Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008258.1 Hibiscus syriacus cultivar Beakdansim tig00110911_pilon, 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: 1617810
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 8
Found at i:1414263 original size:12 final size:12
Alignment explanation
Indices: 1414246--1414304 Score: 73
Period size: 12 Copynumber: 4.9 Consensus size: 12
1414236 CGGGTTTAAA
1414246 AATATTTTTATT
1 AATATTTTTATT
* *
1414258 ATTATTATTATT
1 AATATTTTTATT
* *
1414270 ATTATTATTATT
1 AATATTTTTATT
*
1414282 AATGTTTTTATT
1 AATATTTTTATT
1414294 AATATTTTTAT
1 AATATTTTTAT
1414305 AGGCCCCATG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (12 bp):
AATATTTTTATT
Found at i:1415330 original size:16 final size:16
Alignment explanation
Indices: 1415311--1415349 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
1415301 AGTTACCATT
1415311 ATACCCTACCCGACCC
1 ATACCCTACCCGACCC
*
1415327 ATACCCTACCTGACCC
1 ATACCCTACCCGACCC
1415343 ATACCCT
1 ATACCCT
1415350 TTATTTAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.26, C:0.51, G:0.05, T:0.18
Consensus pattern (16 bp):
ATACCCTACCCGACCC
Found at i:1415635 original size:18 final size:18
Alignment explanation
Indices: 1415612--1415666 Score: 60
Period size: 18 Copynumber: 3.0 Consensus size: 18
1415602 ATTTAACGTG
*
1415612 ATAATTGTAATTATTAATT
1 ATAATT-TAATTATAAATT
1415631 A-AATTTAATATATAAATT
1 ATAATTTAAT-TATAAATT
1415649 ATAATTATAATT-TAAATT
1 ATAATT-TAATTATAAATT
1415667 CAACATGGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
17 4 0.12
18 18 0.56
19 6 0.19
20 4 0.12
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
ATAATTTAATTATAAATT
Found at i:1415654 original size:31 final size:31
Alignment explanation
Indices: 1415588--1415682 Score: 113
Period size: 31 Copynumber: 3.1 Consensus size: 31
1415578 AAATTTATAC
* *
1415588 TAATTATTAATTAAATTTAACGTGATAATTG
1 TAATTATTAATTAAATTTAACATGATAATTA
*
1415619 TAATTATTAATTAAATTTAATAT-ATAAATTA
1 TAATTATTAATTAAATTTAACATGAT-AATTA
* *
1415650 TAATTA-TAATTTAAATTCAACATGGTAATTA
1 TAATTATTAA-TTAAATTTAACATGATAATTA
1415681 TA
1 TA
1415683 TATAATTATA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
30 5 0.09
31 49 0.89
32 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.45
Consensus pattern (31 bp):
TAATTATTAATTAAATTTAACATGATAATTA
Found at i:1418079 original size:14 final size:14
Alignment explanation
Indices: 1418060--1418089 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
1418050 AACTCCCCAC
1418060 TTTTCATTGAGAAA
1 TTTTCATTGAGAAA
1418074 TTTTCATTGAGAAA
1 TTTTCATTGAGAAA
1418088 TT
1 TT
1418090 GAAATTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (14 bp):
TTTTCATTGAGAAA
Found at i:1419652 original size:26 final size:25
Alignment explanation
Indices: 1419589--1419656 Score: 66
Period size: 26 Copynumber: 2.5 Consensus size: 25
1419579 ATGATAACCA
1419589 TGGTTTTATTTTAGTTTAATTACTTAAAT
1 TGGTTTTATTTT--TTT--TTACTTAAAT
*
1419618 TGGTTTTATGTTTTTTTTACTTCAAT
1 TGGTTTTAT-TTTTTTTTACTTAAAT
1419644 T-GTTATTATTTTT
1 TGGTT-TTATTTTT
1419657 ACAATTAAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
25 7 0.19
26 14 0.39
28 3 0.08
29 9 0.25
30 3 0.08
ACGTcount: A:0.21, C:0.04, G:0.10, T:0.65
Consensus pattern (25 bp):
TGGTTTTATTTTTTTTTACTTAAAT
Found at i:1421722 original size:22 final size:22
Alignment explanation
Indices: 1421697--1421776 Score: 58
Period size: 23 Copynumber: 3.7 Consensus size: 22
1421687 AAATCAAAAC
1421697 TTTCTTTTTCAAAATTTTCAAT
1 TTTCTTTTTCAAAATTTTCAAT
* ** * *
1421719 TTTCATTTTTGAAAGCTCTAAAT
1 TTTC-TTTTTCAAAATTTTCAAT
*
1421742 CATT-TTTTTCAAAA-TTTC-AT
1 -TTTCTTTTTCAAAATTTTCAAT
*
1421762 TTTGTTTTTCAAAAT
1 TTTCTTTTTCAAAAT
1421777 CAACTTTTTC
Statistics
Matches: 43, Mismatches: 11, Indels: 9
0.68 0.17 0.14
Matches are distributed among these distances:
19 2 0.05
20 12 0.28
21 2 0.05
22 12 0.28
23 13 0.30
24 2 0.05
ACGTcount: A:0.29, C:0.12, G:0.04, T:0.55
Consensus pattern (22 bp):
TTTCTTTTTCAAAATTTTCAAT
Found at i:1427160 original size:67 final size:66
Alignment explanation
Indices: 1427074--1427228 Score: 195
Period size: 67 Copynumber: 2.3 Consensus size: 66
1427064 TTTCGTCTCG
* *
1427074 CTTGAGGTAGTTTTC-CTTGAAACACAAGTTTTGAAATTGTTTCAATCGAAACATAATTATTATC
1 CTTGAGATA-TTTTCTCTTGAAACACAAGTTTTGAAATTGTTTCAATCGAAACAAAATT-TTATC
1427138 CCA
64 CCA
* * ** * *
1427141 CTTGAGATATTTTCTCTTGAAATACAATTTTTGAAATTGTTTCTCTCGAAATAAAATTTTATCTC
1 CTTGAGATATTTTCTCTTGAAACACAAGTTTTGAAATTGTTTCAATCGAAACAAAATTTTATCCC
1427206 A
66 A
**
1427207 CTTGAGACGTTTTCTCTTGAAA
1 CTTGAGATATTTTCTCTTGAAA
1427229 TATGAATTTT
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
66 32 0.42
67 45 0.58
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.41
Consensus pattern (66 bp):
CTTGAGATATTTTCTCTTGAAACACAAGTTTTGAAATTGTTTCAATCGAAACAAAATTTTATCCC
A
Found at i:1427229 original size:66 final size:66
Alignment explanation
Indices: 1427083--1427243 Score: 200
Period size: 66 Copynumber: 2.4 Consensus size: 66
1427073 GCTTGAGGTA
* *
1427083 GTTTTC-CTTGAAACACAAGTTTTGAAATTGTTTCAATCGAAACATAATTATTATCCCACTTGAG
1 GTTTTCTCTTGAAATACAA-TTTTGAAATTGTTTCAATCGAAACAAAATTATTATCCCACTTGAG
*
1427147 AT
65 AC
* ** * *
1427149 ATTTTCTCTTGAAATACAATTTTTGAAATTGTTTCTCTCGAAATAAAATT-TTATCTCACTTGAG
1 GTTTTCTCTTGAAATACAA-TTTTGAAATTGTTTCAATCGAAACAAAATTATTATCCCACTTGAG
1427213 AC
65 AC
*
1427215 GTTTTCTCTTGAAATATGAATTTTGAAAT
1 GTTTTCTCTTGAAATA-CAATTTTGAAAT
1427244 CATTTCATTC
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
66 43 0.52
67 39 0.48
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.42
Consensus pattern (66 bp):
GTTTTCTCTTGAAATACAATTTTGAAATTGTTTCAATCGAAACAAAATTATTATCCCACTTGAGA
C
Found at i:1427312 original size:37 final size:37
Alignment explanation
Indices: 1427253--1427338 Score: 100
Period size: 37 Copynumber: 2.3 Consensus size: 37
1427243 TCATTTCATT
** *
1427253 CAAAATTTTCATCTCATTTGAGATTGTTTCTCTCGAAA
1 CAAAATTTT-ATCTCACATGAGATAGTTTCTCTCGAAA
* *
1427291 CAAAATTTTATCTCGCATGAGATAGTTTCTCTTGAAA
1 CAAAATTTTATCTCACATGAGATAGTTTCTCTCGAAA
*
1427328 CACAAACTTTA
1 CA-AAATTTTA
1427339 AAATCATTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
37 25 0.61
38 16 0.39
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (37 bp):
CAAAATTTTATCTCACATGAGATAGTTTCTCTCGAAA
Found at i:1427343 original size:99 final size:99
Alignment explanation
Indices: 1427170--1427356 Score: 259
Period size: 99 Copynumber: 1.9 Consensus size: 99
1427160 AAATACAATT
* * * * **
1427170 TTTGAAATTGTTTCTCTCGAAATAAAATTTTATCTCACTTGAGACGTTTTCTCTTGAAATATGAA
1 TTTGAAATTGTTTCTCTCGAAACAAAATTTTATCTCACATGAGAAGTTTTCTCTTGAAACACAAA
* * *
1427235 TTTTGAAATCATTTCATTCAAAATTTTCATCTCA
66 CTTTAAAATCATTTCACTCAAAATTTTCATCTCA
* *
