Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01004511.1 Kokia drynarioides strain JFW-HI SEQ_117954, 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: 13068
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.29
Found at i:139 original size:63 final size:61
Alignment explanation
Indices: 56--245 Score: 182
Period size: 62 Copynumber: 3.0 Consensus size: 61
46 ATCGTAAAAG
* * * * * *
56 TTTGACAAGTTCAGATGTTCGTCCAAGAATTAAGAGAGAAACGATTGTTACATAAAATAAGTT
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAA-TAAGAGAGAAACAATTCTCACAT-AAACAAGTT
* *
119 TTTGACAAGTTCGGAAGTTCGTCCAAGAATAATGAGAGAAGCAATTCTCACGTAAACAAGTT
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAATAA-GAGAGAAACAATTCTCACATAAACAAGTT
* * * * * * * * * *
181 TTTGACAAGTTCGAAACTTCGGCCAACAACCAAGAGAGAACCAATTTTCACGTAAATAAATT
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAA-TAAGAGAGAAACAATTCTCACATAAACAAGTT
243 TTT
1 TTT
246 AATTCATCGA
Statistics
Matches: 108, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
62 64 0.59
63 44 0.41
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (61 bp):
TTTGACAAGTTCGGAAGTTCGTCCAAGAATAAGAGAGAAACAATTCTCACATAAACAAGTT
Found at i:482 original size:62 final size:62
Alignment explanation
Indices: 403--587 Score: 264
Period size: 62 Copynumber: 3.0 Consensus size: 62
393 AAAGTTTGAA
* *
403 AAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTAACGTAAATAAGTTTTTAAC
1 AAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAAC
* * * *
465 AAGTTTGGAAGTTCGTCCAAGAACCGAGAGGGAAACAATTCTCACGTAAATAAGTTTTTGATC
1 AAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT-AAC
* * * *
528 -AGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAACTAAGTTATTAA
1 AAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAA
588 TTAACAGTCC
Statistics
Matches: 108, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
61 1 0.01
62 105 0.97
63 2 0.02
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.25
Consensus pattern (62 bp):
AAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAAC
Found at i:622 original size:340 final size:339
Alignment explanation
Indices: 1--863 Score: 1086
Period size: 340 Copynumber: 2.5 Consensus size: 339
* * *
1 AATGGATCGTCATGAATACTTTCAGGAACCGAAGTTATAAAAGAAATCGTAAAAGTTTGACAAGT
1 AATGGATCATCTTGAATACTTTCAGGAA-CTAAGTTATAAAAGAAATCGTAAAAGTTTGACAAGT
* ** * * * *
66 TCAGATGTTCGTCCAAGAATTAAGAGAGAAACGATTGTTACATAAAATAAGTTTTTGACAAGTTC
65 TCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTAACGT-AAATAAGTTTTTGACAAGTTC
* * *
131 GGAAGTTCGTCCAAGAA-TAATGAGAGAAGCAATTCTCACGTAAACAAGTTTTTGACAAGTTCGA
129 GGAAGTTCGTCCAAGAACCAA-GAGAGAAACAATTCTCACGTAAATAAGTTTTTGACAAGTTCGA
* * * * *
195 AACTTCGGCCAACAACCAAGAGAGAACCAATTTTCACGTAAATAAATTTTTAATTCATCGACCAA
193 AACTTCAGCCAACAACCAAGAGAGAAACAATTCTCACGTAAATAAATTATTAATTCAACGACCAA
* *
260 AACTTGTTTACAGAAAGACAAACTATTTAGACCAAATTATGCGATTTCCCGAGCATGGAATGTTC
258 AACTTGTTTACAGAAAGACAAACTATTTAGACCAAATGATGCGATTTCCCGAACATGGAATGTTC
*
325 AAAAAATTGCTTAAAGG
323 AAAAAATTGCTCAAAGG
* * *
342 AATGGATCCTCTTGAATACTTTCAGGAACTAAAGTTATAAAAAAAATCGTAAAAGTTTGAAAAGT
1 AATGGATCATCTTGAATACTTTCAGGAACT-AAGTTATAAAAGAAATCGTAAAAGTTTGACAAGT
* *
407 TCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTAACGTAAATAAGTTTTTAACAAGTTTG
65 TCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTAACGTAAATAAGTTTTTGACAAGTTCG
* *
472 GAAGTTCGTCCAAGAACCGAGAGGGAAACAATTCTCACGTAAATAAGTTTTTGATC-AGTTCGAA
130 GAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTGA-CAAGTTCGAA
* * * * * *
536 AGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAACTAAGTTATTAATT-AACAGTCCAA
194 ACTTCAGCCAACAACCAAGAGAGAAACAATTCTCACGTAAATAAATTATTAATTCAAC-GACCAA
* * * * *
600 AACTTGTTTACA-AAATGACAAACTATTTTGACCAAATGGTGTGATTTCTCGAACTTGGAATGTT
258 AACTTGTTTACAGAAA-GACAAACTATTTAGACCAAATGATGCGATTTCCCGAACATGGAATGTT
** * *
664 TGAAAATTTGCTCAATGG
322 CAAAAAATTGCTCAAAGG
* * * * * *
682 AATGCATCATCTTGAATGCTTTAAGGAACCTAAGCTATAAAAGAACTCGTGAAAGTTTGACAAGT
1 AATGGATCATCTTGAATACTTTCAGGAA-CTAAGTTATAAAAGAAATCGTAAAAGTTTGACAAGT
* * * * * * *
747 TTGAAAGTTCATCCAAGAACCAAAAGAGAAACAATTCTCACGTAAATAAGTTTTTGATAAGTTCG
65 TCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTAACGTAAATAAGTTTTTGACAAGTTCG
* * * *
812 AAAGTTCTTCCAAGAACCAAGAGAGAAACAGTTCTCACCTAAATAAGTTTTT
130 GAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
864 AATTCAAAGA
Statistics
Matches: 450, Mismatches: 66, Indels: 13
0.85 0.12 0.02
Matches are distributed among these distances:
339 5 0.01
340 347 0.77
341 98 0.22
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (339 bp):
AATGGATCATCTTGAATACTTTCAGGAACTAAGTTATAAAAGAAATCGTAAAAGTTTGACAAGTT
CGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTAACGTAAATAAGTTTTTGACAAGTTCGG
AAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTGACAAGTTCGAAAC
TTCAGCCAACAACCAAGAGAGAAACAATTCTCACGTAAATAAATTATTAATTCAACGACCAAAAC
TTGTTTACAGAAAGACAAACTATTTAGACCAAATGATGCGATTTCCCGAACATGGAATGTTCAAA
AAATTGCTCAAAGG
Found at i:815 original size:62 final size:62
Alignment explanation
Indices: 737--863 Score: 200
Period size: 62 Copynumber: 2.0 Consensus size: 62
727 CTCGTGAAAG
* *
737 TTTGACAAGTTTGAAAGTTCATCCAAGAACCAAAAGAGAAACAATTCTCACGTAAATAAGTT
1 TTTGACAAGTTCGAAAGTTCATCCAAGAACCAAAAGAGAAACAATTCTCACCTAAATAAGTT
* * * *
799 TTTGATAAGTTCGAAAGTTCTTCCAAGAACCAAGAGAGAAACAGTTCTCACCTAAATAAGTT
1 TTTGACAAGTTCGAAAGTTCATCCAAGAACCAAAAGAGAAACAATTCTCACCTAAATAAGTT
861 TTT
1 TTT
864 AATTCAAAGA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (62 bp):
TTTGACAAGTTCGAAAGTTCATCCAAGAACCAAAAGAGAAACAATTCTCACCTAAATAAGTT
Found at i:1086 original size:62 final size:62
Alignment explanation
Indices: 1014--1137 Score: 187
Period size: 62 Copynumber: 2.0 Consensus size: 62
1004 ATCGTAAAAG
*
1014 TTTGACAAGTTC-AGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
1 TTTGACAAGTTCGA-AAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
* * * *
1076 TTTGATAAGTTCGAAAGTTCGTCCATGAACCAAGAGAGAAATAATTCTCACGTAACTAAGTT
1 TTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
1138 ATTAATCAAC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
62 55 0.98
63 1 0.02
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (62 bp):
TTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
Found at i:1325 original size:278 final size:278
Alignment explanation
Indices: 459--1912 Score: 1266
Period size: 278 Copynumber: 5.2 Consensus size: 278
449 TAAATAAGTT
* * * *
459 TTTAACAAGTTTGGAAGTTCGTCCAAGAACCGAGAGGGAAACAATTCTCACGTAAATAAGTTTTT
1 TTTAACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
*
524 GATCAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAACTAAGTTATTAAT
66 GATAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAACTAAGTTATTAAT
* *
589 TAACAGTCCAAAACTTGTTTACAAAATGACAAACTATTTTGACCAAATGGTGTGATTTCTCGAAC
131 CAACAGTCCAAAACTTGTTTACAAAATGACAAACTATTTTGACCAAATGGTGTGATTTCTCGAGC
** * * * * *
654 TTGGAATGTTTGAAAATTTGCTCAATGGAATG-CATCATCTTGAATGCTTTAAGGAACCTAAGCT
196 AAGGAATGTTTGGAAATTTGCTCAAAGGAATGAC-TCGTCTTGAATACTTTAAGGAACCTAAGTT
718 ATAAAAGAACTCGTGAAAG
260 ATAAAAGAACTCGTGAAAG
* * * *
737 TTTGACAAGTTTGAAAGTTCATCCAAGAACCAAAAGAGAAACAATTCTCACGTAAATAAGTTTTT
1 TTTAACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* * * * *
802 GATAAGTTCGAAAGTTCTTCCAAGAACCAAGAGAGAAACAGTTCTCACCTAAATAAGTTTTTAAT
66 GATAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAACTAAGTTATTAA-
* * * * * * *
867 TCAA-AGACCAAAA-TAT-TTTCCAAAATGAAAAACTATTTAGACCAAATGATGCGATTTCCCGA
130 TCAACAGTCCAAAACT-TGTTTACAAAATGACAAACTATTTTGACCAAATGGTGTGATTTCTCGA
* * * * *
929 GTAAGGAATGTTTGGAAAATAGCTCAAAGGAATGGA-TCGTCATGAATACTTTCAA-GAACCGAA
194 GCAAGGAATGTTTGGAAATTTGCTCAAAGGAAT-GACTCGTCTTGAATACTTT-AAGGAACCTAA
*
992 GTTATAAAAGTAA-TCGTAAAAG
257 GTTATAAAAG-AACTCGTGAAAG
* *
1014 TTTGACAAGTTC-AGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
1 TTTAACAAGTTCGA-AAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
* * *
1078 TGATAAGTTCGAAAGTTCGTCCATGAACCAAGAGAGAAATAATTCTCACGTAACTAAGTTATTAA
65 TGATAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAACTAAGTTATTAA
* * * * *
1143 TCAACAGTCCAAAACTTGGTTACAAAATGACAAGCTATTTTGACCTAATGGTGTGATTTCTGGCG
130 TCAACAGTCCAAAACTTGTTTACAAAATGACAAACTATTTTGACCAAATGGTGTGATTTCTCGAG
*
1208 CAAGGAATGTTTGGAAATTTGCTCAAAGGAATGACTCGTCTTGAACACTTTAAGGAACCTAAGTT
195 CAAGGAATGTTTGGAAATTTGCTCAAAGGAATGACTCGTCTTGAATACTTTAAGGAACCTAAGTT
1273 ATAAAAGAACTCGTGAAAG
260 ATAAAAGAACTCGTGAAAG
** *
1292 TTTAACAAGTTCGAAAGTTCGTCCATTAACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTT
1 TTTAACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* ** * * * ** * * * * * * * * **
1357 AATGTAAAGACCAAAACTT-GT-TTACAA--AA-TGACAAACTATT-TAGAC-CAAATGATGGGA
66 GA--T-AAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCT-CACGTAACT-AAGTTA
* ** ** * ** ** * * ** ** * **
1415 TT-TTC-TGAG--CATGGA-TTGTTCGA-AAAATTTCTAGAAGGA-ATGGATTATCTTGAAT-AC
126 TTAATCAACAGTCCA-AAACTTGTT-TACAAAATGAC-A-AACTATTTTGACCAAATGGTGTGA-
* ** * ** ** * **** ** * *
1472 TTT-TTG-G-AAACAAAGTTATATAAGAAAT-CGCAAAATTTTGACAAGT-TTGGAT-GTTCGTC
186 TTTCTCGAGCAAGGAATGTT-TGGAA-ATTTGCTCAAAGGAATGACTCGTCTTGAATACTT--T-
* * *
