Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWWV01011035.1 Corchorus capsularis cultivar CVL-1 contig11056, 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: 95931
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:2399 original size:322 final size:322
Alignment explanation
Indices: 1--6262 Score: 8422
Period size: 321 Copynumber: 19.6 Consensus size: 322
* *
1 AGCATCTGAATCTTGTTTCGTTTTAATTAGAAATTAATTCGGAAAAAAATTGAAAAATGATATTA
1 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATTGAAAAACGATATTA
* *
66 AAAGCGTGAAAAACCCTTCAATCTTTATGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCA
66 GAAGCGTGAAAAACCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCA
* * * * * * *
131 AAAAAATGAG---AAAAATTTTGTGTCAGTTTTTAGCTGAAATCGTGTACTAATACTCTCGGTTT
131 AAAAATTGAGAAAAAAAAATTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAGTTT
** * * * *
193 TTAGCTAAAAACTTGTTTCGGGGCCCTGACTCAATTTTGCATGATTTTTGGCTGATGGACTCTTT
196 TTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCCTT
* * *
258 GAAATATCTATATTCATCGAACCAAATCTCA-TCCACATTAGACTTAAGGATTTCTTTTTACG
261 GAAATATCTATATTCATCGAACCAAATCTCAGT-CACAATGGGCTTAAGGATTTCTTTTTACG
* * *
320 AGCATCTGAATCTTGTTTCGTTTTAATTAGAAATTAATTCGGAAAAAAAATTGAAAGACGATATC
1 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGG-AAAAAAATTGAAAAACGATATT
** *
385 AGAATTGTG-AAAACCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTATGGC
65 AGAAGCGTGAAAAACCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGC
* * * * * *
449 AAAAAATTGAGAAAAAAAATTTTGTGTCAGGTTTTTAGCTGAAATCGTATATTAACACTCACGGT
130 AAAAAATTGAGAAAAAAAAATTCGGGTCA-GTTTTTAGCTGAAATCGTGTACTAACACTCACAGT
** *
514 TTTTAGCTAAAAACTTGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCTGAAGGACTCC
194 TTTTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCC
* * ***
579 TTGAGATATCTATATTCATCGAACCAAATCTCA-TCCACATTAAACTTAAGGATTTAC-TTTTAC
259 TTGAAATATCTATATTCATCGAACCAAATCTCAGT-CACAATGGGCTTAAGGATTT-CTTTTTAC
642 G
322 G
* * *
643 ATCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC-AAAAAAAATTGAAAAACGTTATTA
1 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATTGAAAAACGATATTA
* * * * * **
707 GAAGCGGGAAATATCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTGCTGTGGCA
66 GAAGCGTGAAAAACCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCA
* * * * * * * * * *
772 AAAAATTAAGTAAAAAAATTTCAGGTAAGTTTTTAGCTGAAATTGTGTAGTATCACGCACAGTTG
131 AAAAATTGAGAAAAAAAAATTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAGTTT
* * * * * *
837 TTAGCTAAAAATGCGGTTCAGGGCCCCGACTCAATTTTGCTTGATTTTTGGCAGAATGACTACTT
196 TTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCCTT
* *
902 GAAATATCTATATTCATCGAACCAAATCTCAGTTAGAATGGGCTTAAGGATTTCTTTTTACG
261 GAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACG
* *
964 AGCATCTGAATCTTGTTTTGATTTAATTGGAAATTAATTCGGAAAAAAATT-AAAAACGATATTA
1 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATTGAAAAACGATATTA
* *
1028 GAAGCGTGAAAAACCCTTCAATCTTCCTGGAGTTGAATTATATATTTTTTATGAGTATTGTGGCA
66 GAAGCGTGAAAAACCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCA
*
1093 AAAAATTGAG-AAAAAAAATTCGGGTCAGTTTTTAGCTGATATCGTGTACTAACACTCACAGTTT
131 AAAAATTGAGAAAAAAAAATTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAGTTT
* * * ** *
1157 TTAGCTAAAAACGCGTTTCGGGGTCGCGACTCAAGTTTGTTTGATTTTTGGCTGAAGGACTCCTT
196 TTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCCTT
* **
1222 AAAATATCTATATTCATCGAATTAAATCTCAGTCACAATGGG-TTAAGGATTTCTTTTTACG
261 GAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACG
* *
1283 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC-G-AAAAAATTGGAAAACGTTATTA
1 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATTGAAAAACGATATTA
* * * *
1346 GAAGCGTG-AAAATCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATTGTGGCA
66 GAAGCGTGAAAAACCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCA
* * *
1410 AAGAATTGAGAAAAAAAAATTCCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACATTCACAGCT
131 AAAAATTGAGAAAAAAAAATT-CGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAGTT
** * * * *
1475 CGTAGCAAAAAACGCGTTTCGCGGCCCCGACTCAATTTTGCATGATTTTTAGCCGAAGGACTCCT
195 TTTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCCT
* * * * * * * * * *
1540 TAAAATACCTATATTCATCGTATCAAATATAAGTCAAAATGGGATGAAGGATTTCTTTCTACG
260 TGAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACG
** * * *
1603 AGCAGATGACTTTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAAAATTGAAAAACGGTAT
1 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGG--AAAAAAATTGAAAAACGATAT
* *
1668 TAGAAGCGTGAAAAACCCTTCAATCTTTTTGGCGTTCAATTATATATTTTTTATGAGTATTGTGG
64 TAGAAGCGTGAAAAACCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGG
**
1733 CAAAAAAATTGAGAAAAAAAAAATTTCGGGTCAGTTTTTAGCTGAAATCGTAAACTAACACTCAC
129 C-AAAAAATTGAG-AAAAAAAAA-TTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCAC
* *
1798 AGTTTTTAGCTAAAAACGCGTTTCGGGGCCCCGACTCTATTTTGCATGATTTTTCGCAGAAGGAC
191 AGTTTTTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGAC
* *
1863 TCCTTGAAATATCTATATTCATCGAACCAAAACACAGTCACAATGGGCTTAAGGATTTCTTTTTA