1427269 TTTGAGATTGTTTCTCTCGAAACAAAATTTTATCTCGCATGAGATAG-TTTCTCTTGAAACACAA
1 TTTGAAATTGTTTCTCTCGAAACAAAATTTTATCTCACATGAGA-AGTTTTCTCTTGAAACACAA
1427333 ACTTTAAAATCATTTCACTCAAAA
65 ACTTTAAAATCATTTCACTCAAAA
1427357 GAAAAATATC
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
99 75 0.99
100 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.41
Consensus pattern (99 bp):
TTTGAAATTGTTTCTCTCGAAACAAAATTTTATCTCACATGAGAAGTTTTCTCTTGAAACACAAA
CTTTAAAATCATTTCACTCAAAATTTTCATCTCA
Found at i:1427396 original size:32 final size:32
Alignment explanation
Indices: 1427355--1427427 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
1427345 TTTCACTCAA
1427355 AAGAAAAATATCACCTGAGATAACTTCTCTTG
1 AAGAAAAATATCACCTGAGATAACTTCTCTTG
1427387 AAGAAAAATATCACCTGAGATAACTTCTCTTG
1 AAGAAAAATATCACCTGAGATAACTTCTCTTG
*
1427419 AAGCAAAAT
1 AAGAAAAAT
1427428 TCTTTTCACT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (32 bp):
AAGAAAAATATCACCTGAGATAACTTCTCTTG
Found at i:1428083 original size:14 final size:14
Alignment explanation
Indices: 1428064--1428103 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
1428054 TAAAAAATTG
* *
1428064 GAAAAATAGAGAGA
1 GAAAAAGAGAAAGA
1428078 GAAAAAGAGAAAGA
1 GAAAAAGAGAAAGA
1428092 GAAAAAGAGAAA
1 GAAAAAGAGAAA
1428104 ATTGAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.03
Consensus pattern (14 bp):
GAAAAAGAGAAAGA
Found at i:1428118 original size:7 final size:7
Alignment explanation
Indices: 1428108--1428160 Score: 60
Period size: 6 Copynumber: 7.9 Consensus size: 7
1428098 GAGAAAATTG
1428108 AAAAAAT
1 AAAAAAT
1428115 AAAAAAT
1 AAAAAAT
1428122 -AAAAAT
1 AAAAAAT
1428128 -AAAAAT
1 AAAAAAT
1428134 AAAAGAA-
1 AAAA-AAT
1428141 AAAAAA-
1 AAAAAAT
1428147 AAAAAAT
1 AAAAAAT
1428154 GAAAAAA
1 -AAAAAA
1428161 ACAATCCTTA
Statistics
Matches: 42, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
6 20 0.48
7 14 0.33
8 8 0.19
ACGTcount: A:0.87, C:0.00, G:0.04, T:0.09
Consensus pattern (7 bp):
AAAAAAT
Found at i:1430068 original size:138 final size:139
Alignment explanation
Indices: 1429811--1430206 Score: 512
Period size: 138 Copynumber: 2.8 Consensus size: 139
1429801 AATGTTCCAT
* * *
1429811 AATTGACAAGGTTAATAATTAAAGCCTCCATTTTAGGCTTAATTTCAAACGTAGTCCTTAAATTT
1 AATTGACTAGGTTAATAATTAGAGCCTCCATTTTAGGCTTAATTTCAAACTTAGTCCTTAAATTT
* * * * *
1429876 AGAAGAATTTTTTTAATTTGGTACTCGTTTTTGCTCGAGGTTCCATGTTGATTATCCAAATCAAA
66 AG-GGGA-TTTTTTAATTTGGTCCTCGTTTTTGCTCGAGGTTCCATTTTAATTATCCAAATC-AA
1429941 T-AATTGATTAA
128 TGAATTGATTAA
*
1429952 AATTGACTATGTTAATAATTAGAGCCTCCA-TTTAGGCTTAATTTCAAACTTAGTCCTTAAATTT
1 AATTGACTAGGTTAATAATTAGAGCCTCCATTTTAGGCTTAATTTCAAACTTAGTCCTTAAATTT
* * *
1430016 AGGGGATTTTTTAATTTGGTCCTCGGTTTTGCTCGAGGTTCCATTTTAATTATTCGAATCAATGA
66 AGGGGATTTTTTAATTTGGTCCTCGTTTTTGCTCGAGGTTCCATTTTAATTATCCAAATCAATGA
1430081 ATTGATTAA
131 ATTGATTAA
* * * * * * *
1430090 AACTGACTAGGTTAATAATTAGAGCCTCAATTTTAGGTTTAGTTT-TAACTTAATCCCTT-CATT
1 AATTGACTAGGTTAATAATTAGAGCCTCCATTTTAGGCTTAATTTCAAACTTAGT-CCTTAAATT
* * * * *
1430153 TAGGGGAATTGTTGATTTGGTCATCGTTTTTGCTCGAGGTTCCATTTTTATTAT
65 TAGGGGATTTTTTAATTTGGTCCTCGTTTTTGCTCGAGGTTCCATTTTAATTAT
1430207 TCCACTCAAT
Statistics
Matches: 226, Mismatches: 26, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
137 3 0.01
138 143 0.63
139 18 0.08
140 35 0.15
141 27 0.12
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.42
Consensus pattern (139 bp):
AATTGACTAGGTTAATAATTAGAGCCTCCATTTTAGGCTTAATTTCAAACTTAGTCCTTAAATTT
AGGGGATTTTTTAATTTGGTCCTCGTTTTTGCTCGAGGTTCCATTTTAATTATCCAAATCAATGA
ATTGATTAA
Found at i:1432215 original size:60 final size:58
Alignment explanation
Indices: 1432089--1432273 Score: 203
Period size: 60 Copynumber: 3.1 Consensus size: 58
1432079 CACGTTCTTC
* * * *
1432089 AATTATGATTCTCATTTTAAA-TAGTCCCTAAACTTTTAAACATTTCAATATAATCCCTA
1 AATTATGATTATTATTTTAAATTAGTCCCTAAACTTTT-AACATTTCAATTTCATCCC-A
* * *
1432148 AACTATGATTATTATTTTAAATTAGTACTTAAACTTTTAATCATTTCAATTTCATCCACA
1 AATTATGATTATTATTTTAAATTAGTCCCTAAACTTTTAA-CATTTCAATTTCATCC-CA
* * *
1432208 AATTATGA-TATTCATTCTAAATTGGTCCCCAAACTTTTTGAACATTTCAATTTCATCCCA
1 AATTATGATTATT-ATTTTAAATTAGTCCCTAAAC-TTTT-AACATTTCAATTTCATCCCA
1432268 AATTAT
1 AATTAT
1432274 ACATATATAC
Statistics
Matches: 107, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
59 24 0.22
60 60 0.56
61 21 0.20
62 2 0.02
ACGTcount: A:0.36, C:0.18, G:0.04, T:0.42
Consensus pattern (58 bp):
AATTATGATTATTATTTTAAATTAGTCCCTAAACTTTTAACATTTCAATTTCATCCCA
Found at i:1432494 original size:58 final size:60
Alignment explanation
Indices: 1432381--1432539 Score: 187
Period size: 58 Copynumber: 2.7 Consensus size: 60
1432371 GAGGATTTAG
* * * * *
1432381 AAGTTTGAGGACCAATTTAGAATGATATTCATAGTTTGGGGATGAAATTAGAATATTCAA
1 AAGTTTAAGGATCAATTTAGAATGATAGTCATAGTTTGGGAATGAAATTAAAATATTCAA
* ** *
1432441 AAGTTTAAGGATTAATTTAGAAT-A-AGTCATAGTTTGGGAATGGTATTAAAATATTTAA
1 AAGTTTAAGGATCAATTTAGAATGATAGTCATAGTTTGGGAATGAAATTAAAATATTCAA
* ** *
1432499 AAGTTTAAGGATCAATTTAAAATGAGGGTCATAATTTGGGA
1 AAGTTTAAGGATCAATTTAGAATGATAGTCATAGTTTGGGA
1432540 TGTAACTAAC
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
58 49 0.58
59 2 0.02
60 33 0.39
ACGTcount: A:0.40, C:0.04, G:0.21, T:0.35
Consensus pattern (60 bp):
AAGTTTAAGGATCAATTTAGAATGATAGTCATAGTTTGGGAATGAAATTAAAATATTCAA
Found at i:1435549 original size:198 final size:198
Alignment explanation
Indices: 1435210--1435572 Score: 564
Period size: 198 Copynumber: 1.8 Consensus size: 198
1435200 AGGTAATTAC
* * * * *
1435210 AAAATAATATATGTTCATAATATTTCTTAATCGTTAATAACACACCCCCTACAAACATAGTTGCT
1 AAAATAATATATGTTCATAATATCTCTTAATCATTAACAACACACACCCTACAAACATAATTGCT
* *** * * *
1435275 CGAACTTGAGACCTCTAGAGAAAACAACACTCTCTTTAACCACTTAGGTTGCTTGATAGGTTCTT
66 CAAACCAAAGACCTCTAGAGAAAACAACACTCTCTTTAACCACTGAGGTCGCTTGATAGGTTCTA
*
1435340 CCATTATGCAGTTGTAAGTATATATAATATAGACTGTAATAATTATTATTAGAATTAGGCTTAAT
131 CCATGATGCAGTTGTAAGTATATATAATATAGACTGTAATAATTATTATTAGAATTAGGCTTAAT
1435405 GCA
196 GCA
* *
1435408 AAAATAATATATGTTCATAATCTCTCTTACTCATTAACAACACACACCCTACAAACATAATTGCT
1 AAAATAATATATGTTCATAATATCTCTTAATCATTAACAACACACACCCTACAAACATAATTGCT
* *
1435473 CAAACCAAAGACCTCTAGAGAGAACAACACTCTCTTTAACCACTGAGGTCGCTTGATGGGTTCTA
66 CAAACCAAAGACCTCTAGAGAAAACAACACTCTCTTTAACCACTGAGGTCGCTTGATAGGTTCTA
*
1435538 CCATGATGCAGTTGTAAGTATATATAATATGGACT
131 CCATGATGCAGTTGTAAGTATATATAATATAGACT
1435573 CCAATAATAA
Statistics
Matches: 147, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
198 147 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.32
Consensus pattern (198 bp):
AAAATAATATATGTTCATAATATCTCTTAATCATTAACAACACACACCCTACAAACATAATTGCT
CAAACCAAAGACCTCTAGAGAAAACAACACTCTCTTTAACCACTGAGGTCGCTTGATAGGTTCTA
CCATGATGCAGTTGTAAGTATATATAATATAGACTGTAATAATTATTATTAGAATTAGGCTTAAT
