AAATTAATAATGTT
31710 AAATTAATAATGTT
1 AAATTAATAATGTT
31724 AAATT
1 AAATT
31729 TGAAACCATA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
10 5 0.14
11 3 0.09
14 22 0.63
15 5 0.14
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (14 bp):
AAATTAATAATGTT
Found at i:32829 original size:26 final size:25
Alignment explanation
Indices: 32774--32849 Score: 80
Period size: 25 Copynumber: 3.0 Consensus size: 25
32764 ATCATATTTT
*
32774 ATCAAAATTTTACCAGGGTAAAATC
1 ATCAAAATTTTACCAGGGTAAAATA
* * * *
32799 TTCAAATTTTTATCGGGGTTAAAATA
1 ATCAAAATTTTACCAGGG-TAAAATA
* *
32825 ATCAAAATTTTACTAAGGTAAAATA
1 ATCAAAATTTTACCAGGGTAAAATA
32850 GAGATGAAAA
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
25 21 0.54
26 18 0.46
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (25 bp):
ATCAAAATTTTACCAGGGTAAAATA
Found at i:40740 original size:21 final size:21
Alignment explanation
Indices: 40716--40758 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
40706 TAGCATCACA
40716 TTAAAATTTAGATAGGGAATT
1 TTAAAATTTAGATAGGGAATT
** *
40737 TTAATGTTTAGATAGTGAATT
1 TTAAAATTTAGATAGGGAATT
40758 T
1 T
40759 AGTAGACCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.44
Consensus pattern (21 bp):
TTAAAATTTAGATAGGGAATT
Found at i:42028 original size:36 final size:35
Alignment explanation
Indices: 41928--42030 Score: 125
Period size: 35 Copynumber: 2.9 Consensus size: 35
41918 TGGTAACAGG
* *
41928 AATGACCTTTGGGTCAACAGGGAGAAAAATGAGCAT
1 AATGACC-TTGGGTCAACAGGGAGAAAAACGACCAT
* *
41964 AATGACCTTGGGTCAATAGGGAGTAAAACGACCAT
1 AATGACCTTGGGTCAACAGGGAGAAAAACGACCAT
* * *
41999 CATGACCTTGGGGTCAACAAGTAGAAAAACGA
1 AATGACCTT-GGGTCAACAGGGAGAAAAACGA
42031 ATAACGATGA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
35 32 0.56
36 25 0.44
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.18
Consensus pattern (35 bp):
AATGACCTTGGGTCAACAGGGAGAAAAACGACCAT
Found at i:42730 original size:116 final size:116
Alignment explanation
Indices: 42521--42736 Score: 344
Period size: 116 Copynumber: 1.9 Consensus size: 116
42511 TTCGGTAAAT
* * *
42521 GTACAGGGTAGGAGAGAAGTTATTCTTTGACTTGAGTTGTTTCGATAGTTGTATAATAGGTATCA
1 GTACAAGGTAGGAGAGAAGTCATTCTCTGACTTGAGTTGTTTCGATAGTTGTATAATAGGTATCA
42586 GTAGTTCGATACATTGAGGTATCAGTAGTTTAAATGTTTTTATCGATAGAA
66 GTAGTTCGATACATTGAGGTATCAGTAGTTTAAATGTTTTTATCGATAGAA
* * *
42637 GTACAAGGTAGGAGAGAAGTCGTTCTCTGACTTGAGTTGTTTTGATAGTTGTATAATAGGTATCG
1 GTACAAGGTAGGAGAGAAGTCATTCTCTGACTTGAGTTGTTTCGATAGTTGTATAATAGGTATCA
* *
42702 GTAGTTCTG-TACATTGAGTTATCGGTAGTTTAAAT
66 GTAGTTC-GATACATTGAGGTATCAGTAGTTTAAAT
42737 ACTTGTATCG
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
116 90 0.99
117 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (116 bp):
GTACAAGGTAGGAGAGAAGTCATTCTCTGACTTGAGTTGTTTCGATAGTTGTATAATAGGTATCA
GTAGTTCGATACATTGAGGTATCAGTAGTTTAAATGTTTTTATCGATAGAA
Found at i:45806 original size:21 final size:20
Alignment explanation
Indices: 45773--45811 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
45763 ACGCCTACTA
45773 AAAGATCACTTGGATTTAAG
1 AAAGATCACTTGGATTTAAG
*
45793 AAAGAGTCGCTTGGATTTA
1 AAAGA-TCACTTGGATTTA
45812 TCCATGATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (20 bp):
AAAGATCACTTGGATTTAAG
Found at i:45936 original size:15 final size:17
Alignment explanation
Indices: 45916--45949 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
45906 AGGATTTGGT
45916 TTGTTTATT-T-TATTA
1 TTGTTTATTCTATATTA
45931 TTGTTTATTCTATATTA
1 TTGTTTATTCTATATTA
45948 TT
1 TT
45950 AATATAGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 1 0.06
17 7 0.41
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.71
Consensus pattern (17 bp):
TTGTTTATTCTATATTA
Found at i:45995 original size:12 final size:11
Alignment explanation
Indices: 45951--46001 Score: 70
Period size: 12 Copynumber: 4.6 Consensus size: 11
45941 TATATTATTA
45951 ATATAGAATAAT
1 ATATA-AATAAT
45963 ATATAAATAAT
1 ATATAAATAAT
45974 AT-T-AATAAT
1 ATATAAATAAT
45983 ATATAAATAAAT
1 ATATAAAT-AAT
45995 ATATAAA
1 ATATAAA
46002 GAAAATATGC
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
9 8 0.22
10 2 0.06
11 11 0.31
12 15 0.42
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (11 bp):
ATATAAATAAT
Found at i:46445 original size:17 final size:17
Alignment explanation
Indices: 46423--46456 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
46413 CTAACTCAAA
46423 ACCAAATCCTGAAAGAT
1 ACCAAATCCTGAAAGAT
46440 ACCAAATCCTGAAAGAT
1 ACCAAATCCTGAAAGAT
46457 TTCGTTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.24, G:0.12, T:0.18
Consensus pattern (17 bp):
ACCAAATCCTGAAAGAT
Found at i:46480 original size:13 final size:13
Alignment explanation
Indices: 46464--46488 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46454 GATTTCGTTG
46464 AAATCAATATAGT
1 AAATCAATATAGT
46477 AAATCAATATAG
1 AAATCAATATAG
46489 ATTTATAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (13 bp):
AAATCAATATAGT
Found at i:55700 original size:47 final size:47
Alignment explanation
Indices: 55638--55731 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 47
55628 TCTACAAATT
* * *
55638 TAGTCGTCTTCCGTTAATTTATCATTGTATACATTCATTTTAGTTAC
1 TAGTAGTCTTCCGTTAATTTATCACTATATACATTCATTTTAGTTAC
*
55685 TAGTAGTCTTTCGTTAATTTATCACTATATACATTCATTTTAGTTAC
1 TAGTAGTCTTCCGTTAATTTATCACTATATACATTCATTTTAGTTAC
55732 CCAACTTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.26, C:0.16, G:0.10, T:0.49
Consensus pattern (47 bp):
TAGTAGTCTTCCGTTAATTTATCACTATATACATTCATTTTAGTTAC
Found at i:66528 original size:20 final size:20
Alignment explanation
Indices: 66503--66540 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
66493 ACACAAGTAT
66503 ATTGAATTTCTGAATGCTAA
1 ATTGAATTTCTGAATGCTAA
66523 ATTGAATTTCTGAATGCT
1 ATTGAATTTCTGAATGCT
66541 TTTCATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.42
Consensus pattern (20 bp):
ATTGAATTTCTGAATGCTAA
Found at i:67325 original size:52 final size:51
Alignment explanation
Indices: 67265--67368 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 51
67255 TTTAATGTAA
*
67265 TTGATTTTTTTTTCCCTATTACACAAACTTCAGATATTTGAATCATTTCCT
1 TTGAATTTTTTTTCCCTATTACACAAACTTCAGATATTTGAATCATTTCCT
67316 TTGAATTTTTTTTCCCTATTACACAAACTTCAGATATTTGAATCATTTCCT
1 TTGAATTTTTTTTCCCTATTACACAAACTTCAGATATTTGAATCATTTCCT
67367 TT
1 TT
67369 ATTAGCACCA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.49
Consensus pattern (51 bp):
TTGAATTTTTTTTCCCTATTACACAAACTTCAGATATTTGAATCATTTCCT
Found at i:68133 original size:17 final size:16
Alignment explanation
Indices: 68113--68146 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
68103 TTTTAGTAAA
68113 TATATTTATTACATAAT
1 TATATTTATTACA-AAT
*
68130 TATATTTGTTACAAAT
1 TATATTTATTACAAAT
68146 T
1 T
68147 GTATATAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (16 bp):
TATATTTATTACAAAT
Found at i:69204 original size:8 final size:8
Alignment explanation
Indices: 69164--69256 Score: 62
Period size: 8 Copynumber: 10.8 Consensus size: 8
69154 AGTAAATGTG
*
69164 ATTTAAAA
1 ATTTTAAA
69172 ATTATTAAA
1 ATT-TTAAA
69181 ATATTTAATA
1 AT-TTTAA-A
*
69191 TTTTTTAAA
1 -ATTTTAAA
69200 ATTTTAGTAA
1 ATTTTA--AA
* *
69210 ATTTTTTAT
1 A-TTTTAAA
69219 ATTTT-AA
1 ATTTTAAA
*
69226 TTTTTAAA
1 ATTTTAAA
69234 ATTTTTAAA
1 A-TTTTAAA
69243 ATTTTAAA
1 ATTTTAAA
69251 ATTTTA
1 ATTTTA
69257 TATTATTTTA
Statistics
Matches: 68, Mismatches: 8, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
7 5 0.07
8 27 0.40
9 21 0.31
10 10 0.15
11 5 0.07
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (8 bp):
ATTTTAAA
Found at i:69204 original size:9 final size:9
Alignment explanation
Indices: 69169--69255 Score: 67
Period size: 9 Copynumber: 9.9 Consensus size: 9
69159 ATGTGATTTA
*
69169 AAAATTATT
1 AAAATTTTT
*
69178 AAAATATTT
1 AAAATTTTT
*
69187 AATATTTTTT
1 AA-AATTTTT
69197 AAAA-TTTT
1 AAAATTTTT
69205 AGTAAATTTTT
1 A--AAATTTTT
* *
69216 TATA-TTTT
1 AAAATTTTT
69224 --AATTTTT
1 AAAATTTTT
69231 AAAATTTTT
1 AAAATTTTT
69240 AAAA-TTTT
1 AAAATTTTT
69248 AAAATTTT
1 AAAATTTT
69256 ATATTATTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
6 1 0.02
7 4 0.06
8 17 0.27
9 26 0.42
10 10 0.16
11 4 0.06