256 TCCTTGAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTA
1928 CG
321 CG
** *
1930 TTCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC--AAAAAAATTGAAAAACGTTATTA
1 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATTGAAAAACGATATTA
* * * * * **
1993 AAAGCGGGAAAAATCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTGCTGTGGCA
66 GAAGCGTGAAAAACCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCA
* * * * * *
2058 AAAAATTAAGTAAAAAAAAATTCAGGTAAGTTTTTAGCTGAAATCGTGTAGTATCACGCACAGTT
131 AAAAATTGAG-AAAAAAAAATTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAGTT
* * * * *
2123 GTTAGCTAAAAACGCGGTTCAGGGCCCCGACTCAATTTTGCATGATTTTTGGTAGAACGACTCCT
195 TTTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCCT
* *
2188 TGAAATATCTATATTCATCGAACCAAATCTCTGTCACAATGGGCTTAAAGATTTCTTTTTACG
260 TGAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACG
2251 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAA-TCGGAAAAAAATTGAAAAACGATATTA
1 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATTGAAAAACGATATTA
**
2315 GAAGCGTGAAAAACCCTTCAATCTTTCTGGCAATGAATTATATATTTTTTATGAGTATTGTGGCA
66 GAAGCGTGAAAAACCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCA
* * * * *
2380 AAAATTTGTTGAAAAAAAAATTCGAGTCAATTTTTAGCTGAAATCGTGTAATAACACTCACAGTT
131 AAAAATTG-AGAAAAAAAAATTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAGTT
* * * * *
2445 TTTAGCTAAAAATGCGTTTCGCGGCCCCGACTCAATTTTGCTTGATTTTTTGCAGAAGGACTACT
195 TTTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCCT
* *
2510 TGAAATATCTATATTCATCGAACCAAATCTCAGTTAGAATGGGCTTAAGGATTTCTTTTTACG
260 TGAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACG
* *
2573 AGCATCTGAATCTTGTTTCGATTTAACTAGAAATTAATTCGGAAAAAAATTGAAAAACGATATCA
1 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATTGAAAAACGATATTA
* * * *
2638 GAAGCGTGAAAAACCCTTCAATCCTTCTGGCATTGAATTATATATTTTTAATGAGTATTATGGC-
66 GAAGCGTGAAAAACCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCA
* * * * *
2702 AAAAATTGAGAAAAAAAATTTTGTGTCAGTTTTTAGCTGAAATCGTATACTAACACTCACGGTTT
131 AAAAATTGAGAAAAAAAAATTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAGTTT
** * * *
2767 TTAGCTAAAAACTTGTTTCGGGGCCCCG-CTCAATTTTGCATGCTTTTTGACTGAAGGACTCCTT
196 TTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCCTT
* * * *
2831 GAAATATCTATATTCATCGAACCAAATCTCAGCCACATTAGACTTAAGGATTTAC-TTTTACG
261 GAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTT-CTTTTTACG
* * * * *
2893 AGCATTTGAATCTAGTTTCGATTTAATTAGAAATTAATTCGAAAAAAAAATTGAAAAACGTTCTT
1 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCG-GAAAAAAATTGAAAAACGATATT
*** * * *
2958 AGAAGCGTGAAACTTCCTTCAATCATTCTGACATTGAATTATATATTTTTTATGAGTATTGTGGC
65 AGAAGCGTGAAAAACCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGC
*
3023 AAAAAATTGAGAAAAAAAAAATTTGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAGT
130 AAAAAATTGAG-AAAAAAAAATTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAGT
* *
3088 TTTTAGCTAAAAACGCGTTTCGGGGCCCCGACTCTATTTTGCATGATTTTTCGCAGAAGGACTCC
194 TTTTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCC
*
3153 TTGAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGATTAAGGATTTCTTTTTACG
259 TTGAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACG
* * *
3217 ATCTTCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATTAAAAAACG-TAATT
1 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATTGAAAAACGAT-ATT
* * *
3281 AGAAGCATGAAAAATCCTTCAATCTTTCTGGC---G--------------T-TGAGTATTGTGAC
65 AGAAGCGTGAAAAACCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGC
*
3328 AAAAAATTGAGAAAAAAAAATTCGGGTCAGTTTTTAGCTGAAATCGTATACTAACACTCACAGTT
130 AAAAAATTGAGAAAAAAAAATTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAGTT
3393 TTTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCCT
195 TTTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCCT
* * *
3458 TAAAATATCTATATTCATCGAACCAAATCTCAGTCACAATAGTCTTAAGGATTTCTTTTTACG
260 TGAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACG
*
3521 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC-GAAAAAAATTGAAAAACGTTATTA
1 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATTGAAAAACGATATTA
* *
3585 GAGGCGTGAAAAATCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCA
66 GAAGCGTGAAAAACCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCA
* * * ** *
3650 AGAAATTGAGAAAAAAAAATTCAGGTCAATTTTTAGCTGAAATTTTGTTCTAACACTCACAGTTT
131 AAAAATTGAGAAAAAAAAATTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAGTTT
* * * * *
3715 TTAGCTAAAAAGGCGGTTC-AGGCCCCGACTCAATTTTGCATGATTTTTGGTAGAATGACTCCTT
196 TTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCCTT
*
3779 AAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACG
261 GAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACG
*
3841 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGAGAAAAAAA-TGAAAAACGTTATT
1 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCG-GAAAAAAATTGAAAAACGATATT
* * *
3905 AGAAGCGTG-AAAATCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGGATTGTGGC
65 AGAAGCGTGAAAAACCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGC
* * * * *
3969 AAAAAATTGAGAAAAAATAATTTCGTGTAAGTTTTTAGCTGACATCGTGTACTAACACTCATAGT
130 AAAAAATTGAGAAAAAA-AAATTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAGT
* * * *
4034 TTTTAGCTAAAAAGGCGGTTC-AGGCCCCTACTCAATTTTGCATGATTTTTGGCAGAAGGACTCC
194 TTTTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCC
* *
4098 TTGAGATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAAGATTTCTTTTTACG
259 TTGAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACG
*
4162 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAA-TCGG-AAAAAATTGAAAAACGGTATTA
1 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATTGAAAAACGATATTA
** ** * *
4225 GATTCGTGAAAAACCCTTCAATCTTTCTGGTATTGAATTATATATTTTTTATGATTATTGTGACA
66 GAAGCGTGAAAAACCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCA
* * *
4290 AAAAATTGAGAAAAAAAAATTTTCGTGTCAGTTTTTAGCTGAAATCGTATACTAACACTCACGGT
131 AAAAATTGAGAAAAAAAAA--TTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAGT
* * *** * *
4355 TTCTAGCAAAAAACGCGTTTCGATACCCCGACTTAATTTTGCATGATTTTTGGCCGAAGGACTCC
194 TTTTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCC
* * * **
4420 TTAAAATACCTATATTCATCGAACCAAATCTAAGTCACAATGGGCTTAAGGATTTCTTTCAACG
259 TTGAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACG
* *
4484 AGCATCTGTATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATTGAAAAACGGTATTA
1 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATTGAAAAACGATATTA
* *
4549 GAAGCGTGAAAAACCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTTTGGCA
66 GAAGCGTGAAAAACCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCA
* * *
4614 AAAAATTCAGAAAAAAAAAATTTGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAATT
131 AAAAATTGAG-AAAAAAAAATTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAGTT
* *
4679 TTTAGCT-AAAATGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGACAGAAGGACTCCT
195 TTTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCCT
* *
4743 TGAAATATCAATATTCATCGAACCAAATCTCAGTCACAATGGGCTGAAGGATTTCTTTTTACG
260 TGAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACG
* *
4806 AGCATTTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGCAAAAAAAATTGAAAAACGGTAT
1 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGG--AAAAAAATTGAAAAACGATAT
4871 TAGAAGCGTGAAAAACCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTTATGAGTATTGTG
64 TAGAAGCGTGAAAAACCCTTCAATCTTTCTGGCGTTGAATTATATA-TTTTTTATGAGTATTGTG
* * *
4936 GCAAAAAATTGAG--AAAAAAATT---TTC-G----T-G-T--AATCGTATACTAACACTCACGG
128 GCAAAAAATTGAGAAAAAAAAATTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAG
* **
4987 TTTTTAGCTAAAAACGCGTTTCGGGG-CCCGACTCAAGTTTGCATGATTTTTGGTTGAAGGACTC
193 TTTTTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTC
* * * * * * *
5051 CTTAAAATATCTATATTCATGATTCATCGAAGCAAACCTCAGCCACATTAGACTTAAGGATTTAC
258 CTTGAAATATC-----T-AT-ATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTT-C
5116 -TTTTACG
315 TTTTTACG
* * * * *
5123 AGCATCTAAAACTTGTATCGATTTAATTAGAAATTAATTCGAAAAAAAATTGAAAAACGTTATTA
1 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATTGAAAAACGATATTA
*
5188 GAAGCGTGAAAAATCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCA
66 GAAGCGTGAAAAACCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCA
* ** *
5253 ACAAATTGAGAAGAAAAATTTTCGGGTCAGTTTTTAGCTGTAATCGTG---T-ACACTCACAGTT
131 AAAAATTGAGAA-AAAAAAATTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAGTT
* * *
5314 TTTAGCTAAAAACGCGTTTCGAGGCCTCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCGT
195 TTTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCCT
* * * *
5379 TGAAATATCTATTTTCATCGAACCAAGTCTCAGTGACAATGGGCTTAAGGATTTCATTTTACG
260 TGAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACG
* * *
5442 AGCATCTGAATCTTGTTTCAATTAAATTAGAAATTAATTCGGAAAAAAAATTTAAAAACGATATT
1 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGG-AAAAAAATTGAAAAACGATATT
* * * *
5507 AGAAGTGTGATAAACCCTTTAATCTTTTTGGCGTTGACA-TATATATTTTTTATGAGTATTGTGG
65 AGAAGCGTGAAAAACCCTTCAATCTTTCTGGCGTTGA-ATTATATATTTTTTATGAGTATTGTGG
* * * * *
5571 CAAAAAATTGAGAAAAAAAAATTTTTGGGTCAATTTTTAGCTGAAAT--T-T--T----GT-TCG
129 CAAAAAATTGAGAAAAAAAAA--TTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACA
* * *
5626 GTTTTTAGTTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGA-TTTTGCCAGAAGAACT
192 GTTTTTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACT
* * * * * * *
5690 CCTTGAAATATCTATATTCGTCGAACCAAATCTCAGCCACATTGGACTTATGGAATTCATTTTAC
257 CCTTGAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTAC
5755 G
322 G
*
5756 AGCACCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATTGAAAAACGATATTA
1 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATTGAAAAACGATATTA
* *
5821 GAAGCGTGAAAACCCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGCATTGTGGCA
66 GAAGCGTGAAAAACCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCA
* * * * * *
5886 AAAAATTGAGAAACAAAATTTCGTGTCAGTTTTTAGCTGAAATCATATACTAACAATCAC-GATT
131 AAAAATTGAGAAAAAAAAATTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAG-TT
* *
5950 TTTAGCTAAAAACGCGTTTCGGAGCCCCGACTCAATTTTGCATGATTTTTGGCTGAAGGACTCCT
195 TTTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCCT
* * * * * *
6015 TGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTAGACTTAAGGATTTCCTATTACG
260 TGAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACG
* * *
6078 AGCATCTTAATCTTATTTCGATTTAATTAGAAATTAATTC-CAAAAAAATTTGAAAAACGATATT
1 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAA-TTGAAAAACGATATT
* * * * * *
6142 AGAAGCGTGAAAAA-CCTTTAATCTTTTTTTGCGTTGAATTATATATTTTTTACGAGCATTATGG
65 AGAAGCGTGAAAAACCCTTCAATC-TTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGG
* ** *
6206 CAAAAAAATTGAGAAAAAAAATTTTCATGTCAGTTTTTAGCTGAAATCGTATACTAA
129 C-AAAAAATTGAGAAAAAAAA-ATTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAA
6263 TAGTTTGGCC
Statistics
Matches: 5278, Mismatches: 551, Indels: 223
0.87 0.09 0.04
Matches are distributed among these distances:
303 50 0.01
304 213 0.04
305 23 0.00
306 2 0.00
310 72 0.01
311 36 0.01
312 2 0.00
313 98 0.02
314 141 0.03
315 111 0.02
316 4 0.00
317 154 0.03
318 39 0.01
319 401 0.08
320 717 0.14
321 1065 0.20
322 885 0.17
323 547 0.10
324 339 0.06
325 124 0.02
326 55 0.01
327 192 0.04
328 2 0.00
329 6 0.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.35
Consensus pattern (322 bp):
AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATTGAAAAACGATATTA
GAAGCGTGAAAAACCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCA
AAAAATTGAGAAAAAAAAATTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAGTTT
TTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCCTT
GAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACG
Found at i:3137 original size:644 final size:644
Alignment explanation
Indices: 1--6262 Score: 8501
Period size: 644 Copynumber: 9.8 Consensus size: 644
* * *
1 AGCATCTGAATCTTGTTTCGTTTTAATTAGAAATTAATTCGGAAAAAAATTGAAAAATGATATTA
1 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATTGAAAAACGTTATTA
* * *
66 AAAGCGTGAAAAACCCTTCAATCTTTATGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCA
66 GAAGCGTGAAAAATCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCA
* * * * * *
131 AAAAAATGAG---AAAAATTTTGTGTCAGTTTTTAGCTGAAATCGTGTACTAATACTCTCGGTTT
131 AAAAATTGAGAAAAAAAATTTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAGTTT
** * * * *
193 TTAGCTAAAAACTTGTTTCGGGGCCCTGACTCAATTTTGCATGATTTTTGGCTGATGGACTCTTT
196 TTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCCTT
* * *
258 GAAATATCTATATTCATCGAACCAAATCTCA-TCCACATTAGACTTAAGGATTTCTTTTTACGAG
261 GAAATATCTATATTCATCGAACCAAATCTCAGT-CACAATGGGCTTAAGGATTTCTTTTTACGAG
* * *
322 CATCTGAATCTTGTTTCGTTTTAATTAGAAATTAATTCGGAAAAAAAATTGAAAGACGATATCAG
325 CATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC-GAAAAAAAATTGAAAAACGATATTAG
** *
387 AATTGTG-AAAACCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTATGGCAA
389 AAGCGTGAAAAACCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCAA
* * * *
451 AAAATTGAGAAAAAAAATTTTGTGTCAGGTTTTTAGCTGAAATCGTATATTAACACTCACGGTTT
454 AAAATTGAGAAAAAAAAATTTGGGTCA-GTTTTTAGCTGAAATCGTATACTAACACTCACAGTTT
** *
516 TTAGCTAAAAACTTGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCTGAAGGACTCCTT
518 TTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCCTT
* * ***
581 GAGATATCTATATTCATCGAACCAAATCTCA-TCCACATTAAACTTAAGGATTTAC-TTTTACG
583 GAAATATCTATATTCATCGAACCAAATCTCAGT-CACAATGGGCTTAAGGATTT-CTTTTTACG
* *
643 ATCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC-AAAAAAAATTGAAAAACGTTATTA
1 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATTGAAAAACGTTATTA
* * * **
707 GAAGCGGGAAATATCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTGCTGTGGCA
66 GAAGCGTGAAAAATCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCA
* * * * * * * * *
772 AAAAATTAAGTAAAAAAATTTCAGGTAAGTTTTTAGCTGAAATTGTGTAGTATCACGCACAGTTG
131 AAAAATTGAGAAAAAAAATTTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAGTTT
* * * * * *
837 TTAGCTAAAAATGCGGTTCAGGGCCCCGACTCAATTTTGCTTGATTTTTGGCAGAATGACTACTT
196 TTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCCTT
* *
902 GAAATATCTATATTCATCGAACCAAATCTCAGTTAGAATGGGCTTAAGGATTTCTTTTTACGAGC
261 GAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACGAGC
* * *
967 ATCTGAATCTTGTTTTGATTTAATTGGAAATTAATTCGGAAAAAAATT-AAAAACGATATTAGAA
326 ATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGAAAAAAAATTGAAAAACGATATTAGAA
* *
1031 GCGTGAAAAACCCTTCAATCTTCCTGGAGTTGAATTATATATTTTTTATGAGTATTGTGGCAAAA
391 GCGTGAAAAACCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCAAAA
* * *
1096 AATTGAG-AAAAAAAATTCGGGTCAGTTTTTAGCTGATATCGTGTACTAACACTCACAGTTTTTA
456 AATTGAGAAAAAAAAATTTGGGTCAGTTTTTAGCTGAAATCGTATACTAACACTCACAGTTTTTA
* * * ** * *
1160 GCTAAAAACGCGTTTCGGGGTCGCGACTCAAGTTTGTTTGATTTTTGGCTGAAGGACTCCTTAAA
521 GCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCCTTGAA
**
1225 ATATCTATATTCATCGAATTAAATCTCAGTCACAATGGG-TTAAGGATTTCTTTTTACG
586 ATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACG
*