GCA
Found at i:1436432 original size:21 final size:22
Alignment explanation
Indices: 1436408--1436448 Score: 59
Period size: 20 Copynumber: 1.9 Consensus size: 22
1436398 GATGTGAGAA
1436408 GTTAACAAAATT-T-TATTAAAG
1 GTTAA-AAAATTATATATTAAAG
1436429 GTTAAAAAATTATATATTAA
1 GTTAAAAAATTATATATTAA
1436449 GATGCAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 6 0.33
22 6 0.33
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.39
Consensus pattern (22 bp):
GTTAAAAAATTATATATTAAAG
Found at i:1436476 original size:63 final size:63
Alignment explanation
Indices: 1436375--1436500 Score: 200
Period size: 63 Copynumber: 2.0 Consensus size: 63
1436365 CAAATCAAAT
* *
1436375 TTATATTTTAAGATGCAAGAAAAGATGTGAGAAGTTAACAAAATTTT-ATTAAAGGTTAAAAAA
1 TTATATATTAAGATGCAAGAAAAGATGTGAAAAGTTAAC-AAATTTTGATTAAAGGTTAAAAAA
* *
1436438 TTATATATTAAGATGCAAGAAAATATGTGAAAATTTAACAAATTTTGATTAAAGGTTAAAAAA
1 TTATATATTAAGATGCAAGAAAAGATGTGAAAAGTTAACAAATTTTGATTAAAGGTTAAAAAA
1436501 AGAAAGGTGT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
62 7 0.12
63 51 0.88
ACGTcount: A:0.50, C:0.03, G:0.14, T:0.33
Consensus pattern (63 bp):
TTATATATTAAGATGCAAGAAAAGATGTGAAAAGTTAACAAATTTTGATTAAAGGTTAAAAAA
Found at i:1437595 original size:18 final size:18
Alignment explanation
Indices: 1437572--1437611 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
1437562 GACCGTTGGA
*
1437572 TGAGTGGAAATAGATGGT
1 TGAGTGAAAATAGATGGT
1437590 TGAGTGAAAATAGATGGT
1 TGAGTGAAAATAGATGGT
1437608 TGAG
1 TGAG
1437612 ATTTACTCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.38, T:0.28
Consensus pattern (18 bp):
TGAGTGAAAATAGATGGT
Found at i:1440116 original size:23 final size:23
Alignment explanation
Indices: 1440069--1440118 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
1440059 AATAACATAT
* **
1440069 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCACTTATATAATAAAA
*
1440092 TAGGTATCACTTATATAATAAAA
1 TAGGTAGCACTTATATAATAAAA
1440115 TAGG
1 TAGG
1440119 CATTTAACCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.34
Consensus pattern (23 bp):
TAGGTAGCACTTATATAATAAAA
Found at i:1440178 original size:87 final size:87
Alignment explanation
Indices: 1440032--1440193 Score: 270
Period size: 87 Copynumber: 1.9 Consensus size: 87
1440022 TATGTTATAT
* *
1440032 CATTTAACCGGAAATATTATCAAGCATAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCGGAAATATTATCAAGCACAATAACAAATTAGGTAGCGCTTATATAATGTAATAGGT
*
1440097 ATCACTTATATAATAAAATAGG
66 AGCACTTATATAATAAAATAGG
* *
1440119 CATTTAACCGGAAATATTATCAAGTACAATAACAAATTTGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACCGGAAATATTATCAAGCACAATAACAAATTAGGTAGCGCTTATATAATGTAATAGGT
*
1440184 AGCGCTTATA
66 AGCACTTATA
1440194 CTGACATATT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 69 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (87 bp):
CATTTAACCGGAAATATTATCAAGCACAATAACAAATTAGGTAGCGCTTATATAATGTAATAGGT
AGCACTTATATAATAAAATAGG
Found at i:1440579 original size:198 final size:197
Alignment explanation
Indices: 1440222--1440711 Score: 580
Period size: 198 Copynumber: 2.5 Consensus size: 197
1440212 AAACCGATAA
* * * * *
1440222 ATTTAAACCGGTTACATTATAAATTGACCTATTACATTATAAATATCGGTTTCGATGTTTTCGGG
1 ATTTTAACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGATTTCGATG-TTTCGGG
* * * *
1440287 ATCGATACAATTTT-AAATGTATCGACACTTTATGCGTGCAACTCGTTTGTGCTTTATTTTGGAA
65 ATCGATAC-TTTTTAAAATGTATCGACACTTTATGCGTACAACTCGTTTGTCCTTCATTTTGGAA
* * * * *
1440351 AAAAGTATCGACACATATTTAAAGAGTGTCGATACATAATGTAGACCTATT-TGCTAATTAA-TC
129 AAAAGTATCGACACAAATTAAAAAAGTGTCGATACATAATGTAGACCTATTCT-CTAATGAACCC
1440414 GGTAT
193 GGTAT
* * *
1440419 ATTTTAACCAGTTACATTGTAAATTTACCTGTTACATAATAATTATCGATTTCGATGTTTCGAGG
1 ATTTTAACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGATTTCGATGTTTCG-GG
* *
1440484 ATCCATACTTTTTAAAAATGTATCGACACTTTATGCGTACACCTCGTTTG-CCATTCATTTTGGA
65 ATCGATACTTTTT-AAAATGTATCGACACTTTATGCGTACAACTCGTTTGTCC-TTCATTTTGGA
* * * * *
1440548 AAAATGTATCGACACAAATTAAAAAAGTGTCGATACTTTATGTTGACCTATTCTCTCATGAACCC
128 AAAAAGTATCGACACAAATTAAAAAAGTGTCGATACATAATGTAGACCTATTCTCTAATGAACCC
1440613 GGTAT
193 GGTAT
* * *
1440618 ATTTCT-ACCGGTTACATTGGAAATTTACCTATTACATTATAATTATCAGTCTCTTTGAT-TTT-
1 ATTT-TAACCGGTTACATTGTAAATTTACCTATTACATTATAATTATC-G-AT-TTCGATGTTTC
*
1440680 GGGATCGATACTTGTTATAAATGTATCGACAC
62 GGGATCGATACTTTTTA-AAATGTATCGACAC
1440712 AAAATCTAAC
Statistics
Matches: 250, Mismatches: 32, Indels: 20
0.83 0.11 0.07
Matches are distributed among these distances:
196 9 0.04
197 59 0.24
198 95 0.38
199 75 0.30
200 3 0.01
201 4 0.02
202 5 0.02
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (197 bp):
ATTTTAACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGATTTCGATGTTTCGGGA
TCGATACTTTTTAAAATGTATCGACACTTTATGCGTACAACTCGTTTGTCCTTCATTTTGGAAAA
AAGTATCGACACAAATTAAAAAAGTGTCGATACATAATGTAGACCTATTCTCTAATGAACCCGGT
AT
Found at i:1444214 original size:197 final size:198
Alignment explanation
Indices: 1443876--1444986 Score: 1407
Period size: 196 Copynumber: 5.6 Consensus size: 198
1443866 ACTAATTTAA
* * * * * *
1443876 AAAGTATTGATACATTATGTAGACCTATTTTCTCATAA-AACTGGTAAATTTAAATCGGTTACAT
1 AAAGTATCGATACATTATGTATACCTATTTT-T--TAATAACCGGTATATTTAGACCGGTTACAT
* * * * * * *
1443940 TGTAAAGTGACCTATTACATTATAATTACGGGTTTTGATGTTTTTAGGATCGACACTTTTTCTAA
63 TGTTATGTTACCTATTACATTATAATTACGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAA
*
1444005 ATATATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTTGACACAA
128 ATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTTGACACAA
1444070 ATGTAT
193 ATGTAT
1444076 AAAGTATCGATACATTATGTATACCT-TTTTTTAATAACCGGTATATTTAGACCGGTTACATTGT
1 AAAGTATCGATACATTATGTATACCTATTTTTTAATAACCGGTATATTTAGACCGGTTACATTGT
*
1444140 TATGTTACCTATTACATTATAATTACGGGTTTCGATGTTTTCGGGATCGACACTTGTTATAAATG
66 TATGTTACCTATTACATTATAATTACGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATG
*
1444205 TATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTAT-GACATAAAGTGTCGACACAAATG
131 TATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTTGACACAAATG
1444269 TAT
196 TAT
*
1444272 AAAGTATCGATACATTATGTATACCTTTTTTTTAATAA-CGGTATATTTAGACCGGTTACATTGT
1 AAAGTATCGATACATTATGTATACCTATTTTTTAATAACCGGTATATTTAGACCGGTTACATTGT
*
1444336 TATGTTACCTATTACATTATAATTACGGGTTTTGATGTTTTTGGGATCGACACTTGTTATAAATG
66 TATGTTACCTATTACATTATAATTACGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATG
*
1444401 TATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACGTAAAGTGTCT-ACACAAAT
131 TATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGT-TGACACAAAT
1444465 GTAT
195 GTAT
* * *
1444469 AAAGTATCGATACATTATGTATACCTTTCTTTTTTAATAACCAGTATATTTAGACCGGGTACATT
1 AAAGTATCGATACATTATGTATACC--TATTTTTTAATAACCGGTATATTTAGACCGGTTACATT