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (9 bp):
AAAATTTTT
Found at i:69273 original size:42 final size:44
Alignment explanation
Indices: 69192--69284 Score: 138
Period size: 43 Copynumber: 2.1 Consensus size: 44
69182 TATTTAATAT
*
69192 TTTTTAAAATTTTAGTAAATTTTTTATATTTTAATTTTT-AA-AA
1 TTTTTAAAATTTTAG-AAATTTTATATATTTTAATTTTTAAAGAA
69235 TTTTTAAAATTTTA-AAATTTTATATTATTTTAATTTTTAAAGAA
1 TTTTTAAAATTTTAGAAATTTTATA-TATTTTAATTTTTAAAGAA
69279 TTTTTA
1 TTTTTA
69285 GTTTCTTTTC
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
41 9 0.20
42 13 0.28
43 16 0.35
44 8 0.17
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (44 bp):
TTTTTAAAATTTTAGAAATTTTATATATTTTAATTTTTAAAGAA
Found at i:70134 original size:18 final size:19
Alignment explanation
Indices: 70111--70146 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
70101 AATATGAGGA
70111 AAATATT-TTTTATAAAAG
1 AAATATTCTTTTATAAAAG
70129 AAATATTCTTTTATAAAA
1 AAATATTCTTTTATAAAA
70147 TTTATGGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.44
Consensus pattern (19 bp):
AAATATTCTTTTATAAAAG
Found at i:70179 original size:38 final size:39
Alignment explanation
Indices: 70130--70219 Score: 137
Period size: 38 Copynumber: 2.3 Consensus size: 39
70120 TTATAAAAGA
70130 AATATTCTTTTATAAAATTTATGGTTTTAAATTAATTTCT
1 AATATT-TTTTATAAAATTTATGGTTTTAAATTAATTTCT
* *
70170 AAT-TTTTTTATAAATTTTATGGTTTTAAATTAATTTTT
1 AATATTTTTTATAAAATTTATGGTTTTAAATTAATTTCT
70208 AATAATTTTTTA
1 AAT-ATTTTTTA
70220 AATTTAATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
38 34 0.74
39 2 0.04
40 10 0.22
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.59
Consensus pattern (39 bp):
AATATTTTTTATAAAATTTATGGTTTTAAATTAATTTCT
Found at i:70204 original size:19 final size:19
Alignment explanation
Indices: 70147--70206 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
70137 TTTTATAAAA
70147 TTTATGGTTTTAAATTAAT
1 TTTATGGTTTTAAATTAAT
** *
70166 TTCTAAT--TTTTTTATAAAT
1 TT-T-ATGGTTTTAAATTAAT
70185 TTTATGGTTTTAAATTAAT
1 TTTATGGTTTTAAATTAAT
70204 TTT
1 TTT
70207 TAATAATTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
17 2 0.06
18 1 0.03
19 25 0.81
20 1 0.03
21 2 0.06
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.62
Consensus pattern (19 bp):
TTTATGGTTTTAAATTAAT
Found at i:70219 original size:23 final size:25
Alignment explanation
Indices: 70192--70244 Score: 74
Period size: 26 Copynumber: 2.2 Consensus size: 25
70182 AATTTTATGG
70192 TTTTAAA-TTAAT-TTTTAATAATT
1 TTTTAAATTTAATATTTTAATAATT
*
70215 TTTTAAATTTAATAATTTTAATGATT
1 TTTTAAATTTAAT-ATTTTAATAATT
70241 TTTT
1 TTTT
70245 GTAATTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 7 0.27
24 5 0.19
26 14 0.54
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (25 bp):
TTTTAAATTTAATATTTTAATAATT
Found at i:70234 original size:38 final size:38
Alignment explanation
Indices: 70137--70235 Score: 103
Period size: 38 Copynumber: 2.6 Consensus size: 38
70127 AGAAATATTC
** *
70137 TTTTATAAAATTT-ATGGTTTTAAATTAATTTCTAATTT
1 TTTTAT-AAATTTAATAATTTTAAATTAATTTCTAATAT
* ** *
70175 TTTTATAAATTTTATGGTTTTAAATTAATTTTTAATAAT
1 TTTTATAAATTTAATAATTTTAAATTAATTTCTAAT-AT
70214 TTTT-TAAATTTAATAATTTTAA
1 TTTTATAAATTTAATAATTTTAA
70236 TGATTTTTTG
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
37 6 0.11
38 43 0.80
39 5 0.09
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (38 bp):
TTTTATAAATTTAATAATTTTAAATTAATTTCTAATAT
Found at i:75925 original size:18 final size:18
Alignment explanation
Indices: 75884--75924 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
75874 TATATTTCTC
* *
75884 TTTTTTCTTTTTTCTTTA
1 TTTTTTCTTATTTATTTA
75902 TTTTTTC-TATTTATTTA
1 TTTTTTCTTATTTATTTA
75919 TTTTTT
1 TTTTTT
75925 TAGACGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTCTTATTTATTTA
Found at i:77579 original size:45 final size:45
Alignment explanation
Indices: 77515--77609 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
77505 TAGTGGTGGT
*
77515 GGAGGTGATGGCAAGTCAAAATCGTCGTCATTAACATCGATGACG
1 GGAGGTGATGGCAAGTCAAAATCGTCATCATTAACATCGATGACG
**
77560 GGAGGTGATGGTGAGTCAAAATCGTCATCATTAACATCGATGACG
1 GGAGGTGATGGCAAGTCAAAATCGTCATCATTAACATCGATGACG
*
77605 AGAGG
1 GGAGG
77610 CTCTGTAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.32, C:0.16, G:0.31, T:0.22
Consensus pattern (45 bp):
GGAGGTGATGGCAAGTCAAAATCGTCATCATTAACATCGATGACG
Found at i:84290 original size:5 final size:5
Alignment explanation
Indices: 84273--84315 Score: 54
Period size: 5 Copynumber: 9.0 Consensus size: 5
84263 TGTTAAACTA
* *
84273 AAAAT -AAAC AAAAT AAAAT AAAAT -AAAT AAAGT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
84316 CTTGCTGCAG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
4 7 0.22
5 25 0.78
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:84290 original size:14 final size:14
Alignment explanation
Indices: 84273--84313 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
84263 TGTTAAACTA
84273 AAAATAAACA-AAAT
1 AAAATAAA-ATAAAT
84287 AAAATAAAATAAAT
1 AAAATAAAATAAAT
*
84301 AAAGTAAAATAAA
1 AAAATAAAATAAA
84314 ATCTTGCTGC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 1 0.04
14 24 0.96
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (14 bp):
AAAATAAAATAAAT
Found at i:84297 original size:19 final size:19
Alignment explanation
Indices: 84273--84315 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
84263 TGTTAAACTA
84273 AAAATAAACAAAATAAAAT
1 AAAATAAACAAAATAAAAT
* *
84292 AAAATAAATAAAGTAAAAT
1 AAAATAAACAAAATAAAAT
84311 AAAAT
1 AAAAT
84316 CTTGCTGCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (19 bp):
AAAATAAACAAAATAAAAT
Found at i:86057 original size:34 final size:34
Alignment explanation
Indices: 85984--86057 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 34
85974 CATGAGTCTC
* *
85984 GGGTTCGAATAACATATAGGCTTGCATATACCTA
1 GGGTTCGAATAACACATAAGCTTGCATATACCTA
* * * * *
86018 TGGTTCGCATGACACATAAGCTTGCATATTCTTA
1 GGGTTCGAATAACACATAAGCTTGCATATACCTA
86052 GGGTTC
1 GGGTTC
86058 TCATCTTAAT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (34 bp):
GGGTTCGAATAACACATAAGCTTGCATATACCTA
Found at i:86255 original size:18 final size:18
Alignment explanation
Indices: 86232--86285 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
86222 GCTCGTCTAT
86232 AGGGTTTCACATGCAAGG
1 AGGGTTTCACATGCAAGG
* *
86250 AGGGTTCACACATG-TAGG
1 AGGGTT-TCACATGCAAGG
86268 -GGGTTTGCACATGCAAGG
1 AGGGTTT-CACATGCAAGG
86286 GGTTTGCGCA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
17 11 0.38
18 12 0.41
19 6 0.21
ACGTcount: A:0.26, C:0.17, G:0.35, T:0.22
Consensus pattern (18 bp):
AGGGTTTCACATGCAAGG
Found at i:86278 original size:17 final size:17
Alignment explanation
Indices: 86233--86292 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
86223 CTCGTCTATA
86233 GGGTTT-CACATGCAAGG
1 GGGTTTGCACATGCAA-G
** * *
86250 AGGGTTCACACATGTAGG
1 -GGGTTTGCACATGCAAG
86268 GGGTTTGCACATGCAAG
1 GGGTTTGCACATGCAAG
86285 GGGTTTGC
1 GGGTTTGC
86293 GCACAAGGCA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
17 21 0.62
18 6 0.18
19 7 0.21
ACGTcount: A:0.22, C:0.17, G:0.37, T:0.25
Consensus pattern (17 bp):
GGGTTTGCACATGCAAG
Found at i:93406 original size:87 final size:89
Alignment explanation
Indices: 93304--93470 Score: 248
Period size: 87 Copynumber: 1.9 Consensus size: 89
93294 TGGAATATTG
* *
93304 TTTCCTATTATTGAAAGTATATGACCGATTGAGAGCAACATTGTTT-CCTAATATTGAAAGTATG
1 TTTCCTATTATTGAAAGTATATGACCGATTAAGAGCAACATTGTTTCCCTAATATTAAAAGTATG
93368 T-GATTGATTAAGAGGAGCACTGT
66 TGGATTGATTAAGAGGAGCACTGT
* ** * *
93391 TTTCCTATTATTGAAAGTATGTGATTGATTAAGAGGAACATTGTTTCCCTATTATTAAAAGTATG
1 TTTCCTATTATTGAAAGTATATGACCGATTAAGAGCAACATTGTTTCCCTAATATTAAAAGTATG
*
93456 TGGATTGATTGAGAG
66 TGGATTGATTAAGAG
93471 CATGATGAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
87 41 0.59
88 17 0.24
89 12 0.17
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.38
Consensus pattern (89 bp):
TTTCCTATTATTGAAAGTATATGACCGATTAAGAGCAACATTGTTTCCCTAATATTAAAAGTATG
TGGATTGATTAAGAGGAGCACTGT
Found at i:93408 original size:44 final size:44
Alignment explanation
Indices: 93295--93470 Score: 221
Period size: 44 Copynumber: 4.0 Consensus size: 44