1283 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC-G-AAAAAATTGGAAAACGTTATTA
1 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATTGAAAAACGTTATTA
* *
1346 GAAGCGTG-AAAATCTTTCAATCTTTTTGGTGTTGAATTATATATTTTTTATGAGTATTGTGGCA
66 GAAGCGTGAAAAATCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCA
* * * *
1410 AAGAATTGAGAAAAAAAAATTCCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACATTCACAGCT
131 AAAAATTGAG-AAAAAAAATTTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAGTT
** * * * *
1475 CGTAGCAAAAAACGCGTTTCGCGGCCCCGACTCAATTTTGCATGATTTTTAGCCGAAGGACTCCT
195 TTTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCCT
* * * * * * * * * *
1540 TAAAATACCTATATTCATCGTATCAAATATAAGTCAAAATGGGATGAAGGATTTCTTTCTACGAG
260 TGAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACGAG
** * * *
1605 CAGATGACTTTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAAAATTGAAAAACGGTATTA
325 CATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC-G-AAAAAAAATTGAAAAACGATATTA
* *
1670 GAAGCGTGAAAAACCCTTCAATCTTTTTGGCGTTCAATTATATATTTTTTATGAGTATTGTGGCA
388 GAAGCGTGAAAAACCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGC-
*
1735 AAAAAATTGAGAAAAAAAAAATTTCGGGTCAGTTTTTAGCTGAAATCGTAAACTAACACTCACAG
452 AAAAAATTGAG-AAAAAAAAATTT-GGGTCAGTTTTTAGCTGAAATCGTATACTAACACTCACAG
* *
1800 TTTTTAGCTAAAAACGCGTTTCGGGGCCCCGACTCTATTTTGCATGATTTTTCGCAGAAGGACTC
515 TTTTTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTC
* *
1865 CTTGAAATATCTATATTCATCGAACCAAAACACAGTCACAATGGGCTTAAGGATTTCTTTTTACG
580 CTTGAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACG
**
1930 TTCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC--AAAAAAATTGAAAAACGTTATTA
1 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATTGAAAAACGTTATTA
* * * **
1993 AAAGCGGGAAAAATCCTTCAATCTTTTTGGCATTGAATTATATATTTTTTATGAGTGCTGTGGCA
66 GAAGCGTGAAAAATCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCA
* * * * * * *
2058 AAAAATTAAGTAAAAAAAAATTCAGGTAAGTTTTTAGCTGAAATCGTGTAGTATCACGCACAGTT
131 AAAAATTGAG-AAAAAAAATTTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAGTT
* * * * *
2123 GTTAGCTAAAAACGCGGTTCAGGGCCCCGACTCAATTTTGCATGATTTTTGGTAGAACGACTCCT
195 TTTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCCT
* *
2188 TGAAATATCTATATTCATCGAACCAAATCTCTGTCACAATGGGCTTAAAGATTTCTTTTTACGAG
260 TGAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACGAG
*
2253 CATCTGAATCTTGTTTCGATTTAATTAGAAATTAA-TCGGAAAAAAATTGAAAAACGATATTAGA
325 CATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGAAAAAAAATTGAAAAACGATATTAGA
**
2317 AGCGTGAAAAACCCTTCAATCTTTCTGGCAATGAATTATATATTTTTTATGAGTATTGTGGCAAA
390 AGCGTGAAAAACCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCAAA
* * * * * * *
2382 AATTTGTTGAAAAAAAAATTCGAGTCAATTTTTAGCTGAAATCGTGTAATAACACTCACAGTTTT
455 AAATTG-AGAAAAAAAAATTTGGGTCAGTTTTTAGCTGAAATCGTATACTAACACTCACAGTTTT
* * * * *
2447 TAGCTAAAAATGCGTTTCGCGGCCCCGACTCAATTTTGCTTGATTTTTTGCAGAAGGACTACTTG
519 TAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCCTTG
* *
2512 AAATATCTATATTCATCGAACCAAATCTCAGTTAGAATGGGCTTAAGGATTTCTTTTTACG
584 AAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACG
* * *
2573 AGCATCTGAATCTTGTTTCGATTTAACTAGAAATTAATTCGGAAAAAAATTGAAAAACGATATCA
1 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATTGAAAAACGTTATTA
* * * * * *
2638 GAAGCGTGAAAAACCCTTCAATCCTTCTGGCATTGAATTATATATTTTTAATGAGTATTATGGC-
66 GAAGCGTGAAAAATCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCA
* * * *
2702 AAAAATTGAGAAAAAAAATTTTGTGTCAGTTTTTAGCTGAAATCGTATACTAACACTCACGGTTT
131 AAAAATTGAGAAAAAAAATTTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAGTTT
** * * *
2767 TTAGCTAAAAACTTGTTTCGGGGCCCCG-CTCAATTTTGCATGCTTTTTGACTGAAGGACTCCTT
196 TTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCCTT
* * * *
2831 GAAATATCTATATTCATCGAACCAAATCTCAGCCACATTAGACTTAAGGATTTAC-TTTTACGAG
261 GAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTT-CTTTTTACGAG
* * * *
2895 CATTTGAATCTAGTTTCGATTTAATTAGAAATTAATTCGAAAAAAAAATTGAAAAACGTTCTTAG
325 CATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCG-AAAAAAAATTGAAAAACGATATTAG
*** * * *
2960 AAGCGTGAAACTTCCTTCAATCATTCTGACATTGAATTATATATTTTTTATGAGTATTGTGGCAA
389 AAGCGTGAAAAACCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCAA
*
3025 AAAATTGAGAAAAAAAAAATTTGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAGTTT
454 AAAATTGAG-AAAAAAAAATTTGGGTCAGTTTTTAGCTGAAATCGTATACTAACACTCACAGTTT
* *
3090 TTAGCTAAAAACGCGTTTCGGGGCCCCGACTCTATTTTGCATGATTTTTCGCAGAAGGACTCCTT
518 TTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCCTT
*
3155 GAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGATTAAGGATTTCTTTTTACG
583 GAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACG
* * * *
3217 ATCTTCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATTAAAAAACGTAATTA
1 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATTGAAAAACGTTATTA
* * *
3282 GAAGCATGAAAAATCCTTCAATCTTTCTGGC---G--------------T-TGAGTATTGTGACA
66 GAAGCGTGAAAAATCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCA
* *