* *
1444534 GTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTTGGGATCGACACTTGTTATAAA
64 GTTATGTTACCTATTACATTATAATTACGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAA
* ** * *
1444599 TGTATCGACACTTTTTTCGTGCACTTGGTTTGG-AAATACATTCTGGACA-ACA-TGTATCGACA
129 TGTATCGACAC-TTTTTCGTGAACTT-GTTTGGAAAATTTATTATGGACATAAAGTGT-T-GACA
*
1444661 CAAATGAAT
190 CAAATGTAT
* ** * * * * **
1444670 AAAGTGTTAATACA-TATTGTAGACATATTTTCTCATAA-AACCGGTAAATTTAAATTGGTTACA
1 AAAGTATCGATACATTA-TGTATACCTATTTT-T--TAATAACCGGTATATTTAGACCGGTTACA
* * * * * * *
1444733 TTATAAAGTGACCTATTACATTATAGTTATGGGTTTCGATGTTTTTGGGATCGACACTTGATATA
62 TTGTTATGTTACCTATTACATTATAATTACGGGTTTCGATGTTTTTGGGATCGACACTTGTTATA
* ** * * *
1444798 AATGTATCGACACTTATGT-GTGAACTTGTTTTGGTTGAAAAATACATTATGGACACAAAGTATC
127 AATGTATCGACACTT-TTTCGTGAACTTG-TTT-G--G-AAAATTTATTATGGACATAAAGTGTT
1444862 GACACAAATGTAT
186 GACACAAATGTAT
* * * * * *
1444875 AAAGTGTCGATACTTTATGTATACCTCTTTTCTCATAAACCGATATATTTAGACCGGTTACATTG
1 AAAGTATCGATACATTATGTATACCTATTTTTTAAT-AACCGGTATATTTAGACCGGTTACATTG
* * *
1444940 TTATTTTACCTATTACATTATAATTATGGGTCTCGATGTTTTTGGGA
65 TTATGTTACCTATTACATTATAATTACGGGTTTCGATGTTTTTGGGA
1444987 CGCTTATCAT
Statistics
Matches: 804, Mismatches: 80, Indels: 50
0.86 0.09 0.05
Matches are distributed among these distances:
196 184 0.23
197 181 0.23
198 1 0.00
199 26 0.03
200 136 0.17
201 146 0.18
202 11 0.01
203 1 0.00
204 63 0.08
205 49 0.06
206 4 0.00
207 2 0.00
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (198 bp):
AAAGTATCGATACATTATGTATACCTATTTTTTAATAACCGGTATATTTAGACCGGTTACATTGT
TATGTTACCTATTACATTATAATTACGGGTTTCGATGTTTTTGGGATCGACACTTGTTATAAATG
TATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGACATAAAGTGTTGACACAAATG
TAT
Found at i:1444353 original size:196 final size:198
Alignment explanation
Indices: 1443855--1444986 Score: 1436
Period size: 197 Copynumber: 5.7 Consensus size: 198
1443845 GTAATTTTAA
* * * * * * *
1443855 AAAGTATCGACACTAATTTAAAAAGTATTGATACATTATGTAGACCTATTTTCTCATAA-AACTG
1 AAAGTATCGACACAAATGTATAAAGTATCGATACATTATGTATACCT-TTTT-T-TTAATAACCG
* * * * * * *
1443919 GTAAATTTAAATCGGTTACATTGTAAAGTGACCTATTACATTATAATTACGGGTTTTGATGTTTT
63 GTATATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTACGGGTTTCGATGTTTT
* * * *
1443984 TAGGATCGACACTTTTTCTAAATATATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTAT
128 TGGGATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTAT
1444049 GGACAT
193 GGACAT
* *
1444055 AAAGTGTTGACACAAATGTATAAAGTATCGATACATTATGTATACC-TTTTTTTAATAACCGGTA
1 AAAGTATCGACACAAATGTATAAAGTATCGATACATTATGTATACCTTTTTTTTAATAACCGGTA
*
1444119 TATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTACGGGTTTCGATGTTTTCGG
66 TATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTACGGGTTTCGATGTTTTTGG
1444184 GATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTAT-GA
131 GATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGA
1444248 CAT
196 CAT
*
1444251 AAAGTGTCGACACAAATGTATAAAGTATCGATACATTATGTATACCTTTTTTTTAATAA-CGGTA
1 AAAGTATCGACACAAATGTATAAAGTATCGATACATTATGTATACCTTTTTTTTAATAACCGGTA
*
1444315 TATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTACGGGTTTTGATGTTTTTGG
66 TATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTACGGGTTTCGATGTTTTTGG
1444380 GATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGA
131 GATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGA
*
1444445 CGT
196 CAT
* * *
1444448 AAAGTGTCTACACAAATGTATAAAGTATCGATACATTATGTATACCTTTCTTTTTTAATAACCAG
1 AAAGTATCGACACAAATGTATAAAGTATCGATACATTATGTATACC-TT-TTTTTTAATAACCGG
* * *
1444513 TATATTTAGACCGGGTACATTGTTATGTTACCTATTACATTATAATTATGTGTTTCGATGTTTTT
64 TATATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTACGGGTTTCGATGTTTTT
* ** *
1444578 GGGATCGACACTTGTTATAAATGTATCGACACTTTTTTCGTGCACTTGGTTTGG-AAATACATTC
129 GGGATCGACACTTGTTATAAATGTATCGACAC-TTTTTCGTGAACTT-GTTTGGAAAATTTATTA
1444642 TGGACA-
192 TGGACAT
* * * ** * * *
1444648 ACATGTATCGACACAAATGAATAAAGTGTTAATACA-TATTGTAGACATATTTTCTCATAA-AAC
1 A-AAGTATCGACACAAATGTATAAAGTATCGATACATTA-TGTATACCT-TTTT-T-TTAATAAC
* * ** * * * * * *
1444711 CGGTAAATTTAAATTGGTTACATTATAAAGTGACCTATTACATTATAGTTATGGGTTTCGATGTT
61 CGGTATATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTACGGGTTTCGATGTT
* *
1444776 TTTGGGATCGACACTTGATATAAATGTATCGACACTTATGT-GTGAACTTGTTTTGGTTGAAAAA
126 TTTGGGATCGACACTTGTTATAAATGTATCGACACTT-TTTCGTGAACTTG-TTT-G--G-AAAA
** *
1444840 TACATTATGGACAC
185 TTTATTATGGACAT
* * * * * *
1444854 AAAGTATCGACACAAATGTATAAAGTGTCGATACTTTATGTATACCTCTTTTCTCATAAACCGAT
1 AAAGTATCGACACAAATGTATAAAGTATCGATACATTATGTATACCTTTTTTTTAAT-AACCGGT
* * *
1444919 ATATTTAGACCGGTTACATTGTTATTTTACCTATTACATTATAATTATGGGTCTCGATGTTTTTG
65 ATATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTACGGGTTTCGATGTTTTTG
1444984 GGA
130 GGA
1444987 CGCTTATCAT
Statistics
Matches: 824, Mismatches: 84, Indels: 44
0.87 0.09 0.05
Matches are distributed among these distances:
196 183 0.22
197 184 0.22
198 6 0.01
199 12 0.01
200 153 0.19
201 153 0.19
202 11 0.01
203 2 0.00
204 66 0.08
205 51 0.06
206 3 0.00
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (198 bp):
AAAGTATCGACACAAATGTATAAAGTATCGATACATTATGTATACCTTTTTTTTAATAACCGGTA
TATTTAGACCGGTTACATTGTTATGTTACCTATTACATTATAATTACGGGTTTCGATGTTTTTGG
GATCGACACTTGTTATAAATGTATCGACACTTTTTCGTGAACTTGTTTGGAAAATTTATTATGGA
CAT
Found at i:1448247 original size:198 final size:198
Alignment explanation
Indices: 1448062--1449210 Score: 1911
Period size: 198 Copynumber: 5.9 Consensus size: 198
1448052 TGACCATTTA
* *
1448062 CATTCTGGA-AAAAACGTATCGACACAAATTAAA-AGAGTGTTGATACTTTATGTACACCTGTTT
1 CATTCTGGACACAAA-GTATCGACACAAATTAAATA-AGTGTCGATACTTTATGTACACCTGTTT
*
1448125 TCTCATAAACCGGTGTATTTAGATCGGTTAGATTCATAATTTA-CTATTACATTATAATTATGGG
64 TCTCATAAACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGG
* * * *
1448189 TCTCAATGTTTTTGGGATCGATACTTGTTATAAATGTATTGGCACATTTCCATGCACTTGGTAAG
129 TCTCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAG
1448254 GAAAT
194 GAAAT
1448259 CATTCTGGACACAAAGTATCGACACAAATTAAATAAGTGTCGATAC--T-T-T--A--TG-----
1 CATTCTGGACACAAAGTATCGACACAAATTAAATAAGTGTCGATACTTTATGTACACCTGTTTTC
*
1448311 T-ATACA-CGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTC
66 TCATAAACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTC
*
1448374 TCGATGTTTTTGGGATCGATACTTGTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGGA
131 TCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGGA
1448439 AAT
196 AAT
* * *
1448442 CATTCTAGACACAAAGTATCGACACAAATTAAATAAGTGTCAATACTTTATGTACACCTATTTTC
1 CATTCTGGACACAAAGTATCGACACAAATTAAATAAGTGTCGATACTTTATGTACACCTGTTTTC
*
1448507 TCATAAACCGGTGTATTTAGACTGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTC
66 TCATAAACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTC
** * * *
1448572 TCGATGTTTTTGAAATCGATACTTTTTATAAATATATCGACACATTTCCATGAAGTTGGTAAGGA
131 TCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGGA
1448637 AAT
196 AAT
* *
1448640 CATTCTGGACACAAAGTATCGACACAAATTCAACAAGTGTCGATACTTTATGTACACCTGTTTTC
1 CATTCTGGACACAAAGTATCGACACAAATTAAATAAGTGTCGATACTTTATGTACACCTGTTTTC
* *
1448705 TCATAAACCGGTGTATTTAGACCGATTAGATTCATAATTTACCTATTACATTGTAATTATGGGTC
66 TCATAAACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTC
*
1448770 TCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCTACACATTTCCATGCACTTGGTAAGGA
131 TCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGGA
1448835 AAT
196 AAT
*
1448838 AATTCTGGACACAAAGTATCGACACAAATTAAATAAGTGTCGATACTTTATGTACACCTGTTTTC
1 CATTCTGGACACAAAGTATCGACACAAATTAAATAAGTGTCGATACTTTATGTACACCTGTTTTC
1448903 TCATAAACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTC
66 TCATAAACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTC
*
1448968 TCGATGTTTTTAGGATCGATACTTTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGGA
131 TCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGGA
1449033 AAT
196 AAT
*
1449036 CATTCTGGACACAAAGTATCGACACAAATTAAATAAGTGTCGATACTTTATGTACACATGTTTTC
1 CATTCTGGACACAAAGTATCGACACAAATTAAATAAGTGTCGATACTTTATGTACACCTGTTTTC
*
1449101 TCATAAACCGGTGTATTTAGATCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTC
66 TCATAAACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTC
1449166 TCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACAT
131 TCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACAT
1449211 ATGTTTACCA
Statistics
Matches: 891, Mismatches: 43, Indels: 35
0.92 0.04 0.04
Matches are distributed among these distances:
182 32 0.04
183 136 0.15
184 1 0.00
185 1 0.00
186 1 0.00
187 1 0.00
189 3 0.00
191 2 0.00
193 1 0.00
194 1 0.00
195 1 0.00
196 1 0.00
197 41 0.05
198 669 0.75
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.37
Consensus pattern (198 bp):
CATTCTGGACACAAAGTATCGACACAAATTAAATAAGTGTCGATACTTTATGTACACCTGTTTTC
TCATAAACCGGTGTATTTAGACCGGTTAGATTCATAATTTACCTATTACATTATAATTATGGGTC
TCGATGTTTTTGGGATCGATACTTTTTATAAATGTATCGACACATTTCCATGCACTTGGTAAGGA
AAT
Found at i:1449564 original size:19 final size:19
Alignment explanation
Indices: 1449540--1449589 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
1449530 TTACATTCAC
*
1449540 ATACAAAATTATAAATCGT
1 ATACAAAATTAAAAATCGT
*
1449559 ATACAAAATTAAAAATCTT
1 ATACAAAATTAAAAATCGT
1449578 ATACAAAATTAA
1 ATACAAAATTAA
1449590 CCCTACATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.30
Consensus pattern (19 bp):
ATACAAAATTAAAAATCGT
Found at i:1454036 original size:177 final size:173
Alignment explanation
Indices: 1453576--1454113 Score: 687
Period size: 177 Copynumber: 3.1 Consensus size: 173
1453566 AACATAACCA
* * *
1453576 GTTTTGTCATTTCGAT-ACCGGTTTGTCATATTTACCTATTATATTGTTATGGATCGATACATTT
1 GTTTTATCATTTCGGTGACCGGTTTGTCAT-TTTACCTGTTATATTGTTATGGATCGATACATTT
* *
1453640 CATAAAGTATCGACATTT-TAGGCGCTATAACTTCTTCTCTTTTAAATTACGAAAGTGTCGATAC
65 TATAAAGTATCGACATTTATAGGCGCTATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATAC
* *
1453704 TTATATTATTTATCGACACTTTCAATAT-CCGGTAGCTTTTACCG
130 TTATATTA-CTATCGACACTTTCAATATATCGGTAGCTTTTACCG
* * *
1453748 GTTTTATC--TTC-GAGACCTGTTTGTCATATTCTTACCTGTTATATTGCTATGGATCGATACAT
1 GTTTTATCATTTCGGTGACCGGTTTGTC--ATT-TTACCTGTTATATTGTTATGGATCGATACAT
* *
1453810 TGTATAAAATATCGACAGTTTATAGGCGCTATAACTTCTTCTCTTTTAAATT-CAAAAGTGTCGA
63 TTTATAAAGTATCGACA-TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGA
1453874 TACTTATATTACGTATCGACACTTTCAATATATCGGTAGCTCTTTACCG
127 TACTTATATTAC-TATCGACACTTTCAATATATCGGTAGCT-TTTACCG
* *
1453923 GTTTTATCATTTCGGTGACCGGTTTTGTCATTATACCTGTTATATTGTTATGGATCGATACGTTT
1 GTTTTATCATTTCGGTGACCGG-TTTGTCATTTTACCTGTTATATTGTTATGGATCGATAC-ATT
* * *
1453988 TTATAAAGTATCGACACTTTATAGGCGCTATTACTTCTTCTCTTTTAAATTCCAAAAGTGTCAAT
64 TTATAAAGTATCGACA-TTTATAGGCGCTATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGAT
* * *
1454053 ACTTAT-TTAAATCTAATCGATACTTTCGATATATCCAGTAGCTATTTACCG
128 ACTTATATT--A-CT-ATCGACACTTTCAATATAT-CGGTAGCT-TTTACCG
1454104 GTTTTATCAT
1 GTTTTATCAT
1454114 AATGAAACCG
Statistics
Matches: 320, Mismatches: 26, Indels: 31
0.85 0.07 0.08
Matches are distributed among these distances:
170 13 0.04
171 1 0.00
172 52 0.16
173 43 0.13
174 38 0.12
175 15 0.05
176 27 0.08
177 57 0.18
178 24 0.08
179 8 0.03
180 18 0.06
181 24 0.08
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.42
Consensus pattern (173 bp):
GTTTTATCATTTCGGTGACCGGTTTGTCATTTTACCTGTTATATTGTTATGGATCGATACATTTT
ATAAAGTATCGACATTTATAGGCGCTATAACTTCTTCTCTTTTAAATTACAAAAGTGTCGATACT
TATATTACTATCGACACTTTCAATATATCGGTAGCTTTTACCG
Found at i:1454125 original size:20 final size:20
Alignment explanation
Indices: 1454100--1454154 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
1454090 GTAGCTATTT
1454100 ACCGGTTTTATCATAATGAA
1 ACCGGTTTTATCATAATGAA
1454120 ACCGGTTTTATCATAATGAA
1 ACCGGTTTTATCATAATGAA
1454140 ACCGGTTTTATCATA
1 ACCGGTTTTATCATA
1454155 TTTTTACCTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (20 bp):
ACCGGTTTTATCATAATGAA
Found at i:1461250 original size:22 final size:24
Alignment explanation
Indices: 1461222--1461276 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
1461212 AACCTGAATT
1461222 TATAATAAAAT-TA-ATCATTTTA
1 TATAATAAAATATACATCATTTTA
*
1461244 TATAAT-AACTATACCATCATTTTA
1 TATAATAAAATATA-CATCATTTTA
1461268 TATAA-AAAA
1 TATAATAAAA
1461277 CAAAAACATT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
21 3 0.11
22 8 0.30
24 16 0.59
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (24 bp):
TATAATAAAATATACATCATTTTA
Found at i:1463377 original size:182 final size:181
Alignment explanation
Indices: 1463132--1463746 Score: 822
Period size: 182 Copynumber: 3.4 Consensus size: 181
1463122 AACATAACCA
* * * *
1463132 GTTTTGTCATTTCGATACCGGTTTTGTCATATTTTTACCTATTATATTGTTATGGATCGATACAT
1 GTTTTATCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGCTATGGATCGATACAT
* *
1463197 TTTCATAAAGTATCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATT-ACGAAAGTGTC
66 TTT-ATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCA-AAAAGTGTC
*
1463261 GATACTTATATTAATTTATCGACACTTTCAATATATCCGGTAGCTTTTTACCG
129 GATACTTATATTAATTTATCGACACTTTCAATATATCCGGTAGCTATTTACCG
* *
1463314 GTTTTATCATTTCGAGACCTGTTTTGTCATATTCTTACCTGTTATATTGCTATGGATCGATACAT
1 GTTTTATCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGCTATGGATCGATACAT
* * *
1463379 TTGTATAAAATATCGACAGTTTATAGGCGCTATAACTTATTCTCTTTTAAATTCAAAAAGTGTCG
66 TT-TATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAAAAAGTGTCG
** * *
1463444 ATACTTATATTAACGTATCGACACTTTCAATATATCTGGTAGCTCTTTACCG