93285 TTTGAAAGTT
* * ** *
93295 GGAATATTG-TTTCCTATTATTGAAAGTATATGACCGATTGAGA
1 GGAACATTGTTTTCCTATTATTGAAAGTATGTGATTGATTAAGA
* *
93338 GCAACATTG-TTTCCTAATATTGAAAGTATGTGATTGATTAAGA
1 GGAACATTGTTTTCCTATTATTGAAAGTATGTGATTGATTAAGA
* *
93381 GGAGCACTGTTTTCCTATTATTGAAAGTATGTGATTGATTAAGA
1 GGAACATTGTTTTCCTATTATTGAAAGTATGTGATTGATTAAGA
* * *
93425 GGAACATTGTTTCCCTATTATTAAAAGTATGTGGATTGATTGAGA
1 GGAACATTGTTTTCCTATTATTGAAAGTATGT-GATTGATTAAGA
93470 G
1 G
93471 CATGATGAAT
Statistics
Matches: 115, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 42 0.37
44 61 0.53
45 12 0.10
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.38
Consensus pattern (44 bp):
GGAACATTGTTTTCCTATTATTGAAAGTATGTGATTGATTAAGA
Found at i:94105 original size:3 final size:3
Alignment explanation
Indices: 94097--94218 Score: 217
Period size: 3 Copynumber: 40.7 Consensus size: 3
94087 TCTTTTTTAT
94097 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
94145 TTA TTA TTA TTA TTA TTA TTA TTG TTA TTG TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
94193 TTA TTA TTA TTA TTA TTA TTG TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
94219 TGATTTTGGA
Statistics
Matches: 113, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 113 1.00
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:96494 original size:35 final size:36
Alignment explanation
Indices: 96455--96542 Score: 97
Period size: 36 Copynumber: 2.5 Consensus size: 36
96445 TTACTCCTTG
* * * * *
96455 TTGACTCAAAGGTCATGATGCT-TTTTTACTCTCTA
1 TTGACCCAAAGGTCATGAAGCTCATTTCACTCCCTA
* * *
96490 TTGACCCAAAGGGCATTAAGCTCATTTCACTCCCTT
1 TTGACCCAAAGGTCATGAAGCTCATTTCACTCCCTA
96526 TTGACCCAAAGGTCATG
1 TTGACCCAAAGGTCATG
96543 CATGTTTCCA
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
35 18 0.43
36 24 0.57
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (36 bp):
TTGACCCAAAGGTCATGAAGCTCATTTCACTCCCTA
Found at i:104141 original size:20 final size:18
Alignment explanation
Indices: 104094--104192 Score: 62
Period size: 20 Copynumber: 5.3 Consensus size: 18
104084 AAAGATAAAC
104094 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
104111 ATTAAGA-TAATCATTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
** *
104131 ATTAAATTAATAAAATACT
1 ATTAAATTAAT-ATTTAAT
*
104150 ATTAAAATAAGTA-TTAA-
1 ATTAAATTAA-TATTTAAT
*
104167 ATTAAATTTAATATTAAACT
1 ATTAAA-TTAATATTTAA-T
104187 ATTAAA
1 ATTAAA
104193 ATATTATTAT
Statistics
Matches: 63, Mismatches: 9, Indels: 17
0.71 0.10 0.19
Matches are distributed among these distances:
17 16 0.25
18 9 0.14
19 15 0.24
20 23 0.37
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:109376 original size:27 final size:27
Alignment explanation
Indices: 109346--109412 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
109336 CCGAGAAGAG
*
109346 AGTTTAACTTATTTGAGCCCAGAACAA
1 AGTTTAACTCATTTGAGCCCAGAACAA
** * *
109373 AGTTTAGGTCATTTGAGCCGAGAATAA
1 AGTTTAACTCATTTGAGCCCAGAACAA
*
109400 AGTTTAGCTCATT
1 AGTTTAACTCATT
109413 CGAACCCAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (27 bp):
AGTTTAACTCATTTGAGCCCAGAACAA
Found at i:109531 original size:28 final size:27
Alignment explanation
Indices: 109499--109569 Score: 115
Period size: 28 Copynumber: 2.5 Consensus size: 27
109489 TTCTCTTGCA
109499 AGCCAAAGTACAGAGTTACGCTCTTACG
1 AGCCAAA-TACAGAGTTACGCTCTTACG
109527 AGCCAAAATACAGAGTTACGCTCTTACG
1 AGCC-AAATACAGAGTTACGCTCTTACG
109555 AGCCAGAATACAGAG
1 AGCCA-AATACAGAG
109570 CATTTGCTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
27 1 0.02
28 37 0.90
29 3 0.07
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.18
Consensus pattern (27 bp):
AGCCAAATACAGAGTTACGCTCTTACG
Found at i:110642 original size:18 final size:18
Alignment explanation
Indices: 110604--110642 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
110594 ATTGCTTCTC
* *
110604 AAAAGCACTTTTGGGACA
1 AAAAGCACATTTGAGACA
*
110622 AAAAGCACATTTGAGATA
1 AAAAGCACATTTGAGACA
110640 AAA
1 AAA
110643 GTATTACTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.21
Consensus pattern (18 bp):
AAAAGCACATTTGAGACA
Found at i:116201 original size:59 final size:60
Alignment explanation
Indices: 116124--116240 Score: 164
Period size: 62 Copynumber: 1.9 Consensus size: 60
116114 ATCATTTTAA
* * * *
116124 TATTAAATTAACATAATATTTATCT-AGATAAATATTATATTAAATTTAATATTAATTCT
1 TATTAAAATAACAAAATATTTATCTAAGATAAACATTAAATTAAATTTAATATTAATTCT
*
116183 TATTAAAATAATAAAATATTTATCTACAAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAAATAACAAAATATTTATCT--AAGATAAACATTAAATTAAATTTAATATTAA
116241 GATAATCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 22 0.44
62 28 0.56
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (60 bp):
TATTAAAATAACAAAATATTTATCTAAGATAAACATTAAATTAAATTTAATATTAATTCT
Found at i:116304 original size:37 final size:36
Alignment explanation
Indices: 116257--116326 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 36
116247 CACTTTACCA
*
116257 TTAAATTAATA-AAATACTATTAAAATAAGTATTAAAT
1 TTAAATTAATATAAAT-CTATTAAAACAA-TATTAAAT
* *
116294 TTAATTTAATATTAATCTATTAAAACAATATTA
1 TTAAATTAATATAAATCTATTAAAACAATATTA
116327 TTTTTGAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
36 5 0.17
37 21 0.72
38 3 0.10
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.41
Consensus pattern (36 bp):
TTAAATTAATATAAATCTATTAAAACAATATTAAAT
Found at i:122114 original size:23 final size:23
Alignment explanation
Indices: 122056--122116 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
122046 TTATCTGCAT
* *
122056 TTGTGGCACGTTTTTCTTCTATC
1 TTGTGGCACGCTTTTCCTCTATC
* *
122079 TTATGACACGCTTTTCCTCTATC
1 TTGTGGCACGCTTTTCCTCTATC
*
122102 TTGTGGCATGCTTTT
1 TTGTGGCACGCTTTT
122117 GACTTATGGC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.11, C:0.23, G:0.16, T:0.49
Consensus pattern (23 bp):
TTGTGGCACGCTTTTCCTCTATC
Found at i:128828 original size:5 final size:5
Alignment explanation
Indices: 128785--128815 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
128775 AAATAATTAT
*
128785 TTAAA TTAAA TTAAA TTAAG TTAAA TTAAA T
1 TTAAA TTAAA TTAAA TTAAA TTAAA TTAAA T
128816 GGAAAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (5 bp):
TTAAA
Found at i:129058 original size:40 final size:39
Alignment explanation
Indices: 129021--129095 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 39
129011 GAAATATAAC
*
129021 TTTTTT-AATTTCTATTTATCTAATTAAACATTTATATA
1 TTTTTTAAATTTATATTTATCTAATTAAACATTTATATA
*
129059 TTTTTTAAAATTTATATTTATCTAATTAAATATTTAT
1 TTTTTT-AAATTTATATTTATCTAATTAAACATTTAT
129096 TTTAAACATA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
38 6 0.18
40 27 0.82
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (39 bp):
TTTTTTAAATTTATATTTATCTAATTAAACATTTATATA
Found at i:129096 original size:20 final size:19
Alignment explanation
Indices: 129033--129097 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
129023 TTTTAATTTC
129033 TATTTATCTAATTAAACATT
1 TATTTATCTAATTAAA-ATT
* **
129053 TATATAT-TTTTTAAAATTT
1 TATTTATCTAATTAAAA-TT
129072 ATATTTATCTAATTAAATATT
1 -TATTTATCTAATTAAA-ATT
129093 TATTT
1 TATTT
129098 TAAACATAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 8 0.23
20 17 0.49
21 8 0.23
22 1 0.03
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTTATCTAATTAAAATT
Found at i:139294 original size:50 final size:50
Alignment explanation
Indices: 139231--139346 Score: 153
Period size: 50 Copynumber: 2.3 Consensus size: 50
139221 TAAATATAAA
* *
139231 ATATTTATATAAAATACAATATCTGAACAAAAC-AATATAAATAAATATTT
1 ATATTTATATAAAATACAAGATCTAAACAAAACAAAT-TAAATAAATATTT
* * * *
139281 ATGTTTATGTAAAACACCAGATCTAAACAAAACAAATTAAATAAATATTT
1 ATATTTATATAAAATACAAGATCTAAACAAAACAAATTAAATAAATATTT
*
139331 ATATTTATTTAAAATA
1 ATATTTATATAAAATA
139347 TCATACCTGA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 53 0.95
51 3 0.05
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.34
Consensus pattern (50 bp):
ATATTTATATAAAATACAAGATCTAAACAAAACAAATTAAATAAATATTT
Found at i:144145 original size:17 final size:18
Alignment explanation
Indices: 144125--144162 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