1531 CAA-GAACC-AAG--AGAGAAATAATTCTTTCGTAAATAAG
246 -AAGGAACCTAAGTTATA-AAAGAA--C--TCGT-GA-AAG
* * * * *
1568 TTTTTGACAAGTTTGGAAGTTCATCCAAGAACCGAGAGAGAAACAATTCTCACGTAAATAAGTTT
1 --TTTAACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTT
* * *
1633 TTGATAAGTTCGAAAGTTCATCCATGAACCAAGAGAGAAATAATTCTCATGTAACTAAGTTATTA
64 TTGATAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAACTAAGTTATTA
*
1698 ATCAACAGTCCAAAAGTTGTTTACAAAATGACAAACTATTTTGACCAAATGGTGTGATTTCTCGA
129 ATCAACAGTCCAAAACTTGTTTACAAAATGACAAACTATTTTGACCAAATGGTGTGATTTCTCGA
* *
1763 GCATGGAATGTTTGGAAATTTGCTCAAAGGAATGGA-TCGTCTTGAATACATTAAGGAACCTAAG
194 GCAAGGAATGTTTGGAAATTTGCTCAAAGGAAT-GACTCGTCTTGAATACTTTAAGGAACCTAAG
*
1827 TTATAAAAGAACTCGTAAAAG
258 TTATAAAAGAACTCGTGAAAG
* * **
1848 TTTGACAAGTTCGAAAGTTCATCCATTAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
1 TTTAACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
1913 AATGTAAAGA
Statistics
Matches: 906, Mismatches: 205, Indels: 130
0.73 0.17 0.10
Matches are distributed among these distances:
269 4 0.00
270 16 0.02
271 19 0.02
272 23 0.03
273 14 0.02
274 8 0.01
275 16 0.02
276 25 0.03
277 238 0.26
278 413 0.46
279 8 0.01
280 20 0.02
281 17 0.02
282 9 0.01
283 15 0.02
284 24 0.03
285 16 0.02
286 18 0.02
287 3 0.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (278 bp):
TTTAACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
GATAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAACTAAGTTATTAAT
CAACAGTCCAAAACTTGTTTACAAAATGACAAACTATTTTGACCAAATGGTGTGATTTCTCGAGC
AAGGAATGTTTGGAAATTTGCTCAAAGGAATGACTCGTCTTGAATACTTTAAGGAACCTAAGTTA
TAAAAGAACTCGTGAAAG
Found at i:1456 original size:216 final size:216
Alignment explanation
Indices: 1082--1572 Score: 562
Period size: 216 Copynumber: 2.3 Consensus size: 216
1072 AGTTTTTGAT
* * *
1082 AAGTTCGAAAGTTCGTCCATGAACCAAGAGAGAAATAATTCTCACGTAACTAAGTTATTAATCAA
1 AAGTTCGAAAGTTCGTCCATGAACCAAGAGAGAAATAATTCTCATGTAAATAAGTTTTTAATCAA
* * * * * * *
1147 CAGTCCAAAACTTGGTTACAAAATGACAAGCTATTTTGACCTAATGGTGTGATTTCTGGCGCAAG
66 CAGACCAAAACTTGGTTACAAAATGACAAACTATTTAGACCAAATGATGGGATTTCTGGAGCAAG
* * * * *
1212 GAATGTTTGGAAATTTGCTCAAAGGAAT-GACTCGTCTTGAACACTTTAAGGAACCTAAGTTATA
131 GAATGTTCGAAAATTTGCTCAAAGGAATGGA-TCATCTTGAACACTTTAAGGAAACAAAGTTATA
* **
1276 AAAGAACTCGTGAAAGTTTAAC
195 AAAGAAATCGCAAAAGTTTAAC
* * *
1298 AAGTTCGAAAGTTCGTCCATTAACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAATGTA
1 AAGTTCGAAAGTTCGTCCATGAACCAAGAGAGAAATAATTCTCATGTAAATAAGTTTTTAAT-CA
*
1363 A-AGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGGGATTTTCT-GAGCA
65 ACAGACCAAAACTTGGTTACAAAATGACAAACTATTTAGACCAAATGATGGGA-TTTCTGGAGCA
* * * * **
1426 TGGATTGTTCGAAAAATTT-CT-AGAAGGAATGGATTATCTTGAATACTTTTTGGAAACAAAGTT
129 AGGAATGTTCG-AAAATTTGCTCA-AAGGAATGGATCATCTTGAACACTTTAAGGAAACAAAGTT
* * *
1489 ATATAAGAAATCGCAAAATTTTGAC
192 ATAAAAGAAATCGCAAAAGTTTAAC
* * * * *
1514 AAGTTTGGATGTTCGTCCAAGAACCAAGAGAGAAATAATTCT-TTCGTAAATAAGTTTTT
1 AAGTTCGAAAGTTCGTCCATGAACCAAGAGAGAAATAATTCTCAT-GTAAATAAGTTTTT
1573 GACAAGTTTG
Statistics
Matches: 231, Mismatches: 38, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
215 2 0.01
216 214 0.93
217 15 0.06
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (216 bp):
AAGTTCGAAAGTTCGTCCATGAACCAAGAGAGAAATAATTCTCATGTAAATAAGTTTTTAATCAA
CAGACCAAAACTTGGTTACAAAATGACAAACTATTTAGACCAAATGATGGGATTTCTGGAGCAAG
GAATGTTCGAAAATTTGCTCAAAGGAATGGATCATCTTGAACACTTTAAGGAAACAAAGTTATAA
AAGAAATCGCAAAAGTTTAAC
Found at i:1583 original size:62 final size:62
Alignment explanation
Indices: 1507--1693 Score: 266
Period size: 62 Copynumber: 3.0 Consensus size: 62
1497 AATCGCAAAA
* * **
1507 TTTTGACAAGTTTGGATGTTCGTCCAAGAACCAAGAGAGAAATAATTCTTTCGTAAATAAGT
1 TTTTGACAAGTTTGGAAGTTCATCCAAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGT
* *
1569 TTTTGACAAGTTTGGAAGTTCATCCAAGAACCGAGAGAGAAACAATTCTCACGTAAATAAGT
1 TTTTGACAAGTTTGGAAGTTCATCCAAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGT
* * * * * *
1631 TTTTGATAAGTTCGAAAGTTCATCCATGAACCAAGAGAGAAATAATTCTCATGTAACTAAGT
1 TTTTGACAAGTTTGGAAGTTCATCCAAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGT
1693 T
1 T
1694 ATTAATCAAC
Statistics
Matches: 111, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 111 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.30
Consensus pattern (62 bp):
TTTTGACAAGTTTGGAAGTTCATCCAAGAACCAAGAGAGAAATAATTCTCACGTAAATAAGT
Found at i:1795 original size:340 final size:340
Alignment explanation
Indices: 1298--1912 Score: 860
Period size: 340 Copynumber: 1.8 Consensus size: 340
1288 AAAGTTTAAC
* * * *
1298 AAGTTCGAAAGTTCGTCCATTAACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAATGTA
1 AAGTTCGAAAGTTCATCCATGAACCAAGAGAGAAACAATTCTCATGTAAATAAGTTATTAATGCA
1363 AAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGGGATTTTCTGAGCATG
66 AAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGGGATTTTCTGAGCATG
* * * ** *
1428 GATTGTTCGAAAAATTTCTAGAAGGAATGGATTATCTTGAATACTTTTTGGAAACAAAGTTATAT
131 GAATGTTCGAAAAATTTCTAGAAGGAATGGATCATCTTGAATACATTAAGGAAACAAAGTTATAA
* * * * * * **
1493 AAGAAATCGCAAAATTTTGACAAGTTTGGATGTTCGTCCAAGAACCAAGAGAGAAATAATTCTTT
196 AAGAAATCGCAAAAGTTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCA
1558 CGTAAATAAGTTTTTGACAAGTTTGGAAGTTCATCCAAGAACCGAGAGAGAAACAATTCTCACGT
261 CGTAAATAAGTTTTTGACAAGTTTGGAAGTTCATCCAAGAACCGAGAGAGAAACAATTCTCACGT
1623 AAATAAGTTTTTGAT
326 AAATAAGTTTTTGAT
* *
1638 AAGTTCGAAAGTTCATCCATGAACCAAGAGAGAAATAATTCTCATGTAACTAAGTTATTAAT-CA
1 AAGTTCGAAAGTTCATCCATGAACCAAGAGAGAAACAATTCTCATGTAAATAAGTTATTAATGCA
* * * * *
1702 ACAGTCCAAAAGTTGTTTACAAAATGACAAACTATTTTGACCAAATGGTGTGA-TTTCTCGAGCA
66 A-AGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGGGATTTTCT-GAGCA
* * * * *
1766 TGGAATGTTTG-GAAATTTGCTCA-AAGGAATGGATCGTCTTGAATACATTAAGGAACCTAAGTT
129 TGGAATGTTCGAAAAATTT-CT-AGAAGGAATGGATCATCTTGAATACATTAAGGAAACAAAGTT
* * **
1829 ATAAAAGAACTCGTAAAAGTTTGACAAGTTCGAAAGTTCATCCATTAACCAAGAGAGAAACAATT
192 ATAAAAGAAATCGCAAAAGTTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATT
1894 CTCACGTAAATAAGTTTTT
257 CTCACGTAAATAAGTTTTT
1913 AATGTAAAGA
Statistics
Matches: 237, Mismatches: 34, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
339 13 0.05
340 223 0.94
341 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (340 bp):
AAGTTCGAAAGTTCATCCATGAACCAAGAGAGAAACAATTCTCATGTAAATAAGTTATTAATGCA
AAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGGGATTTTCTGAGCATG
GAATGTTCGAAAAATTTCTAGAAGGAATGGATCATCTTGAATACATTAAGGAAACAAAGTTATAA
AAGAAATCGCAAAAGTTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCA
CGTAAATAAGTTTTTGACAAGTTTGGAAGTTCATCCAAGAACCGAGAGAGAAACAATTCTCACGT
AAATAAGTTTTTGAT
Found at i:2012 original size:216 final size:216
Alignment explanation
Indices: 1632--2128 Score: 649
Period size: 216 Copynumber: 2.3 Consensus size: 216
1622 TAAATAAGTT
* * * *
1632 TTTGATAAGTTCGAAAGTTCATCCATGAACCAAGAGAGAAATAATTCTCATGTAACTAAGTTATT
1 TTTGACAAGTTCGAAAGTTCATCCATGAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTTT
* * * * *
1697 AATCAACAGTCCAAAAGTTGTTTACAAAATGACAAACTATTTTGACCAAATGGTGTGATTTCTCG
66 AATCAACAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGGGATTTCTCG
* * * * *
1762 AGCATGGAATGTTTGGAAATTTGCTCAAAGGAATGGATCGTCTTGAATACATTAAGGAACCTAAG
131 AGCATGGAATGTTCGAAAATTTGCTCAAAGGAATGGATCATCTTGAATACATTAAGGAAACAAAG
*
1827 TTATAAAAGAACTCGTAAAAG
196 TTATAAAAGAAATCGTAAAAG
* *
1848 TTTGACAAGTTCGAAAGTTCATCCATTAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
1 TTTGACAAGTTCGAAAGTTCATCCATGAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTTT
* * * *
1913 AATGTAA-AGACCAAAACTTGTTTTCAAAATGACAAACTATTTAGACCAAATGATGGGATTTTTT
66 AAT-CAACAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGGGATTTCTC
* * * **
1977 GAGCATGGATTGTTCGAAAAATTT-CT-AGAAGGAATGGATTATCTTGAATACTTTTTGGAAACA
130 GAGCATGGAATGTTCG-AAAATTTGCTCA-AAGGAATGGATCATCTTGAATACATTAAGGAAACA
2040 AAGTTATAAAAGAAATCGTAAAAG
193 AAGTTATAAAAGAAATCGTAAAAG
* * * * * **
2064 CTTGACAAGTTTGGATGTTCATCCAAGAACCAAGAGAGAAATAATTCTTTCGTAAATAAGTTTTT
1 TTTGACAAGTTCGAAAGTTCATCCATGAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTTT
2129 GACAAGTTCG
Statistics
Matches: 243, Mismatches: 35, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
215 1 0.00
216 234 0.96
217 8 0.03
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (216 bp):
TTTGACAAGTTCGAAAGTTCATCCATGAACCAAGAGAGAAATAATTCTCACGTAAATAAGTTTTT
AATCAACAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGGGATTTCTCG
AGCATGGAATGTTCGAAAATTTGCTCAAAGGAATGGATCATCTTGAATACATTAAGGAAACAAAG
TTATAAAAGAAATCGTAAAAG
Found at i:2180 original size:62 final size:62
Alignment explanation
Indices: 2065--2190 Score: 171
Period size: 62 Copynumber: 2.0 Consensus size: 62
2055 TCGTAAAAGC
* * * **
2065 TTGACAAGTTTGGATGTTCATCCAAGAACCAAGAGAGAAATAATTCTTTCGTAAATAAGTTT
1 TTGACAAGTTCGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTT
** * *
2127 TTGACAAGTTCGGAAGTTCATCCAAGAACCAATTGAGAAACAATTCTCACGTAACTATGTTT
1 TTGACAAGTTCGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTT
2189 TT
1 TT
2191 AATTTGCAGT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.32