130 ATACTTATATTAATTTATCGACACTTTCAATATATCCGGTAGCTATTTACCG
* * * * *
1463496 GTTTTATCATTTCGTGACCGGTTTTGTCATACTTATACCTGTTATATTGTTATGGATCGATACGT
1 GTTTTATCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGCTATGGATCGATAC-A
* * * *
1463561 TTTTATAAAGTATCGACGCTTTATAGGCGCTATTACTTCTTCTCTTTTAAATTCTAAAAGTGTCA
65 TTTTATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAAAAAGTGTCG
* * * * *
1463626 ATACTTAT-TTAAATCTAATCGATAATTTCGATATATCCAGTAGCTATTTACCG
130 ATACTTATATT-AAT-TTATCGACACTTTCAATATATCCGGTAGCTATTTACCG
* * * * * *
1463679 GTTTTATCATAAT-GAAACCGATTTTATCATATTTTTACCTGTTGTATTGCTATGGAGCGATACA
1 GTTTTATCAT-TTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGCTATGGATCGATACA
1463743 TTTT
65 TTTT
1463747 TCATTTGTAT
Statistics
Matches: 378, Mismatches: 49, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
181 2 0.01
182 289 0.76
183 86 0.23
184 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (181 bp):
GTTTTATCATTTCGAGACCGGTTTTGTCATATTTTTACCTGTTATATTGCTATGGATCGATACAT
TTTATAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAAAAAGTGTCGA
TACTTATATTAATTTATCGACACTTTCAATATATCCGGTAGCTATTTACCG
Found at i:1467321 original size:43 final size:41
Alignment explanation
Indices: 1467241--1467555 Score: 181
Period size: 43 Copynumber: 7.3 Consensus size: 41
1467231 TTTTTTTCAT
* * * *
1467241 CTTTATAATT-AGGTTTTTAATTTTTTAAATCTTACTTTTTAC
1 CTTTATAATTGAGG-TCTTAA-TTTTTCAATCTCACTTTTTAA
1467283 CTTTATAATTGAGGTCTTAATATTATTCAATCTCACTTTTTAA
1 CTTTATAATTGAGGTCTTAAT-TT-TTCAATCTCACTTTTTAA
* * * ** *
1467326 TTTTAAAATTGAAGTTTCTATTTTTTTTTCAATC-C-CTTTTTCAC
1 CTTTATAATTG-AG-GTC--TTAATTTTTCAATCTCACTTTTT-AA
* *
1467370 CTTTATAATTGAGGCCTCTAATTTTGT-AATATCAC-TTTTAA
1 CTTTATAATTGAGGTCT-TAATTTT-TCAATCTCACTTTTTAA
* * * *
1467411 CTTTATAATTGAGGCTTTTAAGTTTTTCCAATCTCAATTTCTAC
1 CTTTATAATTGAGG-TCTTAA-TTTTT-CAATCTCACTTTTTAA
* * * *
1467455 CTTCATAATTGAGGTCCCTAATTTTTTATTCTCACTTTTTTAA
1 CTTTATAATTGAGGT-CTTAATTTTTCAATCTCAC-TTTTTAA
* * * * *
1467498 TTTTATAATTGAGGCCCTTAAGTTTTTTTAATCTCACTATCTAA
1 CTTTATAATTGAGG-TCTTAA--TTTTTCAATCTCACTTTTTAA
* *
1467542 CTTTTTAGTTGAGG
1 CTTTATAATTGAGG
1467556 GCCCTAAGTT
Statistics
Matches: 209, Mismatches: 42, Indels: 42
0.71 0.14 0.14
Matches are distributed among these distances:
40 1 0.00
41 28 0.13
42 35 0.17
43 69 0.33
44 49 0.23
45 22 0.11
46 2 0.01
47 3 0.01
ACGTcount: A:0.26, C:0.15, G:0.08, T:0.51
Consensus pattern (41 bp):
CTTTATAATTGAGGTCTTAATTTTTCAATCTCACTTTTTAA
Found at i:1467428 original size:21 final size:21
Alignment explanation
Indices: 1467370--1467431 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
1467360 CCTTTTTCAC
* *
1467370 CTTTATAATTGAGGCCTCTAA
1 CTTTATAATTGAGGCTTTTAA
* * *
1467391 TTTTGTAATATCA--CTTTTAA
1 CTTTATAAT-TGAGGCTTTTAA
1467411 CTTTATAATTGAGGCTTTTAA
1 CTTTATAATTGAGGCTTTTAA
1467432 GTTTTTCCAA
Statistics
Matches: 30, Mismatches: 8, Indels: 6
0.68 0.18 0.14
Matches are distributed among these distances:
19 2 0.07
20 12 0.40
21 14 0.47
22 2 0.07
ACGTcount: A:0.29, C:0.13, G:0.11, T:0.47
Consensus pattern (21 bp):
CTTTATAATTGAGGCTTTTAA
Found at i:1467457 original size:85 final size:85
Alignment explanation
Indices: 1467241--1467533 Score: 258
Period size: 87 Copynumber: 3.4 Consensus size: 85
1467231 TTTTTTTCAT
* * * * * *
1467241 CTTTATAATT-AGGTTTTTAA-TTTTTTAAATCTTACTTTTTACCTTTATAATTGAGGTCT-TAA
1 CTTTATAATTGAGGCTTTTAAGTTTTTTCAATCTCAATTTCTACCTTTATAATTGAGGCCTCTAA
1467303 TATTATTCAATCTCACTTTTTAA
66 T-TT-TT-AATCTCACTTTTTAA
* * * ** * **
1467326 TTTTAAAATTGAAG-TTTCTATTTTTTTTTCAATCCCTTTTTC-ACCTTTATAATTGAGGCCTCT
1 CTTTATAATTGAGGCTTT-TA-AGTTTTTTCAATCTCAATTTCTACCTTTATAATTGAGGCCTCT
*
1467389 AATTTTGTAATATCAC-TTTTAA
64 AATTTT-TAATCTCACTTTTTAA
* *
1467411 CTTTATAATTGAGGCTTTTAAGTTTTTCCAATCTCAATTTCTACCTTCATAATTGAGGTCC-CTA
1 CTTTATAATTGAGGCTTTTAAGTTTTTTCAATCTCAATTTCTACCTTTATAATTGAGG-CCTCTA
*
1467475 ATTTTTTATTCTCACTTTTTTAA
65 A-TTTTTAATCTCAC-TTTTTAA
* ** *
1467498 TTTTATAATTGAGGCCCTTAAGTTTTTTTAATCTCA
1 CTTTATAATTGAGGCTTTTAAGTTTTTTCAATCTCA
1467534 CTATCTAACT
Statistics
Matches: 167, Mismatches: 29, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
84 15 0.09
85 56 0.34
86 21 0.13
87 58 0.35
88 17 0.10
ACGTcount: A:0.26, C:0.15, G:0.08, T:0.52
Consensus pattern (85 bp):
CTTTATAATTGAGGCTTTTAAGTTTTTTCAATCTCAATTTCTACCTTTATAATTGAGGCCTCTAA
TTTTTAATCTCACTTTTTAA
Found at i:1467465 original size:129 final size:128
Alignment explanation
Indices: 1467233--1467466 Score: 269
Period size: 129 Copynumber: 1.8 Consensus size: 128
1467223 AGCTCTCTTT
* ** * * *
1467233 TTTTTCATCTTTATAATTAGGTTTTTAATTTTTTAAATCTTACTTTTTACCTTTATAATTGAGGT
1 TTTTTCACCTTTATAATTAGGCCTCTAATTTTGTAAATC-TACTTTTTAACTTTATAATTGAGGT
* * * *
1467298 CTTAATATTATTCAATCTCACTTTTTAATTTTAAAATTGAAGTTTCTATTTTTTTTTCAATCCC
65 CTTAATATTATTCAATCTCAATTTCTAACTTCAAAATTGAAGTTTCTATTTTTTTTTCAATCCC
1467362 TTTTTCACCTTTATAATTGAGGCCTCTAATTTTGTAATATC-AC-TTTTAACTTTATAATTGAGG
1 TTTTTCACCTTTATAATT-AGGCCTCTAATTTTGTAA-ATCTACTTTTTAACTTTATAATTGAGG
* * *
1467425 CTTTTAAGT-TT-TTCCAATCTCAATTTCTACCTTCATAATTGA
64 -TCTTAA-TATTATT-CAATCTCAATTTCTAACTTCAAAATTGA
1467467 GGTCCCTAAT
Statistics
Matches: 87, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
128 21 0.24
129 48 0.55
130 15 0.17
131 3 0.03
ACGTcount: A:0.26, C:0.15, G:0.07, T:0.52
Consensus pattern (128 bp):
TTTTTCACCTTTATAATTAGGCCTCTAATTTTGTAAATCTACTTTTTAACTTTATAATTGAGGTC
TTAATATTATTCAATCTCAATTTCTAACTTCAAAATTGAAGTTTCTATTTTTTTTTCAATCCC
Found at i:1471471 original size:20 final size:20
Alignment explanation
Indices: 1471448--1471536 Score: 160
Period size: 20 Copynumber: 4.5 Consensus size: 20
1471438 CAGTGAGGTA
1471448 GTATCGATACCATGGTAAAG
1 GTATCGATACCATGGTAAAG
1471468 GTATCGATACCATGGTAAAG
1 GTATCGATACCATGGTAAAG
1471488 GTATCGATACCATGGTAAAG
1 GTATCGATACCATGGTAAAG
*
1471508 GTATCAATACCATGGTAAAG
1 GTATCGATACCATGGTAAAG
*
1471528 GTATAGATA
1 GTATCGATA
1471537 ACAGGAAACA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.37, C:0.13, G:0.24, T:0.26
Consensus pattern (20 bp):
GTATCGATACCATGGTAAAG
Found at i:1471658 original size:34 final size:34
Alignment explanation
Indices: 1471620--1471699 Score: 151
Period size: 34 Copynumber: 2.4 Consensus size: 34
1471610 ACCATGGTAA
1471620 GGGTATCGATACTAGGTAACATCGAACTTAAAAT
1 GGGTATCGATACTAGGTAACATCGAACTTAAAAT
1471654 GGGTATCGATACTAGGTAACATCGAACTTAAAAT
1 GGGTATCGATACTAGGTAACATCGAACTTAAAAT
*
1471688 AGGTATCGATAC
1 GGGTATCGATAC
1471700 CAAAAGGGGT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (34 bp):
GGGTATCGATACTAGGTAACATCGAACTTAAAAT
Found at i:1472175 original size:56 final size:56
Alignment explanation
Indices: 1472081--1472636 Score: 760
Period size: 56 Copynumber: 9.9 Consensus size: 56