144115 ATTAATAACA
144125 TTTAA-AATTAAATATTT
1 TTTAATAATTAAATATTT
* *
144142 TTTAATTATTAAATGTTT
1 TTTAATAATTAAATATTT
144160 TTT
1 TTT
144163 TATTACAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
TTTAATAATTAAATATTT
Found at i:144154 original size:18 final size:18
Alignment explanation
Indices: 144131--144167 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
144121 AACATTTAAA
144131 ATTAAATATTTTTTAATT
1 ATTAAATATTTTTTAATT
* *
144149 ATTAAATGTTTTTTTATT
1 ATTAAATATTTTTTAATT
144167 A
1 A
144168 CAAAAGATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
ATTAAATATTTTTTAATT
Found at i:147721 original size:50 final size:50
Alignment explanation
Indices: 147658--147773 Score: 153
Period size: 50 Copynumber: 2.3 Consensus size: 50
147648 TAAATATAAA
* *
147658 ATATTTATATAAAATACAATATCTGAACAAAAC-AATATAAATAAATATTT
1 ATATTTATATAAAATACAAGATCTAAACAAAACAAAT-TAAATAAATATTT
* * * *
147708 ATGTTTATGTAAAACACCAGATCTAAACAAAACAAATTAAATAAATATTT
1 ATATTTATATAAAATACAAGATCTAAACAAAACAAATTAAATAAATATTT
*
147758 ATATTTATTTAAAATA
1 ATATTTATATAAAATA
147774 TCATACCTGA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 53 0.95
51 3 0.05
ACGTcount: A:0.53, C:0.09, G:0.03, T:0.34
Consensus pattern (50 bp):
ATATTTATATAAAATACAAGATCTAAACAAAACAAATTAAATAAATATTT
Found at i:152572 original size:17 final size:18
Alignment explanation
Indices: 152552--152589 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
152542 ATTAATAACA
152552 TTTAA-AATTAAATATTT
1 TTTAATAATTAAATATTT
* *
152569 TTTAATTATTAAATGTTT
1 TTTAATAATTAAATATTT
152587 TTT
1 TTT
152590 TATTACAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (18 bp):
TTTAATAATTAAATATTT
Found at i:152581 original size:18 final size:18
Alignment explanation
Indices: 152558--152594 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
152548 AACATTTAAA
152558 ATTAAATATTTTTTAATT
1 ATTAAATATTTTTTAATT
* *
152576 ATTAAATGTTTTTTTATT
1 ATTAAATATTTTTTAATT
152594 A
1 A
152595 CAAAAGATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
ATTAAATATTTTTTAATT
Found at i:153908 original size:28 final size:28
Alignment explanation
Indices: 153857--153923 Score: 100
Period size: 28 Copynumber: 2.4 Consensus size: 28
153847 TGTTCTAGCA
*
153857 CCTAAACTTTTTAAAAATTTCATTTTGAC
1 CCTAAAC-TTTTAAAAATTACATTTTGAC
153886 CCTTAAACTTTT-AAAATTACATTTTGAC
1 CC-TAAACTTTTAAAAATTACATTTTGAC
153914 CCTAAACTTT
1 CCTAAACTTT
153924 CAAACTTTCC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
27 8 0.22
28 17 0.47
29 6 0.17
30 5 0.14
ACGTcount: A:0.34, C:0.19, G:0.03, T:0.43
Consensus pattern (28 bp):
CCTAAACTTTTAAAAATTACATTTTGAC
Found at i:159094 original size:17 final size:18
Alignment explanation
Indices: 159072--159109 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
159062 TAGAACGAAA
*
159072 AGAAGAAAAA-AGAAAAG
1 AGAAGAAAAAGAAAAAAG
159089 AGAAGAAAAAGAAAAAAG
1 AGAAGAAAAAGAAAAAAG
159107 AGA
1 AGA
159110 GGTTGAGGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (18 bp):
AGAAGAAAAAGAAAAAAG
Found at i:159570 original size:112 final size:112
Alignment explanation
Indices: 159415--159630 Score: 324
Period size: 112 Copynumber: 1.9 Consensus size: 112
159405 AATGTTTGTC
* *
159415 ATTTTTAATCTTTTCATTCATGCGAGCTTTGCCTCCAACAAAATTCAATTTTATCCACCTTACAA
1 ATTTTTAATCTTTTCATACATGCGAGCTTTACCTCCAACAAAATTCAATTTTATCCACCTTACAA
*
159480 CCTTATTCAAGCACGTTTGCATTGAAATAACAGTTAGTGAACTAATG
66 CCCTATTCAAGCACGTTTGCATTGAAATAACAGTTAGTGAACTAATG
** * *
159527 ATTTTTAATCTTTTCATACATGCGAGCTTTACCTTGAATAAAATTTAATTTTATCCACCTTACAA
1 ATTTTTAATCTTTTCATACATGCGAGCTTTACCTCCAACAAAATTCAATTTTATCCACCTTACAA
* ** * *
159592 CCCTGTTCAAGCATTTTTGCATTGAAATGACGGTTAGTG
66 CCCTATTCAAGCACGTTTGCATTGAAATAACAGTTAGTG
159631 CTCTAACGAT
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
112 92 1.00
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (112 bp):
ATTTTTAATCTTTTCATACATGCGAGCTTTACCTCCAACAAAATTCAATTTTATCCACCTTACAA
CCCTATTCAAGCACGTTTGCATTGAAATAACAGTTAGTGAACTAATG
Found at i:160237 original size:90 final size:90
Alignment explanation
Indices: 160075--160251 Score: 259
Period size: 90 Copynumber: 2.0 Consensus size: 90
160065 TAAAGATATG
* * * **
160075 GAAGGAAAGGTTGAAGCCGCAACGGTGAACCTTGTACCTTAGACATGAGATGGGAAAGATTGAAG
1 GAAGGAAAGGTTGAAGCCGCAACAGTGAACCTTATACCTTAGAAATGAGAAAGGAAAGATTGAAG
160140 CCACAACGGCAAATCTTGTACCATA
66 CCACAACGGCAAATCTTGTACCATA
*
160165 GAAGGAAAGGTTGAAGTCGCAACAGTGAACCTTATACCTTAGAAATGCA-AAAGGAAAGATT-AA
1 GAAGGAAAGGTTGAAGCCGCAACAGTGAACCTTATACCTTAGAAATG-AGAAAGGAAAGATTGAA
*
160228 GGCCGCAACGGCAAATCTTGTACC
65 -GCCACAACGGCAAATCTTGTACC
160252 CTAAAGATGT
Statistics
Matches: 78, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
89 2 0.03
90 75 0.96
91 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (90 bp):
GAAGGAAAGGTTGAAGCCGCAACAGTGAACCTTATACCTTAGAAATGAGAAAGGAAAGATTGAAG
CCACAACGGCAAATCTTGTACCATA
Found at i:160395 original size:49 final size:49
Alignment explanation
Indices: 160168--160407 Score: 180
Period size: 49 Copynumber: 4.9 Consensus size: 49
160158 TACCATAGAA
* ** * * ** *
160168 GGAAAGGTTGAAGTCGCAACAGTGAACCTTATACCTTAGAA-ATGCAAAA
1 GGAAAGGTTGAGGTCGCAATGGTGAATCTTATACCCTA-AAGATGTGAAG
* * * * ** * *
160217 GGAAAGATTAAGGCCGCAACGGCAAATCTTGTACCCTAAAGATGTGAAA
1 GGAAAGGTTGAGGTCGCAATGGTGAATCTTATACCCTAAAGATGTGAAG
* * *
160266 GGAAAGGTTGAGGTTGCAATGATGAATCTTGA-ACCCTAAAGACGTGAAG
1 GGAAAGGTTGAGGTCGCAATGGTGAATCTT-ATACCCTAAAGATGTGAAG
* * ** * *
160315 GGAAAGGTCGAGG-CTGCAACGGCAAACCTTATACCCTAGAGATGTGAAG
1 GGAAAGGTTGAGGTC-GCAATGGTGAATCTTATACCCTAAAGATGTGAAG
* * *
160364 GGAAAGATTGAGGTCGCGATGGTGAATCTTATACCATAAAGATG
1 GGAAAGGTTGAGGTCGCAATGGTGAATCTTATACCCTAAAGATG
160408 AAGCAGATTG
Statistics
Matches: 145, Mismatches: 41, Indels: 10
0.74 0.21 0.05
Matches are distributed among these distances:
48 3 0.02
49 141 0.97
50 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (49 bp):
GGAAAGGTTGAGGTCGCAATGGTGAATCTTATACCCTAAAGATGTGAAG
Found at i:160404 original size:98 final size:98
Alignment explanation
Indices: 160227--160405 Score: 252
Period size: 98 Copynumber: 1.8 Consensus size: 98
160217 GGAAAGATTA
* * * *
160227 AGGCCGCAACGGCAAATCTTGTACCCTAAAGATGTGAAAGGAAAGGTTGAGGTTGCAATGATGAA
1 AGGCCGCAACGGCAAACCTTATACCCTAAAGATGTGAAAGGAAAGATTGAGGTCGCAATGATGAA
*
160292 TCTTGAACCCTAAAGACGTGAAGGGAAAGGTCG
66 TCTTGAACCATAAAGACGTGAAGGGAAAGGTCG
* * * * *
160325 AGGCTGCAACGGCAAACCTTATACCCTAGAGATGTGAAGGGAAAGATTGAGGTCGCGATGGTGAA
1 AGGCCGCAACGGCAAACCTTATACCCTAAAGATGTGAAAGGAAAGATTGAGGTCGCAATGATGAA
160390 TCTT-ATACCATAAAGA
66 TCTTGA-ACCATAAAGA
160406 TGAAGCAGAT
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
97 1 0.01
98 69 0.99
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (98 bp):
AGGCCGCAACGGCAAACCTTATACCCTAAAGATGTGAAAGGAAAGATTGAGGTCGCAATGATGAA
TCTTGAACCATAAAGACGTGAAGGGAAAGGTCG
Found at i:160702 original size:80 final size:78
Alignment explanation
Indices: 160609--160891 Score: 270
Period size: 80 Copynumber: 3.5 Consensus size: 78
160599 ACGAAGCTAC
* * *
160609 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCA-GAG
1 CATCCAATCTCTTACCCCGATCATGGGGCAAATTGAAGCATCCAATCTCTTACCC-GATCATG-G
160673 GGCAGATTGAAAACAT
64 GGCAGATTG-AAACAT
*
160689 CATCCAATCTCTTACCTCGATCATGGGGCAAATTGAAGACATCATCGAATCTCTTACACCGATCA
1 CATCCAATCTCTTACCCCGATCATGGGGCAAATTGAAG-CATC--C-AATCTCTTAC-CCGATCA
*
160754 TGGGGCAGATTG--A-AG
61 TGGGGCAGATTGAAACAT
* * ** * *
160769 CATCCAATCTTTTACTCTAATCA-GAGGGCAGATTAAAGATAACATCCAATCTCTTACCCCGATC
1 CATCCAATCTCTTACCCCGATCATG-GGGCAAATT---GA-AGCATCCAATCTCTTA-CCCGATC
*
160833 ATGGGGCAGATTGAAGACCT
60 ATGGGGCAGATTGAA-ACAT
* *
160853 CATCCAATCTCTTACCACGATCATAGGGCAAATTGAAGC
1 CATCCAATCTCTTACCCCGATCATGGGGCAAATTGAAGC
160892 TACCATCTTT
Statistics
Matches: 164, Mismatches: 22, Indels: 34
0.75 0.10 0.15
Matches are distributed among these distances:
79 1 0.01
80 93 0.57
81 9 0.05
83 8 0.05
84 50 0.30
85 3 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (78 bp):
CATCCAATCTCTTACCCCGATCATGGGGCAAATTGAAGCATCCAATCTCTTACCCGATCATGGGG
CAGATTGAAACAT
Found at i:160815 original size:122 final size:121
Alignment explanation
Indices: 160609--160891 Score: 442
Period size: 122 Copynumber: 2.3 Consensus size: 121