Consensus pattern (62 bp):
TTGACAAGTTCGGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTT
Found at i:2371 original size:278 final size:278
Alignment explanation
Indices: 1848--2406 Score: 681
Period size: 278 Copynumber: 2.0 Consensus size: 278
1838 CTCGTAAAAG
**
1848 TTTGACAAGTTCGAAAGTTCATCCATTAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
1 TTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* * *
1913 AATGTAAAGACCAAAACTTGTTTTCAAAATGACAAACTATTTAGACCAAATGATGGGATTTTTTG
66 AATGTAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGGGATTTCTCG
* * **
1978 AGCATGGATTGTTCGAAAAATTTCTAGAAGGAATGGATTATCTTGAATACTTTTTGGAAACAAAG
131 AGCATGGAATGTTCGAAAAATTTCTAGAAGGAATGGATCATCTTGAATACTTTAAGGAAACAAAG
* * ** *
2043 TTATAAAAGAAATCGTAAAAGCTTGACAAGTTTGGATGTTCATCCAAGAACCAAGAGAGAAATAA
196 TTATAAAAGAAATCGTAAAAGCTTCACAAGTTCGGAAATTCATCCAAGAACCAAGAGAGAAACAA
*
2108 TTCTTTCGTAAATAAGTT
261 TTCTTACGTAAATAAGTT
* ** * *
2126 TTTGACAAGTTCGGAAGTTCATCCAAGAACCAATTGAGAAACAATTCTCACGTAACTATGTTTTT
1 TTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* ** ** * * * * **
2191 AATTTGCAGTTCAACACTTGTTTACAAAATGATAAATTATTTTGACCAAATGATGTTATTTCTCG
66 AATGTAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGGGATTTCTCG
* * * * * * *
2256 AGCATGGAATGTTTGGAAAATTGT-TCGATGGAATGGATCGTCTTGAATACTTTAAGGAACCGAA
131 AGCATGGAATGTTCGAAAAATT-TCTAGAAGGAATGGATCATCTTGAATACTTTAAGGAAACAAA
* * ** * *
2320 GTTATAAAAGAACTCGTAAAAGTTTCACCTGTTCGGAAATT-AGTGCAAGAACGAAGAGAGAAAC
195 GTTATAAAAGAAATCGTAAAAGCTTCACAAGTTCGGAAATTCA-TCCAAGAACCAAGAGAGAAAC
*
2384 AATTCTTACGTAAATATGTT
259 AATTCTTACGTAAATAAGTT
2404 TTT
1 TTT
2407 TAATTCAAAC
Statistics
Matches: 234, Mismatches: 45, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
277 1 0.00
278 232 0.99
279 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (278 bp):
TTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
AATGTAAAGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGGGATTTCTCG
AGCATGGAATGTTCGAAAAATTTCTAGAAGGAATGGATCATCTTGAATACTTTAAGGAAACAAAG
TTATAAAAGAAATCGTAAAAGCTTCACAAGTTCGGAAATTCATCCAAGAACCAAGAGAGAAACAA
TTCTTACGTAAATAAGTT
Found at i:3047 original size:216 final size:215
Alignment explanation
Indices: 2126--3252 Score: 1219
Period size: 215 Copynumber: 5.2 Consensus size: 215
2116 TAAATAAGTT
* * * ** * *
2126 TTTGACAAGTTCGGAAGTTCATCCAAGAACCAATTGAGAAACAATTCTCACGTAACTATGTTTTT
1 TTTGAAAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
*** * * * * * **
2191 AATTTGCAGTTCAACA-CTTGTTTACAAAATGATAAATTATTTTGACCAAATGATGTTATTTCTC
66 AATTAAAAG-ACAA-ATCATGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTC
* * * *
2255 GAGCATGGAATGTTTGGAAAATTGTTCGATGGAATGGATCGTCTTGAATACTTTAAGGAACCGAA
129 GAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAA
2320 GTTATAAAAGAACTCGTAAAAG
194 GTTATAAAAGAACTCGTAAAAG
* *** * * * * * * *
2342 TTTCACCTGTTCGGAAATTAGTGCAAGAACGAAGAGAGAAACAATTCTTACGTAAATATGTTTTT
1 TTTGAAAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAG-TTTT
* * * * * * * *
2407 TAATTCAAACACCATTACTTGTTTACAAACTGACAAACTATTTAGACCAAATTATGCGATTTCCC
65 TAATTAAAAGACAAAT-CATGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTC
* **
2472 GAGCGTGGAATGTTCGAAAAATTGCTCGAAGGAATATATCGTCTTGAATAC-TTACAGGAACCGA
129 GAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTA-AGGAACCGA
*
2536 AGTTATAAAAGAAATCGTAAAAG
193 AGTTATAAAAGAACTCGTAAAAG
* * * * *
2559 TTTGACAACTTCAGATGTTCGTCCAAGAGCCAAGAGAGAAACAATTCTTACGTAAATAAGTTTTT
1 TTTGAAAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* * * * *
2624 AATTCAAAA-ACCAAAACATGTTTACGAAATGACAAACTTTTTAGACCATATGATACGATTT-TA
66 AATT-AAAAGA-CAAATCATGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCT-
* ** * * * *
2687 TGAGCACAGAATGTTCAAAAAATT-CTCGAAGGAATGGATCGTCTTGAATACTTTATGGTACCGT
128 CGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGA
*
2751 TGTTATAAAAGAACTCGTAAAAG
193 AGTTATAAAAGAACTCGTAAAAG
*
2774 TTTGAAAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
1 TTTGAAAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* *
2839 AATTAAAAGACGAAATCCTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCTATTTCTCG
66 AATTAAAAGAC-AAATCATGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCG
* * * * **
2904 AGCATGGAAAT-TTCGAAAAACTGCCCGAAGGAATGGATCATCTTGAATACTTTAAGTATTCGAA
130 AGCATGG-AATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAA
* *
2968 GTTATAAAACAACTCTTAAAAG
194 GTTATAAAAGAACTCGTAAAAG
* * * * * *
2990 TTT-AAAATGTTCTGAAGTTCGTCTAAGAACAAAGAGAGAAATAGTTCTCATGTAAATAAGTTTT
1 TTTGAAAA-GTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
* * *
3054 TAATTCAAAGACCAAAAT-AT-TTTTCAAAATGACAAACTATTTAGACCAAATGATGCGATTTCC
65 TAATTAAAAGA-C-AAATCATGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCT
* * * * * * *
3117 CGAGCAAGGAATGTTTGGAAAATAGCTCGAAGGAATGGATTGTCATGAATACTTTCAGGAACCGA
128 CGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGA
* * *
3182 AGTTATAAAAGAAATTGTAAATG
193 AGTTATAAAAGAACTCGTAAAAG
* * *
3205 TTTGACAAGTTCAGATGTTCGTCCAAGAACTAAGAGAGAAACAATTCT
1 TTTGAAAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCT
3253 TACACAAAAA
Statistics
Matches: 756, Mismatches: 138, Indels: 35
0.81 0.15 0.04
Matches are distributed among these distances:
214 8 0.01
215 320 0.42
216 245 0.32
217 183 0.24
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.30
Consensus pattern (215 bp):
TTTGAAAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
AATTAAAAGACAAATCATGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGA
GCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGT
TATAAAAGAACTCGTAAAAG
Found at i:3268 original size:431 final size:430
Alignment explanation
Indices: 2139--3269 Score: 1275
Period size: 431 Copynumber: 2.6 Consensus size: 430
2129 GACAAGTTCG
* * ** * * *** ***
2139 GAAGTTCATCCAAGAACCAATTGAGAAACAATTCTCACGTAACTATGTTTTTAATTTGCAGTTCA
1 GAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAAACCA
* * * * * ** * *
2204 ACACTTGTTTACAAAATGATAAATTATTTTGACCAAATGATGTTATTTCTCGAGCATGGAATGTT
66 AAACATGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCACGAGCAAGGAATGTT
* *
2269 TGGAAAATTGTTCGATGGAATGGATCGTCTTGAATACTTTAAGGAACCGAAGTTATAAAAGAACT
131 TGGAAAA-TGCTCGAAGGAATGGATCGTCTTGAATACTTT-AGGAACCGAAGTTATAAAAGAACT
* ** * * * * *
2334 CGTAAAAGTTTCACCTGTTCGGAAATTAGTGCAAGAACGAAGAGAGAAACAATTCTTACGTAAAT
194 CGTAAAAGTTTGACAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAAT
* * * * * * *
2399 ATGTTTTTTAATTCAAACACCATTACTTGTTTACAAACTGACAAACTATTTAGACCAAATTATGC
259 AAG-TTTTTAATTAAAACACAAATACCTGTTTACAAAATGACAAACTATTTAGACCAAATGATGC
* * * * *
2464 GATTTCCCGAGCGTGGAATGTTCGAAAAATTGCTCGAAGGAATATATCGTCTTGAATACTTACAG
323 GATTTCCCGAGCATGGAATGTTCGAAAAACTGCCCGAAGGAATAGATCATCTTGAATACTTACAG
* *
2529 GAACCGAAGTTATAAAAGAAATCGTAAAAGTTTGACAACTTCA
388 GAACCGAAGTTATAAAACAAATCGTAAAAGTTTGAAAACTTCA
* * * *
2572 GATGTTCGTCCAAGAGCCAAGAGAGAAACAATTCTTACGTAAATAAGTTTTTAATTCAAAAACCA
1 GAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAAACCA
* * * * * *
2637 AAACATGTTTACGAAATGACAAACTTTTTAGACCATATGATACGATTTTATGAGCACA-GAATGT
66 AAACATGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCACGAGCA-AGGAATGT
*** * * **
2701 TCAAAAAATTCTCGAAGGAATGGATCGTCTTGAATACTTTATGGTACCGTTGTTATAAAAGAACT
130 TTGGAAAATGCTCGAAGGAATGGATCGTCTTGAATACTTTA-GGAACCGAAGTTATAAAAGAACT
* * *
2766 CGTAAAAGTTTGAAAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAAT
194 CGTAAAAGTTTGACAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAAT
*
2831 AAGTTTTTAATTAAAAGACGAAAT-CCTGTTTACAAAATGACAAACTATTTAGACCAAATGATGC
259 AAGTTTTTAATTAAAACAC-AAATACCTGTTTACAAAATGACAAACTATTTAGACCAAATGATGC
* * *
2895 TATTTCTCGAGCATGGAAAT-TTCGAAAAACTGCCCGAAGGAATGGATCATCTTGAATACTTTA-
323 GATTTCCCGAGCATGG-AATGTTCGAAAAACTGCCCGAAGGAATAGATCATCTTGAATAC-TTAC
* ** * * * *
2958 AGTATTCGAAGTTATAAAACAACTCTTAAAAGTTT-AAAATGTTCT
386 AGGAACCGAAGTTATAAAACAAATCGTAAAAGTTTGAAAA-CTTCA
* * * * *
3003 GAAGTTCGTCTAAGAACAAAGAGAGAAATAGTTCTCATGTAAATAAGTTTTTAATTCAAAGACCA
1 GAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAAACCA
* * *
3068 AAATAT-TTTTCAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCAAGGAATGTT
66 AAACATGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCACGAGCAAGGAATGTT
* * *
3132 TGGAAAATAGCTCGAAGGAATGGATTGTCATGAATACTTTCAGGAACCGAAGTTATAAAAGAAAT
131 TGGAAAAT-GCTCGAAGGAATGGATCGTCTTGAATACTTT-AGGAACCGAAGTTATAAAAGAACT
* * * * ** *
3197 TGTAAATGTTTGACAAGTTCAGATGTTCGTCCAAGAACTAAGAGAGAAACAATTCTTACACAAAA
194 CGTAAAAGTTTGACAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAAT
3262 AAGTTTTT
259 AAGTTTTT
3270 GACAAGTTTG
Statistics
Matches: 577, Mismatches: 112, Indels: 20
0.81 0.16 0.03
Matches are distributed among these distances:
429 1 0.00
430 56 0.10
431 302 0.52
432 114 0.20
433 104 0.18
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.30
Consensus pattern (430 bp):
GAAGTTCGTCCAAGAACAAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAAAACCA
AAACATGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCACGAGCAAGGAATGTT
TGGAAAATGCTCGAAGGAATGGATCGTCTTGAATACTTTAGGAACCGAAGTTATAAAAGAACTCG
TAAAAGTTTGACAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACGTAAATAA
GTTTTTAATTAAAACACAAATACCTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGAT
TTCCCGAGCATGGAATGTTCGAAAAACTGCCCGAAGGAATAGATCATCTTGAATACTTACAGGAA
CCGAAGTTATAAAACAAATCGTAAAAGTTTGAAAACTTCA
Found at i:3384 original size:62 final size:62
Alignment explanation
Indices: 3221--3392 Score: 229
Period size: 62 Copynumber: 2.8 Consensus size: 62
3211 AAGTTCAGAT
* ** * *
3221 GTTCGTCCAAGAACTAAGAGAGAAACAATTCTTACACAAAAAAGTTTTTGACAAGTTTGGAA
1 GTTCGTCCAAGAACTAAGAGAGAAACAATTCTCACGTAAAAAAGTTTTCGACAAGTTTGAAA
*
3283 GTTCGTCCAAGAACTAAGAGA-AAAGCAATTCTCACGTAAACAAGTTTTCGACAAGTTTGAAA
1 GTTCGTCCAAGAACTAAGAGAGAAA-CAATTCTCACGTAAAAAAGTTTTCGACAAGTTTGAAA
* * * * *
3345 GTTCATCCAAGAACCAAGAGAGAACCAATTCTCATGTAAATAAGTTTT
1 GTTCGTCCAAGAACTAAGAGAGAAACAATTCTCACGTAAAAAAGTTTT
3393 TAATTCAGCG
Statistics
Matches: 97, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
61 3 0.03
62 92 0.95
63 2 0.02
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.26
Consensus pattern (62 bp):
GTTCGTCCAAGAACTAAGAGAGAAACAATTCTCACGTAAAAAAGTTTTCGACAAGTTTGAAA
Found at i:3642 original size:62 final size:62
Alignment explanation
Indices: 3545--3730 Score: 318
Period size: 62 Copynumber: 3.0 Consensus size: 62
3535 ACCGTAAAAG
* *
3545 TTTGAAAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCATGTAAATAAGTT
1 TTTGAAAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
* *
3607 TTTGACAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
1 TTTGAAAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
* *
3669 TTTGATAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAACTAAGTT
1 TTTGAAAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
3731 ATTAACTAAC
Statistics
Matches: 117, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 117 1.00
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.26
Consensus pattern (62 bp):
TTTGAAAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
Found at i:3707 original size:340 final size:340
Alignment explanation
Indices: 2998--3871 Score: 1125
Period size: 340 Copynumber: 2.6 Consensus size: 340
2988 AGTTTAAAAT
* * * * * *
2998 GTTCTGAAGTTCGTCTAAGAACAAAGAGAGAAATAGTTCTCATGTAAATAAGTTTTTAATTCAAA
1 GTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAATTCAAC
* * *
3063 GACCAAAA-TAT-TTTTCAAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCGAGCAAGG
66 GACCAAAACT-TGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCACGAGCATGG
* ** * *
3126 AATGTTTGGAAAA-TAGCTCGAAGGAATGGATTGTCATGAATACTTTCAGGAACCGAAGTTATAA
130 AATGTTTGGAAAATTA-CTCAAAGGAATGGATCCTCTTGAATACTTTCAGGAACTGAAGTTATAA
* ** * * * *
3190 AAGAAATTGTAAATGTTTGACAAGTTCAGATGTTCGTCCAAGAACTAAGAGAGAAACAATTCTTA
194 AAAAAACCGTAAAAGTTTGAAAAGTTCAGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCA
*
3255 CACAAAAAAGTTTTTGACAAGTTTGGAAGTTCGTCCAAGAACTAAGAGAAAAGCAATTCTCACGT
259 CACAAAAAAGTTTTTGACAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAAAAGCAATTCTCACGT
3320 AAACAAGTTTTCGACAA
324 AAACAAGTTTTCGACAA
* * * * *
3337 GTTTGAAAGTTCATCCAAGAACCAAGAGAGAACCAATTCTCATGTAAATAAGTTTTTAATTCAGC
1 GTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAATTCAAC
* * * *
3402 GGCCAAAACTTGTTTACAGAAA-GAGAAACTATTTAGACCAAATTATGCGGTTTCACGAGCATGG
66 GACCAAAACTTGTTTACA-AAATGACAAACTATTTAGACCAAATGATGCGATTTCACGAGCATGG
*** *
3466 AATGTTCAAAAAATTACTCAAAGGAATTGATCCTCTTGAATACTTTCAGGAACTGAAGTTATAAA
130 AATGTTTGGAAAATTACTCAAAGGAATGGATCCTCTTGAATACTTTCAGGAACTGAAGTTATAAA
* *
3531 AAAAACCGTAAAAGTTTGAAAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCAT
195 AAAAACCGTAAAAGTTTGAAAAGTTCAGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCAC
** *
3596 GTAAATAAGTTTTTGACAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAAA-CAATTCTCACGT
260 ACAAAAAAGTTTTTGACAAGTTTGGAAGTTCGTCCAAGAACCAAGAGA-AAAGCAATTCTCACGT
* * *
3660 AAATAAGTTTTTGATAA
324 AAACAAGTTTTCGACAA
* * * *
3677 GTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAACTAAGTTATTAACT-AAC
1 GTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAATTCAAC
* * * * * *
3741 AGTCCAAAACTTGTTCACAAAATGACAAACTATTTTGACCAAATGGTGTGATTTCTCGAGCATGG
66 -GACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCACGAGCATGG
* * *
3806 AATGTTTGGAAATTTGCTCAAAGGAATGGA-CCGTCTTGAATACTTTAAGGAACCT-AAGTTATA
130 AATGTTTGGAAAATTACTCAAAGGAATGGATCC-TCTTGAATACTTTCAGGAA-CTGAAGTTATA
3869 AAA
193 AAA
3872 CAGTTCTCAC
Statistics
Matches: 458, Mismatches: 68, Indels: 17
0.84 0.13 0.03
Matches are distributed among these distances:
339 69 0.15
340 379 0.83
341 10 0.02
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.27
Consensus pattern (340 bp):
GTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTAATTCAAC
GACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCACGAGCATGGA
ATGTTTGGAAAATTACTCAAAGGAATGGATCCTCTTGAATACTTTCAGGAACTGAAGTTATAAAA
AAAACCGTAAAAGTTTGAAAAGTTCAGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACA
CAAAAAAGTTTTTGACAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAAAAGCAATTCTCACGTAA
ACAAGTTTTCGACAA
Found at i:4058 original size:223 final size:224
Alignment explanation
Indices: 3645--4094 Score: 611
Period size: 223 Copynumber: 2.0 Consensus size: 224
3635 ACCAAGAGAG
* * *
3645 AAACAATTCTCACGTAAATAAGTTTTTGATAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAA
1 AAACAATTCTCACATAAATAAGTTTTTCATAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAA
* * *
3710 CAATTCTCACGTAACTAAGTTATTAACTAACAGTCCAAAACTTGTTCACAAAATGACAAACTATT
66 CAATTCTAACGTAAATAAGTTATTAACTAACAGACCAAAACTTGTTCACAAAATGACAAACTATT
* * * * * *
3775 TTGACCAAATGGTGTGATTTCTCGAGCATGGAATGTTTGGAAATTTGCTCAAAGGAATGGACCGT
131 TAGACCAAATGATGTGATTTCCCGAGCAAGGAATGTTTGGAAAATAGCTCAAAGGAATGGACCGT
* *
3840 CTTGAATACTTTAAGGAACCT-AAGTTATA
196 CATGAATACTTTAAGGAA-CTGAACTTATA
* * *
3869 AAACAGTTCTCACATAAATAAGTTTTTCATAAGTTCAGAAGTTCTTCCAATAACCAAGAGAGAAA
1 AAACAATTCTCACATAAATAAGTTTTTCATAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAA
* * * **
3934 CAGTTCTAACGTAAATAAGTTTTTAATTCAA-AGACCAAAA-TAT-TTTTCAAAATGACAAACTA
66 CAATTCTAACGTAAATAAGTTATTAACT-AACAGACCAAAACT-TGTTCACAAAATGACAAACTA
* * *
3996 TTTAGACTAAATGATGTGATTTCCCGAGCAAGGAATGTTTGGAAAATAGCTCGAAGGAATGGATC
129 TTTAGACCAAATGATGTGATTTCCCGAGCAAGGAATGTTTGGAAAATAGCTCAAAGGAATGGACC
*
4061 GTCATGAATACTTTCAGGAACTGAACTTATA
194 GTCATGAATACTTTAAGGAACTGAACTTATA
4092 AAA
1 AAA
4095 GAAATCGTAA
Statistics
Matches: 197, Mismatches: 26, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
222 2 0.01
223 102 0.52
224 91 0.46
225 2 0.01
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (224 bp):
AAACAATTCTCACATAAATAAGTTTTTCATAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAA
CAATTCTAACGTAAATAAGTTATTAACTAACAGACCAAAACTTGTTCACAAAATGACAAACTATT
TAGACCAAATGATGTGATTTCCCGAGCAAGGAATGTTTGGAAAATAGCTCAAAGGAATGGACCGT
CATGAATACTTTAAGGAACTGAACTTATA
Found at i:4261 original size:62 final size:62
Alignment explanation
Indices: 4108--4297 Score: 204
Period size: 62 Copynumber: 3.0 Consensus size: 62
4098 ATCGTAAAAG
* ** * *** * * *
4108 TTTGACAAGTTAAGATGTTCGTCCAAGAACCAAAAGAGAAATGATTCTTACATAAAATAAGTT
1 TTTGACAAGTTCAGAACTTCGTCCAAGAACCAAGAGAGAACCAATTCTCACGT-AAACAAGTT
* * *
4171 TTTGACAAGTTCAGAAGTTCGTCTAAGAA-CAATGAGAGAAGCAATTCTCACGTAAACAAGTT
1 TTTGACAAGTTCAGAACTTCGTCCAAGAACCAA-GAGAGAACCAATTCTCACGTAAACAAGTT
* *
4233 TTTGTCAAGTTC-GAAACTTCGTCCAAGAACCAAGAGAGAACCAATTCTCACGTAAATAAGTT
1 TTTGACAAGTTCAG-AACTTCGTCCAAGAACCAAGAGAGAACCAATTCTCACGTAAACAAGTT
4295 TTT
1 TTT
4298 AATTCAGCGA
Statistics
Matches: 109, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
61 1 0.01
62 65 0.60
63 43 0.39
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (62 bp):
TTTGACAAGTTCAGAACTTCGTCCAAGAACCAAGAGAGAACCAATTCTCACGTAAACAAGTT
Found at i:4395 original size:564 final size:564
Alignment explanation
Indices: 3343--4514 Score: 1502
Period size: 564 Copynumber: 2.1 Consensus size: 564
3333 ACAAGTTTGA
* * * ** *
3343 AAGTTCATCCAAGAACCAAGAGAGAACCAATTCTCATGTAAATAAGTTTTTAATTCAGCGGCCAA
1 AAGTTCATCCAAGAACCAAGAGAGAAACAATTCTAACGTAAATAAGTTTTTAATTCAAAGACCAA
* * * *
3408 AACTTGTTTACAGAAAGAGAAACTATTTAGACCAAATTATGCGGTTTCACGAGCATGGAATGTTC
66 AACTTGTTTACAGAAAGACAAACTATTTAGACCAAATGATGCGATTTCACGAGCAAGGAATGTTC
* * *
3473 AAAAAATTACTCAAAGGAATTGATCCTCTTGAATACTTTCAGGAACTGAAGTTATAAAAAAAACC
131 AAAAAATTACTCAAAGGAATGGATCCTCATGAATACTTTCAGGAACTGAACTTATAAAAAAAACC
** * *
3538 GTAAAAGTTTGAAAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCATGTAAATA
196 GTAAAAGTTTGAAAAGTTAAGATGTTCGTCCAAGAACCAAAAGAGAAACAATTCTCATGAAAATA
** *
3603 AGTTTTTGACAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGT
261 AGTTTTTGACAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAACAAGT
* * *
3668 TTTTGATAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAACTAAGTTAT
326 TTTTGATAAGTTCGAAACTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTAT
* * * *
3733 TAACTAACAGTCCAAAACTTGTTCACAAAATGACAAACTATTTTGACCAAATGGTGTGATTTCTC
391 TAACTAACAGACCAAAACTTGTTCACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTC
*** *
3798 GAGCATGGAATGTTTGGAAATTTGCTCAAAGGAATGGA-CCGTCTTGAATACTTTAAGGAACCT-
456 GAGCATGGAATGTTCAAAAAATTGCTCAAAGGAATGGATCC-TCTTGAATACTTTAAGGAA-CTG
3861 AAGTTATAAAACAGTTCTCACATAAATAAGTTTTTCATAAGTTCAG