3329 AAAAATTGAGAAAAAAAAATTCGGGTCAGTTTTTAGCTGAAATCGTATACTAACACTCACAGTTT
131 AAAAATTGAGAAAAAAAATTTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAGTTT
3394 TTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCCTT
196 TTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCCTT
* * *
3459 AAAATATCTATATTCATCGAACCAAATCTCAGTCACAATAGTCTTAAGGATTTCTTTTTACGAGC
261 GAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACGAGC
* *
3524 ATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCG-AAAAAAATTGAAAAACGTTATTAGAG
326 ATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGAAAAAAAATTGAAAAACGATATTAGAA
* *
3588 GCGTGAAAAATCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCAAGA
391 GCGTGAAAAACCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCAAAA
** * ** * *
3653 AATTGAGAAAAAAAAATTCAGGTCAATTTTTAGCTGAAATTTTGTTCTAACACTCACAGTTTTTA
456 AATTGAGAAAAAAAAATTTGGGTCAGTTTTTAGCTGAAATCGTATACTAACACTCACAGTTTTTA
* * * * * *
3718 GCTAAAAAGGCGGTTC-AGGCCCCGACTCAATTTTGCATGATTTTTGGTAGAATGACTCCTTAAA
521 GCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCCTTGAA
3782 ATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACG
586 ATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACG
3841 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGAGAAAAAAA-TGAAAAACGTTATT
1 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCG-GAAAAAAATTGAAAAACGTTATT
*
3905 AGAAGCGTG-AAAATCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGGATTGTGGC
65 AGAAGCGTGAAAAATCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGC
* * * *
3969 AAAAAATTGAGAAAAAATAATTTCGTGTAAGTTTTTAGCTGACATCGTGTACTAACACTCATAGT
130 AAAAAATTGAGAAAAAA-AATTTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAGT
* * * *
4034 TTTTAGCTAAAAAGGCGGTTC-AGGCCCCTACTCAATTTTGCATGATTTTTGGCAGAAGGACTCC
194 TTTTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCC
* *
4098 TTGAGATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAAGATTTCTTTTTACGA
259 TTGAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACGA
* *
4163 GCATCTGAATCTTGTTTCGATTTAATTAGAAATTAA-TCG-GAAAAAATTGAAAAACGGTATTAG
324 GCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGAAAAAAAATTGAAAAACGATATTAG
** ** * *
4226 ATTCGTGAAAAACCCTTCAATCTTTCTGGTATTGAATTATATATTTTTTATGATTATTGTGACAA
389 AAGCGTGAAAAACCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCAA
* *
4291 AAAATTGAGAAAAAAAAATTTTCGTGTCAGTTTTTAGCTGAAATCGTATACTAACACTCACGGTT
454 AAAATTGAGAAAAAAAAA-TTT-GGGTCAGTTTTTAGCTGAAATCGTATACTAACACTCACAGTT
* * *** * *
4356 TCTAGCAAAAAACGCGTTTCGATACCCCGACTTAATTTTGCATGATTTTTGGCCGAAGGACTCCT
517 TTTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCCT
* * * **
4421 TAAAATACCTATATTCATCGAACCAAATCTAAGTCACAATGGGCTTAAGGATTTCTTTCAACG
582 TGAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACG
* *
4484 AGCATCTGTATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATTGAAAAACGGTATTA
1 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATTGAAAAACGTTATTA
* *
4549 GAAGCGTGAAAAACCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTTTGGCA
66 GAAGCGTGAAAAATCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCA
* *
4614 AAAAATTCAGAAAAAAAAAATTT-GGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAAT
131 AAAAATT--GAGAAAAAAAATTTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAGT
* *
4678 TTTTAGCT-AAAATGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGACAGAAGGACTCC
194 TTTTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCC
* *
4742 TTGAAATATCAATATTCATCGAACCAAATCTCAGTCACAATGGGCTGAAGGATTTCTTTTTACGA
259 TTGAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACGA
* *
4807 GCATTTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGCAAAAAAAATTGAAAAACGGTATT
324 GCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC-G-AAAAAAAATTGAAAAACGATATT
4872 AGAAGCGTGAAAAACCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTTATGAGTATTGTGG
387 AGAAGCGTGAAAAACCCTTCAATCTTTCTGGCGTTGAATTATATA-TTTTTTATGAGTATTGTGG
*
4937 CAAAAAATTGAG--AAAAAAATTT---TC-G----T-G-T--AATCGTATACTAACACTCACGGT
451 CAAAAAATTGAGAAAAAAAAATTTGGGTCAGTTTTTAGCTGAAATCGTATACTAACACTCACAGT
* **
4988 TTTTAGCTAAAAACGCGTTTCGGGG-CCCGACTCAAGTTTGCATGATTTTTGGTTGAAGGACTCC
516 TTTTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCC
* * * * * * *
5052 TTAAAATATCTATATTCATGATTCATCGAAGCAAACCTCAGCCACATTAGACTTAAGGATTTAC-
581 TTGAAATATC-----T-AT-ATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTT-CT
5116 TTTTACG
638 TTTTACG
* * * *
5123 AGCATCTAAAACTTGTATCGATTTAATTAGAAATTAATTCGAAAAAAAATTGAAAAACGTTATTA
1 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATTGAAAAACGTTATTA
*
5188 GAAGCGTGAAAAATCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCA
66 GAAGCGTGAAAAATCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCA
* * *
5253 ACAAATTGAGAAGAAAAATTTTCGGGTCAGTTTTTAGCTGTAATCGTG---T-ACACTCACAGTT
131 AAAAATTGAGAA-AAAAAATTTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAGTT
* * *
5314 TTTAGCTAAAAACGCGTTTCGAGGCCTCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCGT
195 TTTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCCT
* * * *
5379 TGAAATATCTATTTTCATCGAACCAAGTCTCAGTGACAATGGGCTTAAGGATTTCATTTTACGAG
260 TGAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACGAG
* * *
5444 CATCTGAATCTTGTTTCAATTAAATTAGAAATTAATTCGGAAAAAAAATTTAAAAACGATATTAG
325 CATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTC-GAAAAAAAATTGAAAAACGATATTAG
* * * *
5509 AAGTGTGATAAACCCTTTAATCTTTTTGGCGTTGACA-TATATATTTTTTATGAGTATTGTGGCA
389 AAGCGTGAAAAACCCTTCAATCTTTCTGGCGTTGA-ATTATATATTTTTTATGAGTATTGTGGCA
* * * *
5573 AAAAATTGAGAAAAAAAAATTTTTGGGTCAATTTTTAGCTGAAAT--T-T--T----GT-TCGGT
453 AAAAATTGAGAAAAAAAAA--TTTGGGTCAGTTTTTAGCTGAAATCGTATACTAACACTCACAGT
* * *
5628 TTTTAGTTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGA-TTTTGCCAGAAGAACTCC
516 TTTTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCC
* * * * * * *
5692 TTGAAATATCTATATTCGTCGAACCAAATCTCAGCCACATTGGACTTATGGAATTCATTTTACG
581 TTGAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACG
* *
5756 AGCACCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATTGAAAAACGATATTA
1 AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATTGAAAAACGTTATTA
** * *
5821 GAAGCGTGAAAACCCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGCATTGTGGCA
66 GAAGCGTGAAAAATCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCA
* * * * *
5886 AAAAATTGAGAAACAAAATTTCGTGTCAGTTTTTAGCTGAAATCATATACTAACAATCAC-GATT
131 AAAAATTGAGAAAAAAAATTTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAG-TT
* *
5950 TTTAGCTAAAAACGCGTTTCGGAGCCCCGACTCAATTTTGCATGATTTTTGGCTGAAGGACTCCT
195 TTTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCCT
* * * * * *
6015 TGAAATATCTATATTCATCGAACCAAATCTCAGCCACATTAGACTTAAGGATTTCCTATTACGAG
260 TGAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACGAG
* * * *
6080 CATCTTAATCTTATTTCGATTTAATTAGAAATTAATTCCAAAAAAATTTGAAAAACGATATTAGA
325 CATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGAAAAAAAATTGAAAAACGATATTAGA
* * * * * *
6145 AGCGTGAAAAA-CCTTTAATCTTTTTTTGCGTTGAATTATATATTTTTTACGAGCATTATGGCAA
390 AGCGTGAAAAACCCTTCAATC-TTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGC-A
* **
6209 AAAAATTGAGAAAAAAAATTTTCATGTCAGTTTTTAGCTGAAATCGTATACTAA
453 AAAAATTGAGAAAAAAAAATTT-GGGTCAGTTTTTAGCTGAAATCGTATACTAA
6263 TAGTTTGGCC
Statistics
Matches: 4971, Mismatches: 542, Indels: 214
0.87 0.09 0.04
Matches are distributed among these distances:
623 21 0.00
624 159 0.03
625 74 0.01
626 102 0.02
627 88 0.02
628 128 0.03
632 74 0.01
633 218 0.04
634 46 0.01
635 168 0.03
636 336 0.07
637 7 0.00
638 72 0.01
639 403 0.08
640 211 0.04
641 409 0.08
642 382 0.08
643 518 0.10
644 795 0.16
645 178 0.04
646 148 0.03
647 95 0.02
648 307 0.06
649 29 0.01
650 3 0.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.35
Consensus pattern (644 bp):
AGCATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGGAAAAAAATTGAAAAACGTTATTA
GAAGCGTGAAAAATCCTTCAATCTTTTTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCA
AAAAATTGAGAAAAAAAATTTCGGGTCAGTTTTTAGCTGAAATCGTGTACTAACACTCACAGTTT
TTAGCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCCTT
GAAATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACGAGC
ATCTGAATCTTGTTTCGATTTAATTAGAAATTAATTCGAAAAAAAATTGAAAAACGATATTAGAA
GCGTGAAAAACCCTTCAATCTTTCTGGCGTTGAATTATATATTTTTTATGAGTATTGTGGCAAAA
AATTGAGAAAAAAAAATTTGGGTCAGTTTTTAGCTGAAATCGTATACTAACACTCACAGTTTTTA
GCTAAAAACGCGTTTCGGGGCCCCGACTCAATTTTGCATGATTTTTGGCAGAAGGACTCCTTGAA
ATATCTATATTCATCGAACCAAATCTCAGTCACAATGGGCTTAAGGATTTCTTTTTACG
Found at i:8768 original size:13 final size:13
Alignment explanation
Indices: 8732--8777 Score: 65
Period size: 13 Copynumber: 3.4 Consensus size: 13
8722 GAAGGAAAGG
8732 TTGTTGCTTTATTT
1 TTGTTGCTTTA-TT
*
8746 TATTTTGCTTTATT
1 T-TGTTGCTTTATT
8760 TTGTTGCTTTATT
1 TTGTTGCTTTATT
8773 TTGTT
1 TTGTT
8778 AGGAACTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 16 0.55
14 4 0.14
15 9 0.31
ACGTcount: A:0.09, C:0.07, G:0.13, T:0.72
Consensus pattern (13 bp):
TTGTTGCTTTATT
Found at i:10323 original size:33 final size:33
Alignment explanation
Indices: 10286--10440 Score: 188
Period size: 33 Copynumber: 4.7 Consensus size: 33
10276 GCCTAAGAGC
10286 CATGAAGAAGAGGAGCATGAAGAAGCAAGCAAA
1 CATGAAGAAGAGGAGCATGAAGAAGCAAGCAAA
* * * *
10319 CATGAAGACGATGAGCAGGAAGAAGAAAGCAAA
1 CATGAAGAAGAGGAGCATGAAGAAGCAAGCAAA
* *
10352 CATGAGGAAGAGGAGCATGAGGAAGCAAGCAAA
1 CATGAAGAAGAGGAGCATGAAGAAGCAAGCAAA
*
10385 CATGAAGGAGAGGAGC-TAGAAGAAGCAA-CTAAA
1 CATGAAGAAGAGGAGCAT-GAAGAAGCAAGC-AAA
* * *
10418 CACGAAGAAGAAGAGCAGGAAGA
1 CATGAAGAAGAGGAGCATGAAGA
10441 CGAAGGCAGC
Statistics
Matches: 102, Mismatches: 17, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
32 2 0.02
33 100 0.98
ACGTcount: A:0.50, C:0.12, G:0.32, T:0.06
Consensus pattern (33 bp):
CATGAAGAAGAGGAGCATGAAGAAGCAAGCAAA
Found at i:10455 original size:21 final size:22
Alignment explanation
Indices: 10431--10471 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
10421 GAAGAAGAAG
10431 AGCAGGAAGACGAAG-GCAGCA
1 AGCAGGAAGACGAAGAGCAGCA
* *
10452 AGCATGATGACGAAGAGCAG
1 AGCAGGAAGACGAAGAGCAG