160599 ACGAAGCTAC
160609 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGG
1 CATCCAATCTCTTA-CCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGG
* *
160674 GCAGATTGAAAACATCATCCAATCTCTTACCTCGATCATGGGGCAAATTGAAGACAT
65 GCAGATTGAAAACAACATCCAATCTCTTACCCCGATCATGGGGCAAATTGAAGACAT
* *
160731 CATCGAATCTCTTACACCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACTCTAATCAGAGG
1 CATCCAATCTCTTAC-CCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGG
* * *
160796 GCAGATT-AAAGATAACATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACCT
65 GCAGATTGAAA-ACAACATCCAATCTCTTACCCCGATCATGGGGCAAATTGAAGACAT
* *
160853 CATCCAATCTCTTACCACGATCATAGGGCAAATTGAAGC
1 CATCCAATCTCTTACC-CGATCATGGGGCAGATTGAAGC
160892 TACCATCTTT
Statistics
Matches: 148, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
121 5 0.03
122 143 0.97
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (121 bp):
CATCCAATCTCTTACCCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAGAGGG
CAGATTGAAAACAACATCCAATCTCTTACCCCGATCATGGGGCAAATTGAAGACAT
Found at i:160890 original size:42 final size:42
Alignment explanation
Indices: 160609--160890 Score: 277
Period size: 42 Copynumber: 6.9 Consensus size: 42
160599 ACGAAGCTAC
*
160609 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAG----
1 CATCCAATCTCTTACCACGATCATGGGGCAGATTGAAGACAT
* * *
160647 CATCCAATCTTTTACC-CTAATCA-GAGGGCAGATTGAAAACAT
1 CATCCAATCTCTTACCAC-GATCATG-GGGCAGATTGAAGACAT
* *
160689 CATCCAATCTCTTACCTCGATCATGGGGCAAATTGAAGACAT
1 CATCCAATCTCTTACCACGATCATGGGGCAGATTGAAGACAT
*
160731 CATCGAATCTCTTA-CACCGATCATGGGGCAGATTGAAG----
1 CATCCAATCTCTTACCA-CGATCATGGGGCAGATTGAAGACAT
* * * *
160769 CATCCAATCTTTTACTCTA--ATCA-GAGGGCAGATTAAAGATAA
1 CATCCAATCTCTTAC-C-ACGATCATG-GGGCAGATTGAAGACAT
* *
160811 CATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACCT
1 CATCCAATCTCTTACCACGATCATGGGGCAGATTGAAGACAT
* *
160853 CATCCAATCTCTTACCACGATCATAGGGCAAATTGAAG
1 CATCCAATCTCTTACCACGATCATGGGGCAGATTGAAG
160891 CTACCATCTT
Statistics
Matches: 202, Mismatches: 22, Indels: 36
0.78 0.08 0.14
Matches are distributed among these distances:
37 3 0.01
38 59 0.29
40 1 0.00
41 3 0.01
42 133 0.66
43 3 0.01
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
CATCCAATCTCTTACCACGATCATGGGGCAGATTGAAGACAT
Found at i:162348 original size:30 final size:29
Alignment explanation
Indices: 162305--162407 Score: 107
Period size: 30 Copynumber: 3.4 Consensus size: 29
162295 TCCAACCCCC
*
162305 AAACTTTCCAAAAATTACATTTTGACCCTT
1 AAACTTTCTAAAAATTACATTTT-ACCCTT
* * **
162335 AAACATTCTAAAAATTACTTTTTAACCCCC
1 AAACTTTCTAAAAATTACATTTT-ACCCTT
* * *
162365 AAACTTTTTGAAAATTACATTTTAACCTCT
1 AAACTTTCTAAAAATTACATTTTACCCT-T
162395 AAACTTTCTAAAA
1 AAACTTTCTAAAA
162408 TTTTAGTTTT
Statistics
Matches: 57, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
29 3 0.05
30 54 0.95
ACGTcount: A:0.40, C:0.21, G:0.02, T:0.37
Consensus pattern (29 bp):
AAACTTTCTAAAAATTACATTTTACCCTT
Found at i:163199 original size:26 final size:26
Alignment explanation
Indices: 163163--163218 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
163153 TTTTAGGCGT
163163 GTAAGGATGCTAATCCTTCCTTACAC
1 GTAAGGATGCTAATCCTTCCTTACAC
*
163189 GTAAGGGTGCTAATCCTTCCTTACAC
1 GTAAGGATGCTAATCCTTCCTTACAC
163215 GTAA
1 GTAA
163219 CAAACTCCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (26 bp):
GTAAGGATGCTAATCCTTCCTTACAC
Found at i:167330 original size:28 final size:29
Alignment explanation
Indices: 167298--167369 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 29
167288 ATTTTGATTC
*
167298 TAGCTCGA-ATAGGGCGATAATCTGAACT
1 TAGCTCGAGATAGAGCGATAATCTGAACT
*
167326 TAGCTC-AGATAGAGCGATGATCTGAACT
1 TAGCTCGAGATAGAGCGATAATCTGAACT
*
167354 TAGCTCG-GGTAGAGCG
1 TAGCTCGAGATAGAGCG
167370 TTAAACTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
27 1 0.03
28 38 0.97
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (29 bp):
TAGCTCGAGATAGAGCGATAATCTGAACT
Found at i:167416 original size:28 final size:28
Alignment explanation
Indices: 167356--167540 Score: 139
Period size: 28 Copynumber: 6.6 Consensus size: 28
167346 TCTGAACTTA
* ** * *
167356 GCTCGGGTAGAGCGTTAAACTAAATCTT
1 GCTCGGGTAGAGCATTATCCTGATTCTT
* *
167384 GCTCGGGTAGAGCATTGTTCT-ACTTCTAT
1 GCTCGGGTAGAGCATTATCCTGA-TTCT-T
167413 -CTC-GGTAGAGCATTATCCTGATTCTT
1 GCTCGGGTAGAGCATTATCCTGATTCTT
* * * *
167439 GCTCGGGTAGAGCGTTAACTTG-TTTTT
1 GCTCGGGTAGAGCATTATCCTGATTCTT
*
167466 GGCTCGGGTAGAGCATTATCTTGATT-TT
1 -GCTCGGGTAGAGCATTATCCTGATTCTT
* *
167494 GGCTCGGGTAGAGCGTTATCTTGATT-TT
1 -GCTCGGGTAGAGCATTATCCTGATTCTT
**
167522 GGCTCTAGTAGAGCATTAT
1 -GCTCGGGTAGAGCATTAT
167541 TCCATATTAG
Statistics
Matches: 133, Mismatches: 17, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
26 1 0.01
27 26 0.20
28 103 0.77
29 3 0.02
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.37
Consensus pattern (28 bp):
GCTCGGGTAGAGCATTATCCTGATTCTT
Found at i:167437 original size:27 final size:28
Alignment explanation
Indices: 167416--167540 Score: 151
Period size: 28 Copynumber: 4.5 Consensus size: 28
167406 CTTCTATCTC
* *
167416 GGTAGAGCATTATCCTGATTCTTGCTCG
1 GGTAGAGCATTATCTTGATTCTGGCTCG
* * * *
167444 GGTAGAGCGTTAACTTGTTTTTGGCTCG
1 GGTAGAGCATTATCTTGATTCTGGCTCG
*
167472 GGTAGAGCATTATCTTGATTTTGGCTCG
1 GGTAGAGCATTATCTTGATTCTGGCTCG
* * *
167500 GGTAGAGCGTTATCTTGATTTTGGCTCT
1 GGTAGAGCATTATCTTGATTCTGGCTCG
*
167528 AGTAGAGCATTAT
1 GGTAGAGCATTAT
167541 TCCATATTAG
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 84 1.00
ACGTcount: A:0.18, C:0.15, G:0.28, T:0.38
Consensus pattern (28 bp):
GGTAGAGCATTATCTTGATTCTGGCTCG
Found at i:167499 original size:56 final size:56
Alignment explanation
Indices: 167416--167540 Score: 189
Period size: 56 Copynumber: 2.2 Consensus size: 56
167406 CTTCTATCTC
*
167416 GGTAGAGCATTATCCTGATTCTTGCTCGGGTAGAGCGTTAACTTGTTTTTGGCTCG
1 GGTAGAGCATTATCCTGATTCTTGCTCGGGTAGAGCGTTAACTTGATTTTGGCTCG
* * *
167472 GGTAGAGCATTATCTTGATT-TTGGCTCGGGTAGAGCGTTATCTTGATTTTGGCTCT
1 GGTAGAGCATTATCCTGATTCTT-GCTCGGGTAGAGCGTTAACTTGATTTTGGCTCG
*
167528 AGTAGAGCATTAT
1 GGTAGAGCATTAT
167541 TCCATATTAG
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 2 0.03
56 61 0.97
ACGTcount: A:0.18, C:0.15, G:0.28, T:0.38
Consensus pattern (56 bp):
GGTAGAGCATTATCCTGATTCTTGCTCGGGTAGAGCGTTAACTTGATTTTGGCTCG
Found at i:170601 original size:19 final size:19
Alignment explanation
Indices: 170539--170603 Score: 55
Period size: 19 Copynumber: 3.4 Consensus size: 19
170529 ACTTACTTTA
170539 TTTTATAAT--ATATTATT
1 TTTTATAATAAATATTATT
* * *
170556 TTGTTAATATTATAACA-TATG
1 TT-TT-ATAATA-AATATTATT
170577 TTTTATAATAAATATTATT
1 TTTTATAATAAATATTATT
170596 TTTTATAA
1 TTTTATAA
170604 CATAAATCAT
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
17 2 0.06
18 5 0.14
19 20 0.56
20 2 0.06
21 5 0.14
22 2 0.06
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (19 bp):
TTTTATAATAAATATTATT
Found at i:170610 original size:21 final size:20
Alignment explanation
Indices: 170577--170615 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
170567 ATAACATATG
170577 TTTTATAATAAAT-ATTATT
1 TTTTATAATAAATCATTATT
170596 TTTTATAACATAAATCATTA
1 TTTTAT-A-ATAAATCATTA
170616 CCAACTATCC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 1 0.06
21 6 0.35
22 4 0.24
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (20 bp):
TTTTATAATAAATCATTATT
Found at i:177277 original size:15 final size:16
Alignment explanation
Indices: 177252--177284 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
177242 GAAAATTTGT
*
177252 CAAATCAAGGGGGTTA
1 CAAATCAAGGGAGTTA
177268 CAAA-CAAGGGAGTTA
1 CAAATCAAGGGAGTTA
177283 CA
1 CA
177285 TTAGCAACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.42, C:0.15, G:0.27, T:0.15
Consensus pattern (16 bp):
CAAATCAAGGGAGTTA
Found at i:182002 original size:240 final size:240
Alignment explanation
Indices: 181579--182059 Score: 944
Period size: 240 Copynumber: 2.0 Consensus size: 240
181569 CAACAATTCA
181579 AGGTGAATGGTCAAAGGCTGAAACATTATGTGAGCCTAGATGTCAAGAAACCAAACGAGGCCATA
1 AGGTGAATGGTCAAAGGCTGAAACATTATGTGAGCCTAGATGTCAAGAAACCAAACGAGGCCATA