519 AAGTTATAAAACAGTTCTCACATAAATAAGTTTTTCATAAGTTCAG
* * *
3907 AAGTTCTTCCAATAACCAAGAGAGAAACAGTTCTAACGTAAATAAGTTTTTAATTCAAAGACCAA
1 AAGTTCATCCAAGAACCAAGAGAGAAACAATTCTAACGTAAATAAGTTTTTAATTCAAAGACCAA
* * * *
3972 AA-TAT-TTTTCA-AAATGACAAACTATTTAGACTAAATGATGTGATTTCCCGAGCAAGGAATGT
66 AACT-TGTTTACAGAAA-GACAAACTATTTAGACCAAATGATGCGATTTCACGAGCAAGGAATGT
*** * * *
4034 TTGGAAAA-TAGCTCGAAGGAATGGATCGTCATGAATACTTTCAGGAACTGAACTTATAAAAGAA
129 TCAAAAAATTA-CTCAAAGGAATGGATCCTCATGAATACTTTCAGGAACTGAACTTATAAAAAAA
* * **
4098 ATCGTAAAAGTTTGACAAGTTAAGATGTTCGTCCAAGAACCAAAAGAGAAATGATTCTTACAT-A
193 ACCGTAAAAGTTTGAAAAGTTAAGATGTTCGTCCAAGAACCAAAAGAGAAACAATTC-T-CATGA
* *
4162 AAATAAGTTTTTGACAAGTTCAGAAGTTCGTCTAAGAA-CAATGAGAGAAGCAATTCTCACGTAA
256 AAATAAGTTTTTGACAAGTTCAGAAGTTCGTCCAAGAACCAA-GAGAGAAACAATTCTCACGTAA
*
4226 ACAAGTTTTTG-TCAAGTTCGAAACTTCGTCCAAGAACCAAGAGAGAACCAATTCTCACGTAAAT
320 ACAAGTTTTTGAT-AAGTTCGAAACTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAAT
* * * * *
4290 AAGTTTTTAATTCAGC-GACCAAAACTTGTTTACAGAAA-GACAAACTATTTAGACCAAATTATG
384 AAGTTATTAACT-AACAGACCAAAACTTGTTCACA-AAATGACAAACTATTTAGACCAAATGATG
* *
4353 CGATTTCTCGAGCATGGAATGTTCAAAAAATTGCTTAAAGGAATGGATCCTCTTGAATACTTTCA
447 CGATTTCTCGAGCATGGAATGTTCAAAAAATTGCTCAAAGGAATGGATCCTCTTGAATACTTTAA
** * * * *
4418 GGAACTGAAGTTATAAAA-A--AAT--CGT-AA-AAG--TTTGAAAAGTTCGG
512 GGAACTGAAGTTATAAAACAGTTCTCACATAAATAAGTTTTTCATAAGTTCAG
* * *
4462 ATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAA
1 AAGTTCATCCAAGAACCAAGAGAGAAACAATTCTAACGTAAATAAGTTTTTAA
4515 CAAGTTTGGA
Statistics
Matches: 528, Mismatches: 69, Indels: 31
0.84 0.11 0.05
Matches are distributed among these distances:
555 59 0.11
557 3 0.01
558 2 0.00
559 2 0.00
561 1 0.00
562 5 0.01
563 155 0.29
564 291 0.55
565 10 0.02
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.28
Consensus pattern (564 bp):
AAGTTCATCCAAGAACCAAGAGAGAAACAATTCTAACGTAAATAAGTTTTTAATTCAAAGACCAA
AACTTGTTTACAGAAAGACAAACTATTTAGACCAAATGATGCGATTTCACGAGCAAGGAATGTTC
AAAAAATTACTCAAAGGAATGGATCCTCATGAATACTTTCAGGAACTGAACTTATAAAAAAAACC
GTAAAAGTTTGAAAAGTTAAGATGTTCGTCCAAGAACCAAAAGAGAAACAATTCTCATGAAAATA
AGTTTTTGACAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAACAAGT
TTTTGATAAGTTCGAAACTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTAT
TAACTAACAGACCAAAACTTGTTCACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTC
GAGCATGGAATGTTCAAAAAATTGCTCAAAGGAATGGATCCTCTTGAATACTTTAAGGAACTGAA
GTTATAAAACAGTTCTCACATAAATAAGTTTTTCATAAGTTCAG
Found at i:4524 original size:903 final size:895
Alignment explanation
Indices: 2774--4852 Score: 3186
Period size: 903 Copynumber: 2.3 Consensus size: 895
2764 CTCGTAAAAG
* * * * *
2774 TTTGAAAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
1 TTTGATAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAACTAAGTTATT
* * * * * * *
2839 AATTAAAAGACGAAATCCTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCT-ATTTCTC
66 AATTAACAGTCCAAAACTTGTTTACAAAATGACAAACTATTTTGACCAAATGGTG-TGATTTCTC
* * ** * * * * ** *
2903 GAGCATGGAAAT-TTCGAAAAACTGCCCGAAGGAATGGATCATCTTGAATACTTTAAGTATTCGA
130 GAGCATGG-AATGTTTGGAAATTTGCTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCTA
* * * *
2967 AGTTATAAAACAACTCTTAAAAGTTTAAAATGTTCTGAAGTTCGTCTAAGAACAAAGAGAGAAAT
194 AGTTATAAAACAACTCTAAAAAGTTTAAAATGTTCAGAAGTTCGTCCAAGAACAAAGAGAGAAAC
* *
3032 AGTTCTCATGTAAATAAGTTTTTAATTCAAAGACCAAAATATTTTTCAAAATGACAAACTATTTA
259 AGTTCTAACGTAAATAAGTTTTTAATTCAAAGACCAAAATATTTTTCAAAATGACAAACTATTTA
*
3097 GACCAAATGATGCGATTTCCCGAGCAAGGAATGTTTGGAAAATAGCTCGAAGGAATGGATTGTCA
324 GACCAAATGATGCGATTTCCCGAGCAAGGAATGTTTGGAAAATAGCTCGAAGGAATGGATCGTCA
* * * *
3162 TGAATACTTTCAGGAACCGAAGTTATAAAAGAAATTGTAAATGTTTGACAAGTTCAGATGTTCGT
389 TGAATACTTTCAGGAACCGAACTTATAAAAGAAATCGTAAAAGTTTGACAAGTTAAGATGTTCGT
* * **
3227 CCAAGAACTAAGAGAGAAACAATTCTTACACAAAAAAGTTTTTGACAAGTTTGGAAGTTCGTCCA
454 CCAAGAACCAAAAGAGAAACAATTCTTACACAAAAAAGTTTTTGACAAGTTCAGAAGTTCGTCCA
* *
3292 AGAACTAAGAGAAAAGCAATTCTCACGTAAACAAGTTTTCGACAAGTTTGAAAGTTCATCCAAGA
519 AGAACTAAGAGAAAAGCAATTCTCACGTAAACAAGTTTTCGACAAGTTCGAAACTTCATCCAAGA
* *
3357 ACCAAGAGAGAACCAATTCTCATGTAAATAAGTTTTTAATTCAGCGGCCAAAACTTGTTTACAGA
584 ACCAAGAGAGAACCAATTCTCACGTAAATAAGTTTTTAATTCAGCGACCAAAACTTGTTTACAGA
* *
3422 AAGAGAAACTATTTAGACCAAATTATGCGGTTTCACGAGCATGGAATGTTCAAAAAATTACTCAA
649 AAGACAAACTATTTAGACCAAATTATGCGATTTCACGAGCATGGAATGTTCAAAAAATTACTCAA
*
3487 AGGAATTGATCCTCTTGAATACTTTCAGGAACTGAAGTTATAAAAAAAACCGTAAAAGTTTGAAA
714 AGGAATGGATCCTCTTGAATACTTTCAGGAACTGAAGTTATAAAAAAAACCGTAAAAGTTTGAAA
* *
3552 AGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCATGTAAATAAGTTTTTGACAAGT
779 AGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAACAAGT
3617 TTGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
844 TTGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
3669 TTTGATAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAACTAAGTTATT
1 TTTGATAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAACTAAGTTATT
* *
3734 AACTAACAGTCCAAAACTTGTTCACAAAATGACAAACTATTTTGACCAAATGGTGTGATTTCTCG
66 AATTAACAGTCCAAAACTTGTTTACAAAATGACAAACTATTTTGACCAAATGGTGTGATTTCTCG
*
3799 AGCATGGAATGTTTGGAAATTTGCTCAAAGGAATGGACCGTCTTGAATACTTTAAGGAACCTAAG
131 AGCATGGAATGTTTGGAAATTTGCTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCTAAG
* * * * *
3864 TTATAAAACAGTTCTCACATAAATAAGTTTTTCATAA-GTTCAGAAGTTCTTCCAATAACCAAGA
196 TTATAAAACA--ACT--C-TAAA-AAG--TTT-AAAATGTTCAGAAGTTCGTCCAAGAACAAAGA
3928 GAGAAACAGTTCTAACGTAAATAAGTTTTTAATTCAAAGACCAAAATATTTTTCAAAATGACAAA
252 GAGAAACAGTTCTAACGTAAATAAGTTTTTAATTCAAAGACCAAAATATTTTTCAAAATGACAAA
* *
3993 CTATTTAGACTAAATGATGTGATTTCCCGAGCAAGGAATGTTTGGAAAATAGCTCGAAGGAATGG
317 CTATTTAGACCAAATGATGCGATTTCCCGAGCAAGGAATGTTTGGAAAATAGCTCGAAGGAATGG
*
4058 ATCGTCATGAATACTTTCAGGAACTGAACTTATAAAAGAAATCGTAAAAGTTTGACAAGTTAAGA
382 ATCGTCATGAATACTTTCAGGAACCGAACTTATAAAAGAAATCGTAAAAGTTTGACAAGTTAAGA
** *
4123 TGTTCGTCCAAGAACCAAAAGAGAAATGATTCTTACATAAAATAAGTTTTTGACAAGTTCAGAAG
447 TGTTCGTCCAAGAACCAAAAGAGAAACAATTCTTACACAAAA-AAGTTTTTGACAAGTTCAGAAG
* * * *
4188 TTCGTCTAAGAAC-AATGAGAGAAGCAATTCTCACGTAAACAAGTTTTTGTCAAGTTCGAAACTT
511 TTCGTCCAAGAACTAA-GAGAAAAGCAATTCTCACGTAAACAAGTTTTCGACAAGTTCGAAACTT
*
4252 CGTCCAAGAACCAAGAGAGAACCAATTCTCACGTAAATAAGTTTTTAATTCAGCGACCAAAACTT
575 CATCCAAGAACCAAGAGAGAACCAATTCTCACGTAAATAAGTTTTTAATTCAGCGACCAAAACTT
*
4317 GTTTACAGAAAGACAAACTATTTAGACCAAATTATGCGATTTCTCGAGCATGGAATGTTCAAAAA
640 GTTTACAGAAAGACAAACTATTTAGACCAAATTATGCGATTTCACGAGCATGGAATGTTCAAAAA
* * *
4382 ATTGCTTAAAGGAATGGATCCTCTTGAATACTTTCAGGAACTGAAGTTAT-AAAAAAATCGTAAA
705 ATTACTCAAAGGAATGGATCCTCTTGAATACTTTCAGGAACTGAAGTTATAAAAAAAACCGTAAA
4446 AGTTTGAAAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTT
770 AGTTTGAAAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTT
** *
4511 TTAACAAGTTTGGAAGTTCGTCCAAGAACTGAGAGGGAAACAATTCTCACGTAAATAAGTT
835 TTAACAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
* *
4572 TTTGATCAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAACTAAGTTATT
1 TTTGATAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAACTAAGTTATT
*
4637 AATTAACAGTCCAAAACTTGTTTACAAAATGACAATCTATTTTGACCAAATGGTGTGATTTCTCG
66 AATTAACAGTCCAAAACTTGTTTACAAAATGACAAACTATTTTGACCAAATGGTGTGATTTCTCG
*
4702 AGCATGGAATGTTTGGAAATTTGCTCAAAGGAATGGATCGTCTTGAATGCTTTAAGGAACCTAAG
131 AGCATGGAATGTTTGGAAATTTGCTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCTAAG
* * * * *
4767 CTATAAAAGAACTCGT-GAAAGTTTGACAA-GTT-TGAAAGTTCGTCCAAGAACCAAA-AGAGAA
196 TTATAAAACAACTC-TAAAAAGTTT-AAAATGTTCAG-AAGTTCGTCCAAGAA-CAAAGAGAGAA
* *
4828 ACAATTCTCACGTAAATAAGTTTTT
257 ACAGTTCTAACGTAAATAAGTTTTT
4853 GATATGTTTG
Statistics
Matches: 1076, Mismatches: 93, Indels: 30
0.90 0.08 0.03
Matches are distributed among these distances:
894 5 0.00
895 224 0.21
896 3 0.00
897 5 0.00
898 1 0.00
899 3 0.00
900 3 0.00
901 5 0.00
903 578 0.54
904 249 0.23
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.28
Consensus pattern (895 bp):
TTTGATAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAACTAAGTTATT
AATTAACAGTCCAAAACTTGTTTACAAAATGACAAACTATTTTGACCAAATGGTGTGATTTCTCG
AGCATGGAATGTTTGGAAATTTGCTCAAAGGAATGGATCGTCTTGAATACTTTAAGGAACCTAAG
TTATAAAACAACTCTAAAAAGTTTAAAATGTTCAGAAGTTCGTCCAAGAACAAAGAGAGAAACAG
TTCTAACGTAAATAAGTTTTTAATTCAAAGACCAAAATATTTTTCAAAATGACAAACTATTTAGA
CCAAATGATGCGATTTCCCGAGCAAGGAATGTTTGGAAAATAGCTCGAAGGAATGGATCGTCATG
AATACTTTCAGGAACCGAACTTATAAAAGAAATCGTAAAAGTTTGACAAGTTAAGATGTTCGTCC
AAGAACCAAAAGAGAAACAATTCTTACACAAAAAAGTTTTTGACAAGTTCAGAAGTTCGTCCAAG
AACTAAGAGAAAAGCAATTCTCACGTAAACAAGTTTTCGACAAGTTCGAAACTTCATCCAAGAAC
CAAGAGAGAACCAATTCTCACGTAAATAAGTTTTTAATTCAGCGACCAAAACTTGTTTACAGAAA
GACAAACTATTTAGACCAAATTATGCGATTTCACGAGCATGGAATGTTCAAAAAATTACTCAAAG
GAATGGATCCTCTTGAATACTTTCAGGAACTGAAGTTATAAAAAAAACCGTAAAAGTTTGAAAAG
TTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAACAAGTTT
GGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
Found at i:4533 original size:62 final size:62
Alignment explanation
Indices: 4454--4638 Score: 273
Period size: 62 Copynumber: 3.0 Consensus size: 62
4444 AAAGTTTGAA
*
4454 AAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAAC
1 AAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAAC
* ** * *
4516 AAGTTTGGAAGTTCGTCCAAGAACTGAGAGGGAAACAATTCTCACGTAAATAAGTTTTTGATC
1 AAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT-AAC
* * *
4579 -AGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAACTAAGTTATTAA
1 AAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAA
4639 TTAACAGTCC
Statistics
Matches: 108, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
61 1 0.01
62 105 0.97
63 2 0.02
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (62 bp):
AAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAAC
Found at i:4868 original size:62 final size:62
Alignment explanation
Indices: 4796--4914 Score: 184
Period size: 62 Copynumber: 1.9 Consensus size: 62
4786 AGTTTGACAA
*
4796 GTTTGAAAGTTCGTCCAAGAACCAAAAGAGAAACAATTCTCACGTAAATAAGTTTTTGATAT
1 GTTTGAAAGTTCGTCCAAGAACCAAAAGAGAAACAATTCTCACGTAAATAAGCTTTTGATAT
* * * * *
4858 GTTTGGAAGTTCTTCCAAGAACCAAGAGAGAAATAGTTCTCACGTAAATAAGCTTTT
1 GTTTGAAAGTTCGTCCAAGAACCAAAAGAGAAACAATTCTCACGTAAATAAGCTTTT
4915 AATTCCAAGA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 51 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (62 bp):
GTTTGAAAGTTCGTCCAAGAACCAAAAGAGAAACAATTCTCACGTAAATAAGCTTTTGATAT
Found at i:5092 original size:277 final size:276
Alignment explanation
Indices: 4514--5191 Score: 821
Period size: 278 Copynumber: 2.4 Consensus size: 276
4504 TAAGTTTTTA
* * * ** * *
4514 ACAAGTTTGGAAGTTCGTCCAAGAACTGAGAGGGAAACAATTCTCACGTAAATAAGTTTTTGATC
1 ACAAGTTAGAAAGTTCATCCAAGAACCAAAAGAGAAACAATTCTCACGTAAATAAGTTTTTGAT-
* *
4579 AGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAACTAAGTTATTAATTAAC
65 AGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT-TTAATTAAC
* * * * * *
4644 AGTCCAAAACTTGTTTACAAAATGACAATCTATTTTGACCAAATGGTGTGATTTCTCGAGCATGG
129 AGACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCAAGG
* * * *
4709 AATGTTTGGAAATTTGCTCAAAGGAATGGATCGTCTTGAATGCTTTAAGGAACCTAAGCTATAAA
194 AATGTTTGGAAAATAGCTCAAAGGAATGGATCGTCATGAATACTTTAAGGAACCTAAGCTATAAA
*
4774 AGAACTCGTGAAAGTTTG
259 AGAACTCGTAAAAGTTTG
* *
4792 ACAAGTTTGAAAGTTCGTCCAAGAACCAAAAGAGAAACAATTCTCACGTAAATAAGTTTTTGATA
1 ACAAGTTAGAAAGTTCATCCAAGAACCAAAAGAGAAACAATTCTCACGTAAATAAGTTTTTGATA
* * * * *
4857 TGTTTGGAAGTTCTTCCAAGAACCAAGAGAGAAATAGTTCTCACGTAAATAAGCTTTTAATT-CC
66 -GTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAG-TTTTAATTAAC
* *
4921 AAGACCAAAA-TAT-TTTTCAAAATGACAAACTATTTAGACCAAATGATGCGATTTC-CTGAGTA
129 -AGACCAAAACT-TGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTC-GAGCA
* * * *
4983 AGGGATGTTTGGAAAATAGCTCGAAGGAATGGATCGTCATGAATACTTTCAGGAACC-AGAGTTA
191 AGGAATGTTTGGAAAATAGCTCAAAGGAATGGATCGTCATGAATACTTTAAGGAACCTA-AGCTA
5047 TAAAAGTAA-TCGTAAAAGTTTG
255 TAAAAG-AACTCGTAAAAGTTTG
* * * * *
5069 ACAAGTTCAG-ATGTTCATCCAAGAACCAAGAGAGAAACAATTCTTACATAAAATAAGCTTTTGA
1 ACAAGTT-AGAAAGTTCATCCAAGAACCAAAAGAGAAACAATTCTCACGT-AAATAAGTTTTTGA
* * * *
5133 CAAGTTCGGAAGTTCGTCCAAGAACTAAGAGAGAAGCAATACTCACGTAAATAAGTTTT
64 -TAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
5192 TGACAAGTTT
Statistics
Matches: 346, Mismatches: 44, Indels: 21
0.84 0.11 0.05
Matches are distributed among these distances:
276 2 0.01
277 160 0.46
278 181 0.52
279 3 0.01
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (276 bp):
ACAAGTTAGAAAGTTCATCCAAGAACCAAAAGAGAAACAATTCTCACGTAAATAAGTTTTTGATA
GTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTAATTAACAG
ACCAAAACTTGTTTACAAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCAAGGAA
TGTTTGGAAAATAGCTCAAAGGAATGGATCGTCATGAATACTTTAAGGAACCTAAGCTATAAAAG
AACTCGTAAAAGTTTG
Found at i:5206 original size:62 final size:62
Alignment explanation
Indices: 5065--5313 Score: 311
Period size: 62 Copynumber: 4.0 Consensus size: 62
5055 ATCGTAAAAG
* * * * * *
5065 TTTGACAAGTTCAGATGTTCATCCAAGAACCAAGAGAGAAACAATTCTTACATAAAATAAGCT
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGT-AAATAAGTT
* * *
5128 TTTGACAAGTTCGGAAGTTCGTCCAAGAACTAAGAGAGAAGCAATACTCACGTAAATAAGTT
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
* * * *
5190 TTTGACAAGTTTGGAAGTTCGTCCAAGAACCGAGAGAAAAACAATTTTCACGTAAATAAGTT
1 TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
* * * * *
5252 TTTGATAAGTTC-GAACATTCGTCCAAGATCCAAGAGAGAAACAATTCTCTCGTAACTAAGTT
1 TTTGACAAGTTCGGAA-GTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
5314 ATTAATTAAC
Statistics
Matches: 160, Mismatches: 25, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
61 3 0.02
62 112 0.70
63 45 0.28
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.27
Consensus pattern (62 bp):
TTTGACAAGTTCGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
Found at i:5287 original size:402 final size:401
Alignment explanation
Indices: 4788--5513 Score: 975
Period size: 401 Copynumber: 1.8 Consensus size: 401
4778 CTCGTGAAAG
*
4788 TTTGACAAGTTTGAAAGTTCGTCCAAGAACCAAAAGAGAAACAATTCTCACGTAAATAAGTTTTT
1 TTTGACAAGTTTGAAAGTTCGTCCAAGAACCAAAAGAAAAACAATTCTCACGTAAATAAGTTTTT
* * * * * *
4853 GATATGTTTGGAAGTTCTTCCAAGAACCAAGAGAGAAATAGTTCTCACGTAAATAAGCTT-TTAA
66 GATAAGTTTCGAAATTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAG-TTATTAA
*
4917 TT-CCAAG-ACCAAAATATTTTTCA-AAATGACAAACTATTTAGACCAAATGATGCGATTTC-CT
130 TTAAC-AGTA-CAAAA-ATTTTT-AGAAATGACAAACTATTTAGACCAAATGATGCGATTTCTC-
* * * * *
4978 GAGTAAGGGATGTTTGGAAAATAGCTCGAAGGAATGGATCGTCATGAATACTTTCAGGAACC-AG
190 GAGCAAGGAATGTTTGGAAAATAGCTCAAAGGAATGGATCATCATGAATACTTTAAGGAACCTA-
* * *
5042 AGTTATAAAAGTAA-TCGTAAAAGTTTGACAAGTTC-AGATGTTCATCCAAGAACCAAGAGAGAA
254 AATTATAAAAG-AACTAGTAAAAGTTTGACAAGTTCGA-AAGTTCATCCAAGAACCAAGAGAGAA
5105 ACAATTCTTACATAAAATAAGCTTTTGACAAGTTCGGAAGTTCGTCCAAGAACTAAGAGAGAAGC
317 ACAATTCTTACATAAAATAAGCTTTTGACAAGTTCGGAAGTTCGTCCAAGAACTAAGAGAGAAGC
5170 AATACTCACGTAAATAAGTT
382 AATACTCACGTAAATAAGTT
* * * *
5190 TTTGACAAGTTTGGAAGTTCGTCCAAGAACCGAGAGAAAAACAATTTTCACGTAAATAAGTTTTT
1 TTTGACAAGTTTGAAAGTTCGTCCAAGAACCAAAAGAAAAACAATTCTCACGTAAATAAGTTTTT
* * *
5255 GATAAG-TTCGAACATTCGTCCAAGATCCAAGAGAGAAACAATTCTCTCGTAACTAAGTTATTAA
66 GATAAGTTTCGAA-ATTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTATTAA
* * * * * *
5319 TTAACAGTACAAAACTTTTTAGAAATGACAAACTATTTTGGCCAAATGGTGTGATTTTTCGAGCA
130 TTAACAGTACAAAAATTTTTAGAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCA
* * * **
5384 TGGAATGTTTGGAAATTTGCTCAAAGGAATGGATCATTTTGAATACTTTAAGGAACCTAAATTAT
195 AGGAATGTTTGGAAAATAGCTCAAAGGAATGGATCATCATGAATACTTTAAGGAACCTAAATTAT
* *
5449 AAAAGAACTAGTGAAAGTTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCT
260 AAAAGAACTAGTAAAAGTTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCT
5514 CAAGTAATTA
Statistics
Matches: 279, Mismatches: 36, Indels: 19
0.84 0.11 0.06
Matches are distributed among these distances:
400 3 0.01
401 156 0.56
402 118 0.42
403 2 0.01
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (401 bp):
TTTGACAAGTTTGAAAGTTCGTCCAAGAACCAAAAGAAAAACAATTCTCACGTAAATAAGTTTTT
GATAAGTTTCGAAATTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTATTAAT
TAACAGTACAAAAATTTTTAGAAATGACAAACTATTTAGACCAAATGATGCGATTTCTCGAGCAA
GGAATGTTTGGAAAATAGCTCAAAGGAATGGATCATCATGAATACTTTAAGGAACCTAAATTATA
AAAGAACTAGTAAAAGTTTGACAAGTTCGAAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTT
ACATAAAATAAGCTTTTGACAAGTTCGGAAGTTCGTCCAAGAACTAAGAGAGAAGCAATACTCAC
GTAAATAAGTT
Found at i:5656 original size:216 final size:215
Alignment explanation
Indices: 5252--6392 Score: 1265
Period size: 216 Copynumber: 5.3 Consensus size: 215
5242 TAAATAAGTT
* * * * *
5252 TTTGATAAGTTCGA-ACA-TTCGTCCAAGATCCAAGAGAGAAACAATTCTCTCGTAACTAAGTTA
1 TTTGACAAGTTCGAGA-AGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTT
* * * * * * * *
5315 TTAATT--AACAGTACAAAACTT-TTTAGAAATGACAAACTATTTTGGCCAAATGGTGTGATTTT
65 TTAATTCAAACA--CCAAAAATTGTTTACAAATGACAAACTATTTAGACCAAATGATGCGATTTC
* * * * * *
5377 TCGAGCATGGAATGTTTGGAAATTTGCTCAAAGGAATGGATCATTTTGAATACTTTAAGGAACCT
128 CCGAGCATGGAATGTTTGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACC-
* *
5442 AAATTATAAAAGAACTAGTGAAAG
192 AAATTATAAAAGAACTCGTAAAAG
* *
5466 TTTGACAAGTTCGA-AAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCAAGTAATTAAGTTTT
1 TTTGACAAGTTCGAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
* *
5530 TAATTCAAACACCAAAAATTGTTTACAAATTGATAAACTATTTAGACCAAATTATGCGATTTCCC
66 TAATTCAAACACCAAAAATTGTTTACAAA-TGACAAACTATTTAGACCAAATGATGCGATTTCCC
* * * * *
5595 GAGCATGGAATGTTTGAAAAATTGCTCAAAGGAATTGATCGTTTTGATTACTTTCAGGAACCGAA
130 GAGCATGGAATGTTTGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACC-AA
* * * *
5660 GTTATAAATGAAATCGCAAAAG
194 ATTATAAAAGAACTCGTAAAAG
* * * * * *
5682 TTTGACAAGTTCG-GATGTTCATCCAAGAGCCTAGAGAGAAACAATTCTTACGTAAACAAGTTTT
1 TTTGACAAGTTCGAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
* * *
5746 TAATTCAAAAACCAAAACA-TGTTTACGAAATGACAAACTTTTTAGA-CAGTATGATGCGATTTC
66 TAATTCAAACACCAAAA-ATTGTTTAC-AAATGACAAACTATTTAGACCA-AATGATGCGATTTC
* * * *
5809 ACGAGCATGGAATGTTCGAAAAATT-CTCGAAGGAATGGATCGTCTTGAATACTGTAAGGTACCA
128 CCGAGCATGGAATGTTTGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCA
5873 AAGTTATAAAAGAACTCGTAAAAG
193 AA-TTATAAAAGAACTCGTAAAAG