1472071 TTACCAAATA
* * * *
1472081 GGCACTAAGTGTGGAAAATCAC-GAAATTCATCATGAGTTGATGAATAACCGTGCAG
1 GGCACTATGTGTGCAAAACCACAG-AATTCATCATGAGTTGATGAATAACCGTACAG
* *
1472137 GGCATTATGTGTGCAAAACCAC-GAAATTCATCATGAGTTGATGAATAACCGTGCAG
1 GGCACTATGTGTGCAAAACCACAG-AATTCATCATGAGTTGATGAATAACCGTACAG
*
1472193 GGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACAT
1 GGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACAG
* *
1472249 GGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGACGAATAACCGTACAA
1 GGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACAG
* * * * * *
1472305 AGCACTATGTGTGCAAAACCACAAAATTCATCATAAGTTAATGAATAATCATACAG
1 GGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACAG
* * *
1472361 GGCACTATGTGTGCAAAACCACAGAATTTATCATGAGTTGATAAAAAACCGTACAG
1 GGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACAG
* * * ** * *
1472417 GGCACTATGCGTGCAAACCCACATAATTCATCATGAGTTGATGAATAATTGTATAT
1 GGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACAG
* *
1472473 GGCACTGA-GTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAACCGTACAT
1 GGCACT-ATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACAG
** *
1472529 GGCACTATGTGTAAAAAACCGCAGAATTCATCATGAGTTGATG-ATAACCGTACAG
1 GGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACAG
* * *
1472584 GGCACTATGTGTGCAAATCCACGGAATTCATCACGAGTTGATGAATAACCGTA
1 GGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTA
1472637 TAGGAACAAT
Statistics
Matches: 442, Mismatches: 54, Indels: 8
0.88 0.11 0.02
Matches are distributed among these distances:
55 49 0.11
56 391 0.88
57 2 0.00
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (56 bp):
GGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACAG
Found at i:1476223 original size:94 final size:94
Alignment explanation
Indices: 1476100--1476273 Score: 260
Period size: 94 Copynumber: 1.9 Consensus size: 94
1476090 ATACTGATTC
* * ***
1476100 CATGGTAAGGGTATCGATACCAGGAAACATCGAA-TCTAAAATTGGTATTGATACTGTAAGGGGT
1 CATGGTAAGGGTATCAATACCAGGAAACATCGAACT-TAAAATGGGTATTGATACCAAAAGGGGT
1476164 ATCGGTACCATAGTATTGTAGTATCAATAT
65 ATCGGTACCATAGTATTGTAGTATCAATAT
* * *
1476194 CATGGTAAGGGTATCAATATCAGGTAACATTGAACTTAAAATGGGTATTGATACCAAAAGGGGTA
1 CATGGTAAGGGTATCAATACCAGGAAACATCGAACTTAAAATGGGTATTGATACCAAAAGGGGTA
1476259 TCGGTACCATAGTAT
66 TCGGTACCATAGTAT
1476274 AGAATTATCG
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
94 70 0.99
95 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.29
Consensus pattern (94 bp):
CATGGTAAGGGTATCAATACCAGGAAACATCGAACTTAAAATGGGTATTGATACCAAAAGGGGTA
TCGGTACCATAGTATTGTAGTATCAATAT
Found at i:1476302 original size:94 final size:94
Alignment explanation
Indices: 1476099--1476307 Score: 215
Period size: 94 Copynumber: 2.2 Consensus size: 94
1476089 GATACTGATT
* * * * ***
1476099 CCATGGTAAGGGTATCGATACCAGGAAACATCGAATCTAAAATTGGTATTGATACTGTAAGGGGT
1 CCATAGTAAGAGTATCAATACCAGGAAACATCGAATCTAAAATGGGTATTGATACCAAAAGGGGT
* *
1476164 ATCGGTACCATAGTATTGTAGTATCAATA
66 ATCGGTACCATAGTATAGAAGTATCAATA
* * * * * *
1476193 TCATGGTAAGGGTATCAATATCAGGTAACATTGAA-CTTAAAATGGGTATTGATACCAAAAGGGG
1 CCATAGTAAGAGTATCAATACCAGGAAACATCGAATC-TAAAATGGGTATTGATACCAAAAGGGG
* **
1476257 TATCGGTACCATAGTATAGAATTATCGGTA
65 TATCGGTACCATAGTATAGAAGTATCAATA
*
1476287 CCATAGT-AGTAGTATCGATAC
1 CCATAGTAAG-AGTATCAATAC
1476308 TATTGAACTT
Statistics
Matches: 94, Mismatches: 19, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
93 3 0.03
94 91 0.97
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (94 bp):
CCATAGTAAGAGTATCAATACCAGGAAACATCGAATCTAAAATGGGTATTGATACCAAAAGGGGT
ATCGGTACCATAGTATAGAAGTATCAATA
Found at i:1476783 original size:56 final size:56
Alignment explanation
Indices: 1476629--1477125 Score: 786
Period size: 56 Copynumber: 8.9 Consensus size: 56
1476619 TTACCAAAAA
* * * *
1476629 GGCACTAAGTGTGCAAAATCACGGAATTCATCATGAGTTGATGAATAATCGTATAG
1 GGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAACCGTACAG
*
1476685 GGCACTATGTGT--AAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACAG
1 GGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAACCGTACAG
*
1476739 GGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAACTGTACAG
1 GGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAACCGTACAG
* *
1476795 GGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATGAATAACCGTACAT
1 GGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAACCGTACAG
* *
1476851 GGCACTATATGTGCAAAACCACGGAATTAATCATGAGTTGATGAATAACCGTACAG
1 GGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAACCGTACAG
* * * *
1476907 GGCATTGTGTGTGCAAAACCACGGAATTCATCATGAGTCGATGAATAACCATACAG
1 GGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAACCGTACAG
*
1476963 GGCACTATGTGTGC-AAACCACGGAATTCACCATGAGTTGATGAATAACCGTACAG
1 GGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAACCGTACAG
* *
1477018 GGCACTATGTGTGCAAAACCACGAAATTCATCATGAG-TGATGAATAACTGTACAG
1 GGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAACCGTACAG
* * *
1477073 GGCACTATGTGTGCAAATCCATGGAATTCATCATGAGTTTATGAATAACCGTA
1 GGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAACCGTA
1477126 TAGGAACTAT
Statistics
Matches: 404, Mismatches: 33, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
54 50 0.12
55 103 0.25
56 251 0.62
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (56 bp):
GGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAACCGTACAG
Found at i:1480850 original size:49 final size:49
Alignment explanation
Indices: 1480778--1480872 Score: 190
Period size: 49 Copynumber: 1.9 Consensus size: 49
1480768 GAATTCCCAA
1480778 CTAATCATGAGTCCATCAACTTTGTAGGTAATTTCAATAGAAATAAAAT
1 CTAATCATGAGTCCATCAACTTTGTAGGTAATTTCAATAGAAATAAAAT
1480827 CTAATCATGAGTCCATCAACTTTGTAGGTAATTTCAATAGAAATAA
1 CTAATCATGAGTCCATCAACTTTGTAGGTAATTTCAATAGAAATAA
1480873 TAATAATCCC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (49 bp):
CTAATCATGAGTCCATCAACTTTGTAGGTAATTTCAATAGAAATAAAAT
Found at i:1493257 original size:59 final size:59
Alignment explanation
Indices: 1493175--1493288 Score: 158
Period size: 59 Copynumber: 1.9 Consensus size: 59
1493165 TGAATGTTCA
* * * *
1493175 AAAAGGTTGGGGACTAATTTAGAATGA-AGGTCATAGTTTGGGGATGAAATTGAAATTTT
1 AAAAGGTTGAGGACTAATATAGAATGATA-GTCATAGTTTAGAGATGAAATTGAAATTTT
* *
1493234 AAAAGTTTGAGGACTAATATAGAATGATAGTCATAGTTTAGAGATGGAATTGAAA
1 AAAAGGTTGAGGACTAATATAGAATGATAGTCATAGTTTAGAGATGAAATTGAAA
1493289 CATTTAAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
59 47 0.98
60 1 0.02
ACGTcount: A:0.39, C:0.04, G:0.26, T:0.31
Consensus pattern (59 bp):
AAAAGGTTGAGGACTAATATAGAATGATAGTCATAGTTTAGAGATGAAATTGAAATTTT
Found at i:1503266 original size:20 final size:20
Alignment explanation
Indices: 1503233--1503271 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1503223 GCTTGTCAGA