181644 GATCTGGTCACATTTAAATAATGTCGATGCATTTTTAAATTTTCCTTTATTTGTTTCACTTTTAC
66 GATCTGGTCACATTTAAATAATGTCGATGCATTTTTAAATTTTCCTTTATTTGTTTCACTTTTAC
*
181709 TTATTTTGTTTTACATTCTTTGAAGAAATAAAAATTGTCTTTTTATCGATGCATTGAAGCACAAA
131 TTATTTTGTTTTACATTCTTTGAAGAAATAAAAATTATCTTTTTATCGATGCATTGAAGCACAAA
181774 TTGTCTGCGCATTCTACGATGAGTCAGCAAAACTTTTTCAGCAAG
196 TTGTCTGCGCATTCTACGATGAGTCAGCAAAACTTTTTCAGCAAG
181819 AGGTGAATGGTCAAAGGCTGAAACATTATGTGAGCCTAGATGTCAAGAAACCAAACGAGGCCATA
1 AGGTGAATGGTCAAAGGCTGAAACATTATGTGAGCCTAGATGTCAAGAAACCAAACGAGGCCATA
*
181884 GATCTGGTCACATTTAAATAATGTTGATGCATTTTTAAATTTTCCTTTATTTGTTTCACTTTTAC
66 GATCTGGTCACATTTAAATAATGTCGATGCATTTTTAAATTTTCCTTTATTTGTTTCACTTTTAC
181949 TTATTTTGTTTTACATTCTTTGAAGAAATAAAAATTATCTTTTTATCGATGCATTGAAGCACAAA
131 TTATTTTGTTTTACATTCTTTGAAGAAATAAAAATTATCTTTTTATCGATGCATTGAAGCACAAA
182014 TTGTCTGCGCATTCTACGATGAGTCAGCAAAACTTTTTCAGCAAG
196 TTGTCTGCGCATTCTACGATGAGTCAGCAAAACTTTTTCAGCAAG
182059 A
1 A
182060 ATCACGCCGA
Statistics
Matches: 239, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
240 239 1.00
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.36
Consensus pattern (240 bp):
AGGTGAATGGTCAAAGGCTGAAACATTATGTGAGCCTAGATGTCAAGAAACCAAACGAGGCCATA
GATCTGGTCACATTTAAATAATGTCGATGCATTTTTAAATTTTCCTTTATTTGTTTCACTTTTAC
TTATTTTGTTTTACATTCTTTGAAGAAATAAAAATTATCTTTTTATCGATGCATTGAAGCACAAA
TTGTCTGCGCATTCTACGATGAGTCAGCAAAACTTTTTCAGCAAG
Found at i:184152 original size:23 final size:23
Alignment explanation
Indices: 184122--184169 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
184112 TGGTTCGACG
* *
184122 GATAAAAA-AGGAAGAGGCACAAA
1 GATAAAAAGAAGAAGAAGCA-AAA
184145 GATAAAAAGAAGAAGAAGCAAAA
1 GATAAAAAGAAGAAGAAGCAAAA
184168 GA
1 GA
184170 AAGAGGGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.65, C:0.06, G:0.25, T:0.04
Consensus pattern (23 bp):
GATAAAAAGAAGAAGAAGCAAAA
Found at i:184917 original size:12 final size:11
Alignment explanation
Indices: 184896--184944 Score: 57
Period size: 12 Copynumber: 4.5 Consensus size: 11
184886 CAGTCACTTG
184896 AAAAAGA-AAA
1 AAAAAGAGAAA
*
184906 AAAATGAGAAA
1 AAAAAGAGAAA
184917 AAGAAAGAGAAA
1 AA-AAAGAGAAA
184929 AGAAAAGA-AAA
1 A-AAAAGAGAAA
184940 AAAAA
1 AAAAA
184945 TTATTACTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 10 0.29
11 9 0.26
12 14 0.41
13 1 0.03
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (11 bp):
AAAAAGAGAAA
Found at i:184944 original size:10 final size:10
Alignment explanation
Indices: 184896--184944 Score: 53
Period size: 10 Copynumber: 4.5 Consensus size: 10
184886 CAGTCACTTG
184896 AAAAAGAAAA
1 AAAAAGAAAA
184906 AAAATGAGAAAA
1 AAAA--AGAAAA
184918 AGAAAGAGAAAA
1 A-AAA-AGAAAA
*
184930 GAAAAGAAAA
1 AAAAAGAAAA
184940 AAAAA
1 AAAAA
184945 TTATTACTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 14 0.41
11 3 0.09
12 14 0.41
13 3 0.09
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:190056 original size:145 final size:145
Alignment explanation
Indices: 189693--190069 Score: 504
Period size: 145 Copynumber: 2.6 Consensus size: 145
189683 TTTCGTCGGT
* * * *
189693 TATCCGACTAGCGCTAGGCGCAAACATTTTTTGGTATATCCAACTAGATTTGGGCTCACCTTTGA
1 TATCCGACTAGCGTTGGGCGCAAACATTTGTTGGTATATCCAACTAGAGTTGGGCTCACCTTTGA
* * * * * * *
189758 TATTGTCGATTTATCCAACTACCATTGGGTGCAACCTCCGTCAGTTTATCTGACTAGTGCTAGGC
66 TATTGTCGGTTTATTCGACTAGCATTAGGCGCAACCTCCGTCAGTTTATCTGACTAGTGCTAAGC
* *
189823 ACACAAATCGTTAGT
131 ACACAAATCGTCAGC
* *
189838 TATCCGACTAGCGTTGGGCGCAAACATTTGTTGGTATATCCAACTAGAGTTTGGCTCGCCTTTGA
1 TATCCGACTAGCGTTGGGCGCAAACATTTGTTGGTATATCCAACTAGAGTTGGGCTCACCTTTGA
* * * *
189903 TATTGTCGGTTTATTTGACTAGCGTTAGGCGTAACCTCCTTCAGTTTATCTGACTAGTGCTAAGC
66 TATTGTCGGTTTATTCGACTAGCATTAGGCGCAACCTCCGTCAGTTTATCTGACTAGTGCTAAGC
189968 ACACAAATCGTCAGC
131 ACACAAATCGTCAGC
* * * * *
189983 TA-CCTGACTAGCGTTGGGCGCAAAAATTTGTTGGTATATCCAACTAAAGTTGGGCTCATCATTA
1 TATCC-GACTAGCGTTGGGCGCAAACATTTGTTGGTATATCCAACTAGAGTTGGGCTCACCTTTG
* *
190047 ATATCGTCGGTCTATTCGACTAG
65 ATATTGTCGGTTTATTCGACTAG
190070 TGCTGGGTGC
Statistics
Matches: 202, Mismatches: 29, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
144 2 0.01
145 200 0.99
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (145 bp):
TATCCGACTAGCGTTGGGCGCAAACATTTGTTGGTATATCCAACTAGAGTTGGGCTCACCTTTGA
TATTGTCGGTTTATTCGACTAGCATTAGGCGCAACCTCCGTCAGTTTATCTGACTAGTGCTAAGC
ACACAAATCGTCAGC
Found at i:193281 original size:7 final size:7
Alignment explanation
Indices: 193266--193297 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
193256 AGCCATGAAG
193266 CCCAATA
1 CCCAATA
*
193273 CCTAATA
1 CCCAATA
193280 CCCAATA
1 CCCAATA
193287 CCCAATA
1 CCCAATA
193294 CCCA
1 CCCA
193298 TTGGTTTGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.41, C:0.44, G:0.00, T:0.16
Consensus pattern (7 bp):
CCCAATA
Found at i:193904 original size:30 final size:30
Alignment explanation
Indices: 193869--193933 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
193859 TCCGATTGAA
193869 GTGTGTCTCTATTCGTGCTACATGTTTGTT
1 GTGTGTCTCTATTCGTGCTACATGTTTGTT
* *
193899 GTGTGTTTCTATTTGTGCTACATGTTTGTT
1 GTGTGTCTCTATTCGTGCTACATGTTTGTT
193929 GTGTG
1 GTGTG
193934 ACAGTGTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.09, C:0.12, G:0.26, T:0.52
Consensus pattern (30 bp):
GTGTGTCTCTATTCGTGCTACATGTTTGTT
Found at i:195370 original size:52 final size:52
Alignment explanation
Indices: 195292--195633 Score: 479
Period size: 52 Copynumber: 6.6 Consensus size: 52
195282 AAGTGAAAAG
* * * *
195292 GGTCTGATGACTACGTGCCATTGTGAGTATATGAATTCTTTATGGATTATGA
1 GGTCTGATGACTACGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
*
195344 GGTCTGATGACTACGTGTCATCGTGAGTATATGAATCATTTACGGATTATGA
1 GGTCTGATGACTACGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
** * *
195396 GGTCCAATGACTACGTGTCATCGTGAGTATATAAATCCTTTATGGATTATGA
1 GGTCTGATGACTACGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
* * *
195448 GGTCAGATGATTACGTGTCATCGTGAGTATATGAATCCTTTACGAATTATGA
1 GGTCTGATGACTACGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
* * * * * *
195500 GGTCCGATGACTATGTGTCATCATGAGTATATGAATACTTTACAGAATATGA
1 GGTCTGATGACTACGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
* *
195552 GGTCTGATGACTACGTGTCATCGTGAGTATACGAATCCTTTACGGATTATAA
1 GGTCTGATGACTACGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
*
195604 GGT-TCGATGACTATGTGTCATCGTGAGTAT
1 GGTCT-GATGACTACGTGTCATCGTGAGTAT
195634 TAAACGAAAT
Statistics
Matches: 256, Mismatches: 33, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
51 1 0.00
52 255 1.00
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (52 bp):
GGTCTGATGACTACGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGA
Found at i:196306 original size:24 final size:24
Alignment explanation
Indices: 196266--196313 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
196256 CGGTAGTTAA
*
196266 TTAGCAAGTATCGGTAGTTATGTGT
1 TTAGCAAGTATCAGTAGTT-TGTGT
196291 TTAG-AAGTATCAGTAGTTTGTGT
1 TTAGCAAGTATCAGTAGTTTGTGT
196314 CCTTGTATCG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.23
24 13 0.59
25 4 0.18
ACGTcount: A:0.25, C:0.06, G:0.27, T:0.42
Consensus pattern (24 bp):
TTAGCAAGTATCAGTAGTTTGTGT
Found at i:196396 original size:21 final size:21
Alignment explanation
Indices: 196367--196419 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
196357 GGAGTTTTTA
* *
196367 GTATTGGTAGAATTAAGACTT
1 GTATCGGTAGAATTAACACTT
**
196388 GTATCGGTAGAATTGTCACTT
1 GTATCGGTAGAATTAACACTT
196409 GTATCGGTAGA
1 GTATCGGTAGA
196420 GGTCTATACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.28, C:0.09, G:0.26, T:0.36
Consensus pattern (21 bp):
GTATCGGTAGAATTAACACTT
Found at i:197105 original size:62 final size:62
Alignment explanation
Indices: 197008--197134 Score: 236
Period size: 62 Copynumber: 2.0 Consensus size: 62
196998 ACACACTGGG
*
197008 CTCCTTAGCTCATTTCCCCTTAATTTTTCTTACAGATTTATTTTGACTTAGGCAACTTGGTA
1 CTCCTTAGCTCATTTCCCCTTAATTTCTCTTACAGATTTATTTTGACTTAGGCAACTTGGTA
*
197070 CTCCTTAGCTCATTTCCCCTTAGTTTCTCTTACAGATTTATTTTGACTTAGGCAACTTGGTA
1 CTCCTTAGCTCATTTCCCCTTAATTTCTCTTACAGATTTATTTTGACTTAGGCAACTTGGTA
197132 CTC
1 CTC
197135 GGAAGATCTC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.44