* * *
5897 TTTGAAAAGTT-TAGAAGTTCATCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
1 TTTGACAAGTTCGAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
* * ** *
5961 TAATTGAAAGACCAAATCTTGTTTACAAAATGACAAACTATTTAGACCAAATGATACGATTTCCC
66 TAATTCAAACACCAAAAATTGTTTAC-AAATGACAAACTATTTAGACCAAATGATGCGATTTCCC
* * ** * *
6026 GAACATGGAAATCTTCAAAAAATTGCCCGAAGGAATGGATCGTCTTGAATACTTTAAGGAATCGA
130 GAGCATGG-AATGTTTGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAA-CCA
* * *
6091 AGTTATAAAATAACTTGTAAAAG
193 AATTATAAAAGAACTCGTAAAAG
* * * *
6114 TTT-AAAATGTTC-AGAAGTTCGTCTAAGAACAAAGAGAGAAACAGTTCTCACGTAAATAAGTTT
1 TTTGACAA-GTTCGAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTT
*
6177 TTAATTCAAAGACCAAAATATT-TTT-CAAAATGAC--ACTATTTAGACCAAATGATGCGATTTC
65 TTAATTCAAACACCAAAA-ATTGTTTAC-AAATGACAAACTATTTAGACCAAATGATGCGATTTC
* * * * * *
6238 CCGAGCAAGGAATGTTTGGAAAATAGCTTGAAGGAATGGATCGTCATGAATACTTTCAGGAACCA
128 CCGAGCATGGAATGTTTGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCA
* *
6303 AAGTTATAAAAGAAATCGTAAATG
193 AA-TTATAAAAGAACTCGTAAAAG
* * * *
6327 TTTGACAAGTTC-AGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACATAAAAGAAGTTT
1 TTTGACAAGTTCGAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGT-AAATAAGTTT
6391 TT
65 TT
6393 GACAAGTTTG
Statistics
Matches: 790, Mismatches: 115, Indels: 44
0.83 0.12 0.05
Matches are distributed among these distances:
212 3 0.00
213 103 0.13
214 118 0.15
215 173 0.22
216 260 0.33
217 128 0.16
218 5 0.01
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (215 bp):
TTTGACAAGTTCGAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
TAATTCAAACACCAAAAATTGTTTACAAATGACAAACTATTTAGACCAAATGATGCGATTTCCCG
AGCATGGAATGTTTGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAT
TATAAAAGAACTCGTAAAAG
Found at i:6210 original size:431 final size:428
Alignment explanation
Indices: 5252--6392 Score: 1339
Period size: 431 Copynumber: 2.6 Consensus size: 428
5242 TAAATAAGTT
* * * * * *
5252 TTTGATAAGTTC-GAACATTCGTCCAAGATCCAAGAGAGAAACAATTCTCTCGTAACTAAGTTAT
1 TTTGAAAAGTTCAGAA-GTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
* * * * * **
5316 TAATT-AACAGTA-CAAAACTTTTT-AGAAATGACAAACTATTTTGGCCAAATGGTGTGATTTTT
65 TAATTCAA-AG-ACCAAAAATTTTTCA-AAATGACAAACT-TTTTAGACAAATGATGCGATTTCA
* * * *
5378 CGAGCATGGAATGTTTGGAAATTTGCTCAAAGGAATGGATCATTTTGAATACTTTAAGGAACCTA
126 CGAGCATGGAATGTTTGGAAAATT-CTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACC-A
* * *
5443 AA-TTATAAAAGAACTAGTGAAAGTTTGACAAG-TTCGAAAGTTCGTCCAAGAACCAAGAGAGAA
189 AAGTTATAAAAGAACTCGTAAAAGTTTGACAAGTTTAG-AAGTTCGTCCAAGAACCAAGAGAGAA
* * * *
5506 ACAATTCTCAAGTAATTAAGTTTTTAATTCAAACACCAAAAATTGTTTACAAATTGATAAACTAT
253 ACAATTCTCACGTAAATAAGTTTTTAATTCAAACACCAAAAATTGTTTACAAAATGACAAACTAT
* * * * ** * *
5571 TTAGACCAAATTATGCGATTTCCCGAGCATGGAATGTTTGAAAAATTGCTCAAAGGAATTGATCG
318 TTAGACCAAATGATACGATTTCCCGAACATGGAATCTTCAAAAAATTGCCCAAAGGAATGGATCG
* * *
5636 TTTTGATTACTTTCAGGAACCGAAGTTATAAATGAAATCGCAAAAG
383 TCTTGAATACTTTAAGGAACCGAAGTTATAAATGAAATCGCAAAAG
* * * * * * * *
5682 TTTGACAAGTTCGGATGTTCATCCAAGAGCCTAGAGAGAAACAATTCTTACGTAAACAAGTTTTT
1 TTTGAAAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
* * * *
5747 AATTCAAAAACCAAAACATGTTTACGAAATGACAAACTTTTTAGACAGTATGATGCGATTTCACG
66 AATTCAAAGACCAAAA-AT-TTTTCAAAATGACAAACTTTTTAGACA-AATGATGCGATTTCACG
* * * *
5812 AGCATGGAATGTTCGAAAAATTCTCGAAGGAATGGATCGTCTTGAATACTGTAAGGTACCAAAGT
128 AGCATGGAATGTTTGGAAAATTCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAGT
* *
5877 TATAAAAGAACTCGTAAAAGTTTGAAAAGTTTAGAAGTTCATCCAAGAACCAAGAGAGAAACAAT
193 TATAAAAGAACTCGTAAAAGTTTGACAAGTTTAGAAGTTCGTCCAAGAACCAAGAGAGAAACAAT
* * **
5942 TCTCACGTAAATAAGTTTTTAATTGAAAGACCAAATCTTGTTTACAAAATGACAAACTATTTAGA
258 TCTCACGTAAATAAGTTTTTAATTCAAACACCAAAAATTGTTTACAAAATGACAAACTATTTAGA
*
6007 CCAAATGATACGATTTCCCGAACATGGAAATCTTCAAAAAATTGCCCGAAGGAATGGATCGTCTT
323 CCAAATGATACGATTTCCCGAACATGG-AATCTTCAAAAAATTGCCCAAAGGAATGGATCGTCTT
* * * *
6072 GAATACTTTAAGGAATCGAAGTTATAAAAT-AACTTGTAAAAG
387 GAATACTTTAAGGAACCGAAGTTAT-AAATGAAATCGCAAAAG
* * *
6114 TTT-AAAATGTTCAGAAGTTCGTCTAAGAACAAAGAGAGAAACAGTTCTCACGTAAATAAGTTTT
1 TTTGAAAA-GTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTT
* *
6178 TAATTCAAAGACCAAAATATTTTTCAAAATGAC--ACTATTTAGACCAAATGATGCGATTTCCCG
65 TAATTCAAAGACCAAAA-ATTTTTCAAAATGACAAACTTTTTAGA-CAAATGATGCGATTTCACG
* * * * *
6241 AGCAAGGAATGTTTGGAAAATAGCTTGAAGGAATGGATCGTCATGAATACTTTCAGGAACCAAAG
128 AGCATGGAATGTTTGGAAAAT-TCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAG
* * * *
6306 TTATAAAAGAAATCGTAAATGTTTGACAAGTTCAGATGTTCGTCCAAGAACCAAGAGAGAAACAA
192 TTATAAAAGAACTCGTAAAAGTTTGACAAGTTTAGAAGTTCGTCCAAGAACCAAGAGAGAAACAA
* * *
6371 TTCTTACATAAAAGAAGTTTTT
257 TTCTCACGT-AAATAAGTTTTT
6393 GACAAGTTTG
Statistics
Matches: 601, Mismatches: 95, Indels: 29
0.83 0.13 0.04
Matches are distributed among these distances:
429 43 0.07
430 169 0.28
431 208 0.35
432 177 0.29
433 4 0.01
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (428 bp):
TTTGAAAAGTTCAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTT
AATTCAAAGACCAAAAATTTTTCAAAATGACAAACTTTTTAGACAAATGATGCGATTTCACGAGC
ATGGAATGTTTGGAAAATTCTCGAAGGAATGGATCGTCTTGAATACTTTAAGGAACCAAAGTTAT
AAAAGAACTCGTAAAAGTTTGACAAGTTTAGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCT
CACGTAAATAAGTTTTTAATTCAAACACCAAAAATTGTTTACAAAATGACAAACTATTTAGACCA
AATGATACGATTTCCCGAACATGGAATCTTCAAAAAATTGCCCAAAGGAATGGATCGTCTTGAAT
ACTTTAAGGAACCGAAGTTATAAATGAAATCGCAAAAG
Found at i:6471 original size:62 final size:61
Alignment explanation
Indices: 6327--6516 Score: 206
Period size: 62 Copynumber: 3.0 Consensus size: 61
6317 ATCGTAAATG
* *
6327 TTTGACAAGTTCAGAT-GTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACAT-AAAAGAAGTT
1 TTTGACAAGTTCA-ATAGTTCGTCCAAGAACCAAGAGA-AAACAATTC-T-CATGTAAACAAGTT
** * *
6390 TTTGACAAGTTTGGA-AGTTCGTCCAAGAACTAAGAGAAAAGCAATACTCATGTAAACAAGTT
1 TTTGACAAG-TTCAATAGTTCGTCCAAGAACCAAGAGAAAA-CAATTCTCATGTAAACAAGTT
* * * *
6452 TTTGACAAGTTCAATAGTTCGACCAAGAACCAAGAGAGAACCAATTCTCACGTAAATAAGTT
1 TTTGACAAGTTCAATAGTTCGTCCAAGAACCAAGAGA-AAACAATTCTCATGTAAACAAGTT
6514 TTT
1 TTT
6517 AATTCAGCGA
Statistics
Matches: 107, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
61 6 0.06
62 62 0.58
63 37 0.35
64 2 0.02
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.26
Consensus pattern (61 bp):
TTTGACAAGTTCAATAGTTCGTCCAAGAACCAAGAGAAAACAATTCTCATGTAAACAAGTT
Found at i:6764 original size:62 final size:62
Alignment explanation
Indices: 6666--6851 Score: 273
Period size: 62 Copynumber: 3.0 Consensus size: 62
6656 ATCATAAAAG
* * * *
6666 TTTGAAAAGTTCGGATGTTCGTCCAAGAATCAAGAGAGAAACAATTCTCACGTAAATAAGTT
1 TTTGATAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
* * * *
6728 TTTGATATGTTTTGAAGTTTGTCCAAGAACCGAGAGAGAAACAATTCTCACGTAAATAAGTT
1 TTTGATAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
* * *
6790 TTTGATAAGTTTGGAAGTTCGTCCAAGAACCAAAAGAGAAACAATTCTCATGTAACTAAGTT
1 TTTGATAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
6852 ATTAATTAAC
Statistics
Matches: 109, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 109 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.30
Consensus pattern (62 bp):
TTTGATAAGTTTGGAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
Found at i:6794 original size:338 final size:337
Alignment explanation
Indices: 6123--7133 Score: 1237
Period size: 338 Copynumber: 3.0 Consensus size: 337
6113 GTTTAAAATG
* * * *
6123 TTCAGAAGTTCGTCTAAGAACAAAGAGAGAAACAGTTCTCACGTAAATAAGTTTTTAATTCAAAG
1 TTCA-AAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAACG
* * *
6188 ACCAAAA-TAT-TTTTCAAAATGAC-ACTATTTAGACCAAATGATGCGATTTCCCGAGCAAGGAA
65 ACCAAAACT-TGTTTACAAAATGACAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAA
* * ** * * * *
6250 TGTTTGGAAAATAGCTTGAAGGAATGGATCGTCATGAATACTTTCAGGAACCAAAGTTATAAAAG
129 TG-TTGAAAAATTGCTCAAAGGAATGGATCCTCTTGAATACTTTAAGGAA-CTAAGTTATAAAAG
* * * *
6315 AAATCGTAAATGTTTGACAAGTTCAGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTACAT
192 AAATCGTAAAAGTTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGT
* * * * * *
6380 AAAAGAAGTTTTTGACAAGTTTGGAAGTTCGTCCAAGAACTAAGAGA-AAAGCAATACTCATGTA
257 -AAATAAGTTTTTGATAAGTTTGGAAGTTTGTCCAAGAACCAAGAGAGAAA-CAATTCTCACGTA
*
6444 AACAAGTTTTTGACAAG-
320 AATAAGTTTTTGACAAGT
* * *
6461 TTCAATAGTTCGACCAAGAACCAAGAGAGAACCAATTCTCACGTAAATAAGTTTTTAATTCAGCG
1 TTCAA-AGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAACG
* *
6526 ACCAAAACTTGTTTACAAAAAGACAACTATTTAGACCAAATTATGCGATTTCTCGAGCATGGAAT
65 ACCAAAACTTGTTTACAAAATGACAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAAT
*
6591 GTTCAAAAAATTGCTCAAAGGAATGGATCCTCTTGAATACTTTAAGGAACTGAAGTTATAAAA-A
130 GTT-GAAAAATTGCTCAAAGGAATGGATCCTCTTGAATACTTTAAGGAACT-AAGTTATAAAAGA
* * *
6655 AATCATAAAAGTTTGAAAAGTTCGGATGTTCGTCCAAGAATCAAGAGAGAAACAATTCTCACGTA
193 AATCGTAAAAGTTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTA
* * *
6720 AATAAGTTTTTGATATGTTTTGAAGTTTGTCCAAGAACCGAGAGAGAAACAATTCTCACGTAAAT
258 AATAAGTTTTTGATAAGTTTGGAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAAT
*
6785 AAGTTTTTGATAAGT