10472 GATGCTGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.41, C:0.17, G:0.37, T:0.05
Consensus pattern (22 bp):
AGCAGGAAGACGAAGAGCAGCA
Found at i:22987 original size:12 final size:12
Alignment explanation
Indices: 22970--22995 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22960 TAATTCAATG
22970 TTCTAAATATTA
1 TTCTAAATATTA
22982 TTCTAAATATTA
1 TTCTAAATATTA
22994 TT
1 TT
22996 TATAAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (12 bp):
TTCTAAATATTA
Found at i:23010 original size:12 final size:12
Alignment explanation
Indices: 22973--23011 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
22963 TTCAATGTTC
*
22973 TAAATATTATTC
1 TAAATATTATTA
22985 TAAATATTATTTA
1 TAAATATTA-TTA
*
22998 TAAATAGTATTA
1 TAAATATTATTA
23010 TA
1 TA
23012 TTTGGAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (12 bp):
TAAATATTATTA
Found at i:30873 original size:33 final size:33
Alignment explanation
Indices: 30826--30891 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
30816 AGGAGGCAAA
* *
30826 GAATTAGCAAACATTATAC-AGCAAATGCTAAGT
1 GAATCAGCAAACATTAGACAAG-AAATGCTAAGT
*
30859 GAATCAGCAAACATTAGACAAGATATGCTAAGT
1 GAATCAGCAAACATTAGACAAGAAATGCTAAGT
30892 AAATAAGTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.45, C:0.15, G:0.17, T:0.23
Consensus pattern (33 bp):
GAATCAGCAAACATTAGACAAGAAATGCTAAGT
Found at i:34804 original size:3 final size:3
Alignment explanation
Indices: 34790--34824 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
34780 CAATAAAAAG
*
34790 CTT CTT CCT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
34825 CTCACTCTCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
CTT
Found at i:42495 original size:3 final size:3
Alignment explanation
Indices: 42487--42513 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
42477 TTTTGTCATG
42487 TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT
42514 AGTCGTCTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:45992 original size:22 final size:22
Alignment explanation
Indices: 45951--45991 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
45941 TCTTTGCTTT
45951 TTATTCAAAATTCACATTTTGC
1 TTATTCAAAATTCACATTTTGC
*
45973 TTATTC-AAATTGACATTTT
1 TTATTCAAAATTCACATTTT
45992 TTTTAACGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.32, C:0.15, G:0.05, T:0.49
Consensus pattern (22 bp):
TTATTCAAAATTCACATTTTGC
Found at i:59701 original size:2 final size:2
Alignment explanation
Indices: 59694--59719 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
59684 CATTTACCAC
59694 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
59720 GAAGATTCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:71233 original size:13 final size:13
Alignment explanation
Indices: 71215--71241 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
71205 TCAACTTAAA
71215 GGAGAAATTCATC
1 GGAGAAATTCATC
71228 GGAGAAATTCATC
1 GGAGAAATTCATC
71241 G
1 G
71242 AGGATTCTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (13 bp):
GGAGAAATTCATC
Found at i:79913 original size:14 final size:14
Alignment explanation
Indices: 79894--79923 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
79884 TTTTTTCATT
*
79894 AAAAAAAATCAAGA
1 AAAAAAAAGCAAGA
79908 AAAAAAAAGCAAGA
1 AAAAAAAAGCAAGA
79922 AA
1 AA
79924 TAAAGATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.80, C:0.07, G:0.10, T:0.03
Consensus pattern (14 bp):
AAAAAAAAGCAAGA
Found at i:80941 original size:18 final size:18
Alignment explanation
Indices: 80920--80979 Score: 54
Period size: 18 Copynumber: 3.2 Consensus size: 18
80910 ACACTCAATT
80920 TTTGAATATTCCACGTCA
1 TTTGAATATTCCACGTCA
80938 TTTGTATTATATGTGCCACG---
1 TTTG-A--ATAT-T-CCACGTCA
80958 TTTGAATATTCCACGTCA
1 TTTGAATATTCCACGTCA
80976 TTTG
1 TTTG
80980 TATTATATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 16
0.68 0.00 0.32
Matches are distributed among these distances:
15 5 0.15
16 1 0.03
17 4 0.12
18 8 0.24
19 2 0.06
20 4 0.12
21 4 0.12
22 1 0.03
23 5 0.15
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.43
Consensus pattern (18 bp):
TTTGAATATTCCACGTCA
Found at i:80971 original size:38 final size:38
Alignment explanation
Indices: 80920--80996 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
80910 ACACTCAATT
80920 TTTGAATATTCCACGTCATTTGTATTATATGTGCCACG
1 TTTGAATATTCCACGTCATTTGTATTATATGTGCCACG
80958 TTTGAATATTCCACGTCATTTGTATTATATGTGCCACG
1 TTTGAATATTCCACGTCATTTGTATTATATGTGCCACG
80996 T
1 T
80997 GTCATCCTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.43
Consensus pattern (38 bp):
TTTGAATATTCCACGTCATTTGTATTATATGTGCCACG
Found at i:94462 original size:25 final size:27
Alignment explanation
Indices: 94410--94462 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
94400 TTATTCAACT
* **
94410 AAAAACTCTATTTTTATTTTTCTGTAA
1 AAAAACTCTATTTTCATTTTAATGTAA
94437 AAAAACTCTATTTTCA-TTTAAT-TAA
1 AAAAACTCTATTTTCATTTTAATGTAA
94462 A
1 A
94463 TCTAATATCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 4 0.17
26 4 0.17
27 15 0.65
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (27 bp):
AAAAACTCTATTTTCATTTTAATGTAA
Done.