Consensus pattern (62 bp):
CTCCTTAGCTCATTTCCCCTTAATTTCTCTTACAGATTTATTTTGACTTAGGCAACTTGGTA
Found at i:200090 original size:13 final size:13
Alignment explanation
Indices: 200072--200099 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
200062 CAATTGACCA
200072 TTGATCGTTGACT
1 TTGATCGTTGACT
200085 TTGATCGTTGACT
1 TTGATCGTTGACT
200098 TT
1 TT
200100 TTTGACCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.21, T:0.50
Consensus pattern (13 bp):
TTGATCGTTGACT
Found at i:201240 original size:97 final size:97
Alignment explanation
Indices: 201065--201241 Score: 266
Period size: 97 Copynumber: 1.8 Consensus size: 97
201055 AACCTTGTAA
* * * *
201065 AAGGGTATTCGATTATTCCAATTTAAAGAAAAGTCGCGCCTAGTAAGTTTAGGCACAAATTTTCA
1 AAGGGTATTCGATTATCCCAATTTAAAGAAAAATCGCGCCTAGTAAGTTAACGCACAAATTTTCA
*
201130 AAACCAGAGATAAAGAAACATTATCTCAATTT
66 AAACCAGAAATAAAGAAACATTATCTCAATTT
* * *
201162 AAGGGTATTCGATTATCCCGATTTGAAGAAAAATCGTGCCTAGTAAGTTAACGCACAAATTTTCA
1 AAGGGTATTCGATTATCCCAATTTAAAGAAAAATCGCGCCTAGTAAGTTAACGCACAAATTTTCA
201227 AAACTC-GAAATAAAG
66 AAAC-CAGAAATAAAG
201242 GAATATTGCC
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
97 70 0.99
98 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (97 bp):
AAGGGTATTCGATTATCCCAATTTAAAGAAAAATCGCGCCTAGTAAGTTAACGCACAAATTTTCA
AAACCAGAAATAAAGAAACATTATCTCAATTT
Found at i:201575 original size:29 final size:28
Alignment explanation
Indices: 201490--201711 Score: 129
Period size: 29 Copynumber: 7.8 Consensus size: 28
201480 TTAGATGTCT
201490 GGGGTAAAATGGTAATTTTTGG-ACACTC
1 GGGGTAAAATGGTAATTTTTGGCA-ACTC
* *
201518 GGGGGAAAAT-GTAATTTTTGG-ACATTC
1 GGGGTAAAATGGTAATTTTTGGCA-ACTC
201545 GGCGGTAAAATGGTAATTTTTGGCAACTC
1 GG-GGTAAAATGGTAATTTTTGGCAACTC
* * * * *
201574 GGGGGGAAAAAT-ATATTTTTTGAC-ATTC
1 --GGGGTAAAATGGTAATTTTTGGCAACTC
* * *
201602 AGGAGTAAAATGGTAATTTTTAGAAACTC
1 -GGGGTAAAATGGTAATTTTTGGCAACTC
* * *
201631 GAAGGCAAAAT-GT-ATCTTTTGGACATC-C
1 G-GGGTAAAATGGTAAT-TTTTGG-CAACTC
* *
201659 GAGGGTAAAATGGTAATTTTTGGAAAGTTC
1 G-GGGTAAAATGGTAATTTTTGGCAA-CTC
201689 GGGGTCAAAAATGG-AATTTTTGG
1 GGGGT--AAAATGGTAATTTTTGG
201712 AAATTTGAGC
Statistics
Matches: 149, Mismatches: 29, Indels: 30
0.72 0.14 0.14
Matches are distributed among these distances:
27 28 0.19
28 45 0.30
29 46 0.31
30 21 0.14
31 9 0.06
ACGTcount: A:0.32, C:0.09, G:0.27, T:0.32
Consensus pattern (28 bp):
GGGGTAAAATGGTAATTTTTGGCAACTC
Found at i:201610 original size:57 final size:53
Alignment explanation
Indices: 201491--201683 Score: 224
Period size: 57 Copynumber: 3.4 Consensus size: 53
201481 TAGATGTCTG
*
201491 GGGTAAAATGGTAATTTTTGGACACTCGGGGGAAAATGTAATTTTTGGACATTCG
1 GGGTAAAATGGTAATTTTTGGA-ACTCGGGGGAAAATGT-ATTTTTGGACATTCA
* *
201546 GCGGTAAAATGGTAATTTTTGGCAACTCGGGGGGAAAAATATATTTTTTGACATTCA
1 G-GGTAAAATGGTAATTTTTGG-AACTC-GGGGG-AAAATGTATTTTTGGACATTCA
* * * *
201603 GGAGTAAAATGGTAATTTTTAGAAACTCGAAGGCAAAATGTATCTTTTGGACATCCGA
1 GG-GTAAAATGGTAATTTTT-GGAACTCG-GGGGAAAATGTAT-TTTTGGACATTC-A
201661 GGGTAAAATGGTAATTTTTGGAA
1 GGGTAAAATGGTAATTTTTGGAA
201684 AGTTCGGGGT
Statistics
Matches: 119, Mismatches: 10, Indels: 17
0.82 0.07 0.12
Matches are distributed among these distances:
55 1 0.01
56 37 0.31
57 71 0.60
58 10 0.08
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.32
Consensus pattern (53 bp):
GGGTAAAATGGTAATTTTTGGAACTCGGGGGAAAATGTATTTTTGGACATTCA
Found at i:201622 original size:28 final size:26
Alignment explanation
Indices: 201468--201710 Score: 130
Period size: 28 Copynumber: 8.6 Consensus size: 26
201458 AAATGGAGTC
*
201468 AAAATGTAATTTTT-AGATGTCTGGGGT
1 AAAATGTAATTTTTGACAT-TC-GGGGT
* *
201495 AAAATGGTAATTTTTGGACACTCGGGGG
1 AAAAT-GTAATTTTT-GACATTCGGGGT
201523 AAAATGTAATTTTTGGACATTCGGCGGT
1 AAAATGTAATTTTT-GACATTCGG-GGT
* * *
201551 AAAATGGTAATTTTTGGCAACTCGGGGGGA
1 AAAAT-GTAATTTTTGAC-ATTC--GGGGT
* * *
201581 AAAATATATTTTTTGACATTCAGGAGT
1 AAAATGTAATTTTTGACATTC-GGGGT
* * * *
201608 AAAATGGTAATTTTTAGAAACTCGAAGGC
1 AAAAT-GTAATTTTT-GACATTCG-GGGT
*
201637 AAAATGT-ATCTTTTGGACATCCGAGGGT
1 AAAATGTAAT-TTTT-GACATTCG-GGGT
*
201665 AAAATGGTAATTTTTGGAAAGTTCGGGGT
1 AAAAT-GTAATTTTT-GACA-TTCGGGGT
*
201694 CAAAAATGGAATTTTTG
1 --AAAATGTAATTTTTG
201711 GAAATTTGAG
Statistics
Matches: 168, Mismatches: 31, Indels: 32
0.73 0.13 0.14
Matches are distributed among these distances:
27 33 0.20
28 57 0.34
29 49 0.29
30 22 0.13
31 7 0.04
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.33
Consensus pattern (26 bp):
AAAATGTAATTTTTGACATTCGGGGT
Found at i:201709 original size:30 final size:30
Alignment explanation
Indices: 201665--201898 Score: 214
Period size: 30 Copynumber: 7.9 Consensus size: 30
201655 ATCCGAGGGT
201665 AAAATGGTAATTTTTGGAAAGTTCGGGGTCA
1 AAAATGG-AATTTTTGGAAAGTTCGGGGTCA
* *
201696 AAAATGGAATTTTTGGAAA-TT-TGAG-CA
1 AAAATGGAATTTTTGGAAAGTTCGGGGTCA
* ** * *
201723 TTAAATGGTTTTTTTGGAAAGATCGGGGTTA
1 -AAAATGGAATTTTTGGAAAGTTCGGGGTCA
* **
201754 AAAATGGAATTTTT-GCAAGTTTAAGGGT-A
1 AAAATGGAATTTTTGGAAAG-TTCGGGGTCA
* * *
201783 AAAATGGTAATTTTTGGAAAATTCGAGGTTA
1 AAAATGG-AATTTTTGGAAAGTTCGGGGTCA
* *
201814 AAAATGGAATTTTTGGAAATTTGGGGGTCA
1 AAAATGGAATTTTTGGAAAGTTCGGGGTCA
*
201844 AAATAT--AATTTTTGGAAAGTTCGGGTTCA
1 AAA-ATGGAATTTTTGGAAAGTTCGGGGTCA
*
201873 AAAATGGAATTTTTGG-AAGCTCGGGG
1 AAAATGGAATTTTTGGAAAGTTCGGGG
201899 GTTAATATAT
Statistics
Matches: 162, Mismatches: 30, Indels: 24
0.75 0.14 0.11
Matches are distributed among these distances:
27 2 0.01
28 20 0.12
29 46 0.28
30 73 0.45
31 21 0.13
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.35
Consensus pattern (30 bp):
AAAATGGAATTTTTGGAAAGTTCGGGGTCA
Found at i:201729 original size:59 final size:60
Alignment explanation
Indices: 201491--201890 Score: 298
Period size: 59 Copynumber: 6.9 Consensus size: 60
201481 TAGATGTCTG
* * * * * *
201491 GGGT-AAAATGGTAATTTTTGGACA-CTCGGGG--GAAAATGTAATTTTTGGACATTCG-
1 GGGTAAAAATGGTAATTTTTGGAAAGTTCGGGGTCAAAAATGGAATTTTTGGAAATTTGA
* * ** * * *
201546 GCGGT-AAAATGGTAATTTTTGGCAA-CTCGGGGGGAAAAAT--ATATTTTTTGACA-TTCA
1 G-GGTAAAAATGGTAATTTTTGGAAAGTTCGGGGTCAAAAATGGA-ATTTTTGGAAATTTGA
* * * * * **
201603 GGAGT-AAAATGGTAATTTTTAGAAA-CTCGAAGG-C-AAAAT-GTATCTTTTGGACATCCGA
1 GG-GTAAAAATGGTAATTTTTGGAAAGTTCG-GGGTCAAAAATGGAAT-TTTTGGAAATTTGA
201661 GGGT-AAAATGGTAATTTTTGGAAAGTTCGGGGTCAAAAATGGAATTTTTGGAAATTTGA
1 GGGTAAAAATGGTAATTTTTGGAAAGTTCGGGGTCAAAAATGGAATTTTTGGAAATTTGA
** * * * * * * *
201720 GCAT-TAAATGGT-TTTTTTGGAAAGATCGGGGTTAAAAATGGAATTTTTGCAAGTTTAA
1 GGGTAAAAATGGTAATTTTTGGAAAGTTCGGGGTCAAAAATGGAATTTTTGGAAATTTGA
* * * *
201778 GGGTAAAAATGGTAATTTTTGGAAAATTCGAGGTTAAAAATGGAATTTTTGGAAATTTGG
1 GGGTAAAAATGGTAATTTTTGGAAAGTTCGGGGTCAAAAATGGAATTTTTGGAAATTTGA
* * *
201838 GGGTCAAAAT-ATAATTTTTGGAAAGTTCGGGTTCAAAAATGGAATTTTTGGAA
1 GGGTAAAAATGGTAATTTTTGGAAAGTTCGGGGTCAAAAATGGAATTTTTGGAA
201891 GCTCGGGGGT
Statistics
Matches: 281, Mismatches: 48, Indels: 28
0.79 0.13 0.08
Matches are distributed among these distances:
55 1 0.00
56 38 0.14
57 66 0.23
58 56 0.20
59 70 0.25
60 50 0.18
ACGTcount: A:0.34, C:0.07, G:0.26, T:0.34
Consensus pattern (60 bp):
GGGTAAAAATGGTAATTTTTGGAAAGTTCGGGGTCAAAAATGGAATTTTTGGAAATTTGA
Found at i:201909 original size:59 final size:59
Alignment explanation
Indices: 201659--201923 Score: 270
Period size: 59 Copynumber: 4.5 Consensus size: 59
201649 TTGGACATCC
* *
201659 GAGGG-TAAAATGGTAATTTTTGGAAAGTTCGGGGTCAAAAATGGAATTTTTGGAAATTT
1 GAGGGTTAAAATGATAATTTTTGGAAAGTTC-GGGTTAAAAATGGAATTTTTGGAAATTT
** * * * * *
201718 GAGCATT-AAATGGT-TTTTTTGGAAAGATCGGGGTTAAAAATGGAATTTTTGCAAGTTT
1 GAGGGTTAAAATGATAATTTTTGGAAAGTTC-GGGTTAAAAATGGAATTTTTGGAAATTT
* * * *
201776 AAGGGTAAAAATGGTAATTTTTGGAAAATTCGAGGTTAAAAATGGAATTTTTGGAAATTT
1 GAGGGTTAAAATGATAATTTTTGGAAAGTTCG-GGTTAAAAATGGAATTTTTGGAAATTT
* * ** *
201836 GGGGGTCAAAAT-ATAATTTTTGGAAAGTTCGGGTTCAAAAATGGAATTTTTGGAAGCTC
1 GAGGGTTAAAATGATAATTTTTGGAAAGTTCGGGTT-AAAAATGGAATTTTTGGAAATTT
* * *
201895 GGGGGTTAATAT-ATAATTTTTGAAAAGTT
1 GAGGGTTAAAATGATAATTTTTGGAAAGTT
201924 TAGGGGTCAA
Statistics
Matches: 174, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
58 46 0.26
59 81 0.47
60 47 0.27
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.35