323 AAGTTTTTGACAAGT
** * * * *
6800 TTGGAAGTTCGTCCAAGAACCAAAAGAGAAACAATTCTCATGTAACTAAGTTATTAATT-AACAG
1 TTCAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAAC-G
* * * * * * *
6864 TCCAAAACTTGTTTACGAAATGACAAACTATTTTTGACCAAATGGTGTGATTTCTCAAGCGTGGA
65 ACCAAAACTTGTTTACAAAATGAC-AACTA-TTTAGACCAAATGATGCGATTTCTCGAGCATGGA
* * **
6929 ATGCTTGAAAATTTGCTCAAAGGAATGGATCTTCTTGAATGGTTTAAGGAACCTAAGTTATAAAA
128 ATG-TTGAAAAATTGCTCAAAGGAATGGATCCTCTTGAATACTTTAAGGAA-CTAAGTTATAAAA
* * * * * *
6994 GAACTCGTGAAAGTTTGACAAGTTCGAAAGTTAGTCCAAGAACCAAAAGAGAAACAATTCTCACG
191 GAAATCGTAAAAGTTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACG
* * * *
7059 TAAGTAAGTTTTTGGTAAGTTCGGAAGTTCT-TCCAAGAACCAAGAGAGAAACAGTTCTCACGTA
256 TAAATAAGTTTTTGATAAGTTTGGAAGTT-TGTCCAAGAACCAAGAGAGAAACAATTCTCACGTA
7123 AATAAGTTTTT
320 AATAAGTTTTT
7134 AATTCAAAGA
Statistics
Matches: 580, Mismatches: 78, Indels: 27
0.85 0.11 0.04
Matches are distributed among these distances:
337 3 0.01
338 199 0.34
339 84 0.14
340 168 0.29
341 125 0.22
342 1 0.00
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (337 bp):
TTCAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTTTTTAATTCAACGA
CCAAAACTTGTTTACAAAATGACAACTATTTAGACCAAATGATGCGATTTCTCGAGCATGGAATG
TTGAAAAATTGCTCAAAGGAATGGATCCTCTTGAATACTTTAAGGAACTAAGTTATAAAAGAAAT
CGTAAAAGTTTGACAAGTTCGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAAT
AAGTTTTTGATAAGTTTGGAAGTTTGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAG
TTTTTGACAAGT
Found at i:7107 original size:62 final size:62
Alignment explanation
Indices: 7013--7133 Score: 188
Period size: 62 Copynumber: 2.0 Consensus size: 62
7003 AAAGTTTGAC
*
7013 AAGTTCGAAAGTTAGTCCAAGAACCAAAAGAGAAACAATTCTCACGTAAGTAAGTTTTTGGT
1 AAGTTCGAAAGTTAGTCCAAGAACCAAAAGAGAAACAATTCTCACGTAAATAAGTTTTTGGT
* ** * *
7075 AAGTTCGGAAGTTCTTCCAAGAACCAAGAGAGAAACAGTTCTCACGTAAATAAGTTTTT
1 AAGTTCGAAAGTTAGTCCAAGAACCAAAAGAGAAACAATTCTCACGTAAATAAGTTTTT
7134 AATTCAAAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 53 1.00
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (62 bp):
AAGTTCGAAAGTTAGTCCAAGAACCAAAAGAGAAACAATTCTCACGTAAATAAGTTTTTGGT
Found at i:7610 original size:62 final size:62
Alignment explanation
Indices: 7488--7614 Score: 173
Period size: 62 Copynumber: 2.0 Consensus size: 62
7478 ATCGTAAAAG
* * * ***
7488 TTTGACAAGTTTGGATGTTCGTCCAAGAACCAAGAGAGAAACAATTCTTTTGTAAATAAGTT
1 TTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
* * *
7550 TTTGACAAGTTCGAAAGTTCGTCCAAGAACCAATATAGAAACAATTCTCACGTAACTAAGTT
1 TTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
7612 TTT
1 TTT
7615 AATTTACAGT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (62 bp):
TTTGACAAGTTCGAAAGTTCGTCCAAGAACCAAGAGAGAAACAATTCTCACGTAAATAAGTT
Found at i:7668 original size:25 final size:27
Alignment explanation
Indices: 7603--7661 Score: 84
Period size: 30 Copynumber: 2.1 Consensus size: 27
7593 ATTCTCACGT
7603 AACT-AAGTTTTTAATTTACAGTCCAA
1 AACTCAAGTTTTTAATTTACAGTCCAA
7629 AACTTACGAAGTTTTTAATTTACAGTCCAA
1 AAC-T-C-AAGTTTTTAATTTACAGTCCAA
7659 AAC
1 AAC
7662 CTGTTTTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
26 3 0.10
27 1 0.03
30 25 0.86
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (27 bp):
AACTCAAGTTTTTAATTTACAGTCCAA
Found at i:8287 original size:215 final size:213
Alignment explanation
Indices: 7637--8339 Score: 753
Period size: 216 Copynumber: 3.3 Consensus size: 213
7627 AAAACTTACG
* * ** * * * *
7637 AAGTTTTTAATTTACAGTCCAAAACCTGTTTTCAAAATGATAAACTATTTTA-ACCAAATGATGT
1 AAGTTTTTAATTCAAACACCAAAACTTGTTTAC-AAATGACAAACTATTTTAGACCAAATGATGC
* * * * * *
7701 GATTTCTTGAGCATGGAATGTTTGGAAAATTGCTCAAAGGAATGGATCGTTTTGAATACATTAAG
65 GATTT-TCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATAC-TTTAG
* * * * * **
7766 GAACTGAAGTTATAAATGAACTCGTAAAAGTTTCG-AATGTTTAGAAATT-AGTCCAAGAATGAA
128 GATC-GAAGTTATAAAAGAACTCGTAAAAGTTT-GAAAAGTTCAGAAGTTCA-TCCAAGAACCAA
*
7829 GAGAGAAACAGTTCTTACGTAAAT
190 GAGAGAAACAATTCTTACGTAAAT
* * * *
7853 AAGATTTTAATTCAAACACCAAAACTTGTTCACAAACTGACAAACTA-TTTATACCAAATTATGC
1 AAGTTTTTAATTCAAACACCAAAACTTGTTTACAAA-TGACAAACTATTTTAGACCAAATGATGC
* * * *
7917 GATTTCCCAAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATAGATCATCTTGAATACTTTCAG
65 GATTT-TCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTT-AG
* * * * * * *
7982 GAATCGAAGTTATAAAAGAAATC-AAAAATGTTTGACAAGTTCGGATGTTCGTCCAAGAGCCAAG
128 G-ATCGAAGTTATAAAAGAACTCGTAAAA-GTTTGAAAAGTTCAGAAGTTCATCCAAGAACCAAG
*
8046 AGAAAAACAATTCTTACGTAAAT
191 AGAGAAACAATTCTTACGTAAAT
* * *
8069 AAGTTTTTAATTCGAAA-ACCAAAACATGTTTACGAAATGACAAAC-ATTTTAGACCATACGATG
1 AAGTTTTTAATTC-AAACACCAAAACTTGTTTAC-AAATGACAAACTATTTTAGACCAAATGATG
*
8132 CGATTTTACGAGCATGGAATGTTCGAAAAATT-CTCGAAGGAATGGATCGTCTTGAGTACTTTAT
64 CGATTTT-CGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTA-
8196 GGTATCGAAGTTATAAAAGAACTCGTAAAAGTTTGAAAAGTTCAGAAGTTCATCCAAGAACCAAG
127 GG-ATCGAAGTTATAAAAGAACTCGTAAAAGTTTGAAAAGTTCAGAAGTTCATCCAAGAACCAAG
*
8261 AGAGAAACAATTCTCACGTAAAT
191 AGAGAAACAATTCTTACGTAAAT
** *
8284 AAGTTACTAATT--AACAGTCCAAAACTTGTTTACAAATGACGAACTATTTT-GACCAA
1 AAGTTTTTAATTCAAACA--CCAAAACTTGTTTACAAATGACAAACTATTTTAGACCAA
8340 GAGATGAATA
Statistics
Matches: 406, Mismatches: 64, Indels: 36
0.80 0.13 0.07
Matches are distributed among these distances:
212 2 0.00
213 1 0.00
214 16 0.04
215 144 0.35
216 235 0.58
217 8 0.02
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.29
Consensus pattern (213 bp):
AAGTTTTTAATTCAAACACCAAAACTTGTTTACAAATGACAAACTATTTTAGACCAAATGATGCG
ATTTTCGAGCATGGAATGTTCGAAAAATTGCTCGAAGGAATGGATCGTCTTGAATACTTTAGGAT
CGAAGTTATAAAAGAACTCGTAAAAGTTTGAAAAGTTCAGAAGTTCATCCAAGAACCAAGAGAGA
AACAATTCTTACGTAAAT
Found at i:8595 original size:39 final size:40
Alignment explanation
Indices: 8496--8595 Score: 166
Period size: 40 Copynumber: 2.5 Consensus size: 40
8486 TTAAATAGGG
8496 TTTTAATGTGTCTTAGTTTGATACATATTTAATAGTTGTT
1 TTTTAATGTGTCTTAGTTTGATACATATTTAATAGTTGTT
*
8536 TTTTAATGTGTCTTATTTTGATACATATTTAATAGTTG-T
1 TTTTAATGTGTCTTAGTTTGATACATATTTAATAGTTGTT
* *
8575 TTTTAAGGTGTCTAAGTTTGA
1 TTTTAATGTGTCTTAGTTTGA
8596 GACAAATTAA
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
39 19 0.34
40 37 0.66
ACGTcount: A:0.25, C:0.05, G:0.16, T:0.54
Consensus pattern (40 bp):
TTTTAATGTGTCTTAGTTTGATACATATTTAATAGTTGTT
Found at i:8677 original size:32 final size:32
Alignment explanation
Indices: 8641--8703 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
8631 AGCCGAAATT
* * *
8641 AATTAGCTGATTAATGTGTTTCAGGTACATGC
1 AATTAGCTGATTAATATATTTCAAGTACATGC
*
8673 AATTAGTTGATTAATATATTTCAAGTACATG
1 AATTAGCTGATTAATATATTTCAAGTACATG
8704 TATGGATGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (32 bp):
AATTAGCTGATTAATATATTTCAAGTACATGC
Found at i:11865 original size:11 final size:11
Alignment explanation
Indices: 11851--11935 Score: 52
Period size: 11 Copynumber: 7.7 Consensus size: 11
11841 GAGTGAGAAT
11851 GAAAAAGAAAA
1 GAAAAAGAAAA
*
11862 GAAAATTG--AA
1 GAAAA-AGAAAA
*
11872 -AAAAAGAAAG
1 GAAAAAGAAAA
*
11882 GAAAAATG-AGA
1 GAAAAA-GAAAA
*
11893 GAAAAAGCAAA
1 GAAAAAGAAAA
**
11904 GAAAGTGAAAA
1 GAAAAAGAAAA
11915 GAAAGAGAGAAAA
1 GAAA-A-AGAAAA
11928 GAAAAAGA
1 GAAAAAGA
11936 TGAAAAGGAA
Statistics
Matches: 55, Mismatches: 11, Indels: 16
0.67 0.13 0.20
Matches are distributed among these distances:
8 1 0.02
9 4 0.07
10 4 0.07
11 34 0.62
12 3 0.05
13 9 0.16
ACGTcount: A:0.71, C:0.01, G:0.24, T:0.05
Consensus pattern (11 bp):
GAAAAAGAAAA
Found at i:11877 original size:20 final size:20
Alignment explanation
Indices: 11852--11920 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
11842 AGTGAGAATG
*
11852 AAAAAGAAAAGAAAATTGAA
1 AAAAAGAAAAGAAAAATGAA
*
11872 AAAAAGAAAGGAAAAATGAGA
1 AAAAAGAAAAGAAAAATGA-A
* *
11893 GAAAAAGCAAAG-AAAGTGAA
1 -AAAAAGAAAAGAAAAATGAA
11913 AAGAAAGA
1 AA-AAAGA
11921 GAGAAAAGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
19 2 0.05
20 22 0.55
21 7 0.17
22 9 0.22
ACGTcount: A:0.71, C:0.01, G:0.22, T:0.06
Consensus pattern (20 bp):
AAAAAGAAAAGAAAAATGAA
Found at i:11928 original size:13 final size:14
Alignment explanation
Indices: 11895--11947 Score: 54
Period size: 13 Copynumber: 3.7 Consensus size: 14
11885 AAATGAGAGA
*
11895 AAAAGCAAAGAAAGTG
1 AAAAG-AAAGAGA-TG
11911 AAAAGAAAGAGA-G
1 AAAAGAAAGAGATG
*
11924 AAAAGAAAAAGATG
1 AAAAGAAAGAGATG
*
11938 AAAAGGAAGA
1 AAAAGAAAGA
11948 AAAAGAGAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
13 12 0.38
14 9 0.28
15 6 0.19
16 5 0.16
ACGTcount: A:0.68, C:0.02, G:0.26, T:0.04
Consensus pattern (14 bp):
AAAAGAAAGAGATG
Found at i:11935 original size:30 final size:26
Alignment explanation
Indices: 11870--11935 Score: 69
Period size: 30 Copynumber: 2.3 Consensus size: 26
11860 AAGAAAATTG
*
11870 AAAAAAAGAAAGGAAAAATGAGAGAA
1 AAAAAAAGAAAGGAAAAAAGAGAGAA
*
11896 AAAGCAAAGAAAGTGAAAAGAAAGAGAGAA
1 AAA-AAAAGAAAG-G-AAA-AAAGAGAGAA
11926 AAGAAAAAGA
1 AA-AAAAAGA
11936 TGAAAAGGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
26 3 0.09
27 8 0.25
28 1 0.03
29 3 0.09
30 16 0.50
31 1 0.03
ACGTcount: A:0.71, C:0.02, G:0.24, T:0.03
Consensus pattern (26 bp):
AAAAAAAGAAAGGAAAAAAGAGAGAA
Done.