Consensus pattern (59 bp):
GAGGGTTAAAATGATAATTTTTGGAAAGTTCGGGTTAAAAATGGAATTTTTGGAAATTT
Found at i:201944 original size:59 final size:59
Alignment explanation
Indices: 201790--201950 Score: 146
Period size: 59 Copynumber: 2.7 Consensus size: 59
201780 GTAAAAATGG
* * * ** * *
201790 TAATTTTTGGAAAA-TTCGAGGTTAAAAATGGAATTTTTGGAAATTTGGGGGTCAAAATA
1 TAATTTTT-GAAAAGTTAGGGGTCAAAAATACAATTTTTGGAAACTCGGGGGTCAAAATA
* * * ** * * *
201849 TAATTTTTGGAAAGTTCGGGTTCAAAAATGGAATTTTTGGAAGCTCGGGGGTTAATATA
1 TAATTTTTGAAAAGTTAGGGGTCAAAAATACAATTTTTGGAAACTCGGGGGTCAAAATA
*
201908 TAATTTTTGAAAAGTTTAGGGGTC-AAAATACTATTTTTGGAAA
1 TAATTTTTGAAAAG-TTAGGGGTCAAAAATACAATTTTTGGAAA
201951 GTTTAAGGAC
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
58 4 0.05
59 73 0.87
60 7 0.08
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (59 bp):
TAATTTTTGAAAAGTTAGGGGTCAAAAATACAATTTTTGGAAACTCGGGGGTCAAAATA
Found at i:203674 original size:6 final size:6
Alignment explanation
Indices: 203665--203755 Score: 73
Period size: 6 Copynumber: 15.7 Consensus size: 6
203655 AAATTTAGGA
* * *
203665 TAAATT TAAATT TAAGA-A TAAATT TAAACT TAAA-A TAAATT TAAATT
1 TAAATT TAAATT TAA-ATT TAAATT TAAATT TAAATT TAAATT TAAATT
* * * * *
203712 TAAA-A TAATTT TAAACT TAAACT TAAA-A TAAATT TAAATT TAAA
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAA
203756 AACAAATTTA
Statistics
Matches: 68, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
5 12 0.18
6 55 0.81
7 1 0.01
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (6 bp):
TAAATT
Found at i:203689 original size:35 final size:34
Alignment explanation
Indices: 203650--203785 Score: 137
Period size: 35 Copynumber: 3.7 Consensus size: 34
203640 GGACATTATT
* **
203650 AATTTAAATTTAGGATAAATTTAAATTTAAGAATA
1 AATTTAAACTTAAAATAAATTTAAATTTAA-AATA
203685 AATTTAAACTTAAAATAAATTTAAATTTAAAATAATTTTA
1 AATTTAAACTTAAAATAAATTTAAATTT--AA-AA---TA
* *
203725 AACTTAAACTTAAAATAAATTTAAATTTAAAAACA
1 AATTTAAACTTAAAATAAATTTAAATTT-AAAATA
*
203760 AATTTAAAACTTAAAATAAATCTAAA
1 AATTT-AAACTTAAAATAAATTTAAA
203786 ATAAAATGGG
Statistics
Matches: 87, Mismatches: 8, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
35 30 0.34
36 19 0.22
37 4 0.05
38 2 0.02
39 3 0.03
40 29 0.33
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (34 bp):
AATTTAAACTTAAAATAAATTTAAATTTAAAATA
Found at i:203731 original size:17 final size:17
Alignment explanation
Indices: 203650--203785 Score: 110
Period size: 17 Copynumber: 7.5 Consensus size: 17
203640 GGACATTATT
* **
203650 AATTTAAATTTAGGATA
1 AATTTAAACTTAAAATA
*
203667 AATTTAAATTTAAGAATA
1 AATTTAAACTTAA-AATA
203685 AATTTAAACTTAAAATA
1 AATTTAAACTTAAAATA
*
203702 AATTTAAATTTAAAATAATTTTA
1 AATTTAAACTT--AA-AA---TA
*
203725 AACTTAAACTTAAAATA
1 AATTTAAACTTAAAATA
* *
203742 AATTTAAATTTAAAAACA
1 AATTTAAACTT-AAAATA
203760 AATTTAAAACTTAAAATA
1 AATTT-AAACTTAAAATA
*
203778 AATCTAAA
1 AATTTAAA
203786 ATAAAATGGG
Statistics
Matches: 98, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
17 40 0.41
18 34 0.35
19 7 0.07
20 4 0.04
21 2 0.02
23 11 0.11
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (17 bp):
AATTTAAACTTAAAATA
Found at i:203739 original size:40 final size:42
Alignment explanation
Indices: 203683--203774 Score: 143
Period size: 40 Copynumber: 2.2 Consensus size: 42
203673 AATTTAAGAA
* *
203683 TAAATTTAAACTTAAAATAAATTTAAATTT-AAAA-TAATTT
1 TAAACTTAAACTTAAAATAAATTTAAATTTAAAAACAAATTT
203723 TAAACTTAAACTTAAAATAAATTTAAATTTAAAAACAAATTT
1 TAAACTTAAACTTAAAATAAATTTAAATTTAAAAACAAATTT
*
203765 AAAACTTAAA
1 TAAACTTAAA
203775 ATAAATCTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 29 0.62
41 4 0.09
42 14 0.30
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (42 bp):
TAAACTTAAACTTAAAATAAATTTAAATTTAAAAACAAATTT
Found at i:203786 original size:18 final size:17
Alignment explanation
Indices: 203664--203786 Score: 75
Period size: 18 Copynumber: 6.6 Consensus size: 17
203654 TAAATTTAGG
* *
203664 ATAAATTTAAATTTAAGA
1 ATAAATTAAAACTTAA-A
*
203682 ATAAATTTAAACTTAAA
1 ATAAATTAAAACTTAAA
* *
203699 ATAAATTTAAATTTAAA
1 ATAAATTAAAACTTAAA
*
203716 ATAATTTTAAACTTAAACTTAAA
1 ATAA-ATT--A---AAACTTAAA
* *
203739 ATAAATTTAAATTTAAAA
1 ATAAATTAAAACTT-AAA
*
203757 ACAAATTTAAAACTTAAA
1 ATAAA-TTAAAACTTAAA
203775 ATAAATCTAAAA
1 ATAAAT-TAAAA
203787 TAAAATGGGT
Statistics
Matches: 84, Mismatches: 12, Indels: 18
0.74 0.11 0.16
Matches are distributed among these distances:
17 27 0.32
18 36 0.43
19 7 0.08
22 2 0.02
23 12 0.14
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.36
Consensus pattern (17 bp):
ATAAATTAAAACTTAAA
Found at i:204007 original size:126 final size:126
Alignment explanation
Indices: 203782--204034 Score: 452
Period size: 126 Copynumber: 2.0 Consensus size: 126
203772 AAAATAAATC
*
203782 TAAAATAAAATGGGTTTAGTCTAGGCCCAGACAAATTGGGCTTCAACAGGTGTTTTACACCTTGT
1 TAAAACAAAATGGGTTTAGTCTAGGCCCAGACAAATTGGGCTTCAACAGGTGTTTTACACCTTGT
203847 GATGATATTATTCTGAGATGTGTTATCTGTATGACTTTATCCGTGTTGGGTTATCTCATGT
66 GATGATATTATTCTGAGATGTGTTATCTGTATGACTTTATCCGTGTTGGGTTATCTCATGT
* *
203908 TAAAACAAAATGGGTTTAGTCTGGGCCCGGACAAATTGGGCTTCAACAGGTGTTTTACACCTTGT
1 TAAAACAAAATGGGTTTAGTCTAGGCCCAGACAAATTGGGCTTCAACAGGTGTTTTACACCTTGT
* **
203973 GATGATATTATTCTGAGATGTGTTATTTGTATGACTTTATTTGTGTTGGGTTATCTCATGT
66 GATGATATTATTCTGAGATGTGTTATCTGTATGACTTTATCCGTGTTGGGTTATCTCATGT
204034 T
1 T
204035 GATGTTCCAT
Statistics
Matches: 121, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 121 1.00
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.39
Consensus pattern (126 bp):
TAAAACAAAATGGGTTTAGTCTAGGCCCAGACAAATTGGGCTTCAACAGGTGTTTTACACCTTGT
GATGATATTATTCTGAGATGTGTTATCTGTATGACTTTATCCGTGTTGGGTTATCTCATGT
Found at i:212393 original size:20 final size:21
Alignment explanation
Indices: 212354--212401 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
212344 ATTATATTGT
212354 TGTTTTGGTGCTTCTTTTTAC
1 TGTTTTGGTGCTTCTTTTTAC
* *
212375 TGTTTTGGT-TTTTTTTTTAC
1 TGTTTTGGTGCTTCTTTTTAC
*
212395 TATTTTG
1 TGTTTTG
212402 ATGTTATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 15 0.62
21 9 0.38
ACGTcount: A:0.06, C:0.08, G:0.17, T:0.69
Consensus pattern (21 bp):
TGTTTTGGTGCTTCTTTTTAC
Found at i:212411 original size:21 final size:20
Alignment explanation
Indices: 212368--212412 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
212358 TTGGTGCTTC
* * *
212368 TTTTTACTGTTTTGGTTTTT
1 TTTTTACTATTTTGATTTAT
212388 TTTTTACTATTTTGATGTTAT
1 TTTTTACTATTTTGAT-TTAT
212409 TTTT
1 TTTT
212413 GTTGCTGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.11, C:0.04, G:0.11, T:0.73
Consensus pattern (20 bp):
TTTTTACTATTTTGATTTAT
Found at i:212423 original size:12 final size:12
Alignment explanation
Indices: 212406--212440 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
212396 ATTTTGATGT
212406 TATTTTTGTTGC
1 TATTTTTGTTGC
*
212418 TGTTTTTGTTGC
1 TATTTTTGTTGC
*
212430 TATTTTGGTTG
1 TATTTTTGTTG
212441 TTTTGCTGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.06, C:0.06, G:0.23, T:0.66
Consensus pattern (12 bp):
TATTTTTGTTGC
Found at i:212445 original size:44 final size:44
Alignment explanation
Indices: 212397--212500 Score: 145
Period size: 44 Copynumber: 2.4 Consensus size: 44
212387 TTTTTTACTA
* * *
212397 TTTTGATGTTATTTTTGTTGCTGTTTTTGTTGCTATTTTGGTTG
1 TTTTGATGTTATTTTTGCTGCTGTTTTGGTTGCTATTTTGGCTG
* * * *
212441 TTTTGCTGTTATGTTTGCTGTTGTTTTGGTTGTTATTTTGGCTG
1 TTTTGATGTTATTTTTGCTGCTGTTTTGGTTGCTATTTTGGCTG
212485 TTTTGATGTTATTTTT
1 TTTTGATGTTATTTTT
212501 ATGCGTTTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.07, C:0.05, G:0.23, T:0.65
Consensus pattern (44 bp):
TTTTGATGTTATTTTTGCTGCTGTTTTGGTTGCTATTTTGGCTG
Found at i:212474 original size:12 final size:12
Alignment explanation
Indices: 212441--212486 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
212431 ATTTTGGTTG
212441 TTTT-GCTGTTA
1 TTTTGGCTGTTA
*
212452 TGTTT-GCTGTTG
1 T-TTTGGCTGTTA
*
212464 TTTTGGTTGTTA
1 TTTTGGCTGTTA
212476 TTTTGGCTGTT
1 TTTTGGCTGTT
212487 TTGATGTTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 4 0.14
12 25 0.86
ACGTcount: A:0.04, C:0.07, G:0.26, T:0.63
Consensus pattern (12 bp):
TTTTGGCTGTTA
Done.