1503233 ATTAAGAATATATACAAAAT
1 ATTAAGAATATATACAAAAT
*
1503253 ATTAA-AATACTATATAAAA
1 ATTAAGAATA-TATACAAAA
1503272 CTTAATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (20 bp):
ATTAAGAATATATACAAAAT
Found at i:1503437 original size:43 final size:43
Alignment explanation
Indices: 1503365--1503466 Score: 150
Period size: 43 Copynumber: 2.4 Consensus size: 43
1503355 TAAATACATT
*
1503365 AAACTCACATATTACAACCAAAGAAACAGTCAACAAAAACACC
1 AAACTAACATATTACAACCAAAGAAACAGTCAACAAAAACACC
* * * * *
1503408 AAACTAACATGTTCCAACGAAAGTAACAGTCTACAAAAACACC
1 AAACTAACATATTACAACCAAAGAAACAGTCAACAAAAACACC
1503451 AAACTAACATATTACA
1 AAACTAACATATTACA
1503467 GCCCATTAGT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.53, C:0.25, G:0.06, T:0.16
Consensus pattern (43 bp):
AAACTAACATATTACAACCAAAGAAACAGTCAACAAAAACACC
Found at i:1507921 original size:16 final size:17
Alignment explanation
Indices: 1507883--1507928 Score: 67
Period size: 18 Copynumber: 2.7 Consensus size: 17
1507873 TGTTTATGAG
1507883 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGT-AA
1507901 GGAATTGGAATCTGT-A
1 GGAATTGGAATCTGTAA
*
1507917 GGAATTAGAATC
1 GGAATTGGAATC
1507929 CAATTCAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 12 0.44
18 15 0.56
ACGTcount: A:0.35, C:0.07, G:0.30, T:0.28
Consensus pattern (17 bp):
GGAATTGGAATCTGTAA
Found at i:1508540 original size:37 final size:38
Alignment explanation
Indices: 1508462--1508544 Score: 134
Period size: 38 Copynumber: 2.2 Consensus size: 38
1508452 CTAAACCCAA
*
1508462 ACCCGACCTGACTCGAATATCACACTTAAAAAAACTCG
1 ACCCGACCTGACCCGAATATCACACTTAAAAAAACTCG
1508500 ACCCGA-CTCGACCCGAATATCACACTT-AAAAAACTCG
1 ACCCGACCT-GACCCGAATATCACACTTAAAAAAACTCG
1508537 ACCCGACC
1 ACCCGACC
1508545 CGAACCAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
37 18 0.43
38 24 0.57
ACGTcount: A:0.37, C:0.36, G:0.11, T:0.16
Consensus pattern (38 bp):
ACCCGACCTGACCCGAATATCACACTTAAAAAAACTCG
Found at i:1508776 original size:27 final size:28
Alignment explanation
Indices: 1508710--1508776 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
1508700 CCTAAACCCG
1508710 AACCCGACCCGAATATCACACTTAAAAA
1 AACCCGACCCGAATATCACACTTAAAAA
1508738 AACCCGACCCGAATATCACACTT-AAAA
1 AACCCGACCCGAATATCACACTTAAAAA
*
1508765 AACCCGATCCGA
1 AACCCGACCCGA
1508777 CCCGAACAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 15 0.39
28 23 0.61
ACGTcount: A:0.43, C:0.34, G:0.09, T:0.13
Consensus pattern (28 bp):
AACCCGACCCGAATATCACACTTAAAAA
Found at i:1509017 original size:37 final size:38
Alignment explanation
Indices: 1508949--1509023 Score: 125
Period size: 37 Copynumber: 2.0 Consensus size: 38
1508939 CCTAAACCCG
1508949 AACCCAACCCGACCCGACCCGAATATCACACTTAAAAA
1 AACCCAACCCGACCCGACCCGAATATCACACTTAAAAA
* *
1508987 AACCCGACCCGACTCGA-CCGAATATCACACTTAAAAA
1 AACCCAACCCGACCCGACCCGAATATCACACTTAAAAA
1509024 TCCGACCCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 20 0.57
38 15 0.43
ACGTcount: A:0.41, C:0.37, G:0.09, T:0.12
Consensus pattern (38 bp):
AACCCAACCCGACCCGACCCGAATATCACACTTAAAAA
Found at i:1509030 original size:35 final size:37
Alignment explanation
Indices: 1508949--1509036 Score: 126
Period size: 35 Copynumber: 2.4 Consensus size: 37
1508939 CCTAAACCCG
*
1508949 AACCCAACCCGACCCGACCCGAATATCACACTTAAAAA
1 AACCCGACCCGACCCGACCCGAATATCACACTT-AAAA
*
1508987 AACCCGACCCGACTCGA-CCGAATATCACACTT-AAA
1 AACCCGACCCGACCCGACCCGAATATCACACTTAAAA
*
1509022 AATCCGACCCGACCC
1 AACCCGACCCGACCC
1509037 TAACAAAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
35 16 0.35
37 15 0.33
38 15 0.33
ACGTcount: A:0.38, C:0.41, G:0.10, T:0.11
Consensus pattern (37 bp):
AACCCGACCCGACCCGACCCGAATATCACACTTAAAA
Found at i:1509069 original size:257 final size:252
Alignment explanation
Indices: 1508413--1509256 Score: 1199
Period size: 257 Copynumber: 3.4 Consensus size: 252
1508403 ATATAAGGTA
* * * * * *
1508413 AAATTATAT-TTTTTTCAGGTTGGTCCGGTTTTTTTCACCCTAAACCCAAACCCGACCTGACTCG
1 AAATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCCG
* *
1508477 AATATCACACTTAAAAAAACTCGACCCGACTCGACCCGAATATCACACTTAAAAAACTCGACCCG
66 AATATCACACTTAAAAAAACCCGACCCGAC-CGA-CCGAATATCACACTTAAAAAACCCGACCCG
* *
1508542 ACCCGAACCAAATAAAGTTTCAT-----CCGACCCGAATATATGAATTAGAAATCAGACCCGACC
129 ACCCGAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAATCCGACCCGACC
* * *
1508602 CGAAATAATAAAAAATTATTTTTATTTAATAAAAACTGTGACTTAATCCGACCCGACCC
194 CGAAATAATAAAAAAATATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCAACCC
* * *
1508661 GAATTATATATATTTTCGGGACGGTCCGATTTTTTTCACCCTAAACCCG-A----ACCCGACCCG
1 AAATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCCG
*
1508721 AATATCACACTT-AAAAAA----ACCCGA-C--CCGAATATCACACTTAAAAAACCCGATCCGAC
66 AATATCACACTTAAAAAAACCCGACCCGACCGACCGAATATCACACTTAAAAAACCCGACCCGAC
*
1508778 CCGAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAATCTGACCCGACCCG
131 CCGAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAATCCGACCCGACCCG
***
1508843 AAATAATAAAAAAATATTTTTATTTAATAAAAACAGTGACTTAATCCGACCTGGCCC
196 AAATAATAAAAAAATATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCAACCC
1508900 AAATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCAACCCGACCCG
1 AAATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCG-----AACCCGACCCG
*
1508965 ACCCGAATATCACACTTAAAAAAACCCGACCCGACTCGACCGAATATCACACTT-AAAAATCCGA
61 ACCCGAATATCACACTTAAAAAAACCCGACCCGAC-CGACCGAATATCACACTTAAAAAACCCGA
*
1509029 CCCGACCCTAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAATCCGACCC
125 CCCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAATCCGACCC
* **
1509094 GACCCGAAATAATAAAAAATTATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCAACTT
190 GACCCGAAATAATAAAAAAATATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCAACCC
* *
1509157 GAATTATATATATTTTCGGGTCGGTCTGGTTTTTTTCACCCTAAACCCGAACCCGA-CCGACCCG
1 AAATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCCG
*
1509221 AATATCACACTTAAAAAAACCCGATCCGACCCGACC
66 AATATCACACTTAAAAAAACCCGACCCGA-CCGACC
1509257 AAAATAAAGT
Statistics
Matches: 537, Mismatches: 33, Indels: 49
0.87 0.05 0.08
Matches are distributed among these distances:
234 50 0.09
237 1 0.00
239 143 0.27
243 6 0.01
244 20 0.04
245 1 0.00
248 9 0.02
249 55 0.10
250 6 0.01
251 41 0.08
252 8 0.01
254 6 0.01
256 1 0.00
257 175 0.33
258 15 0.03
ACGTcount: A:0.36, C:0.28, G:0.12, T:0.24
Consensus pattern (252 bp):
AAATTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCCG
AATATCACACTTAAAAAAACCCGACCCGACCGACCGAATATCACACTTAAAAAACCCGACCCGAC
CCGAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAATCCGACCCGACCCG
AAATAATAAAAAAATATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCAACCC
Found at i:1509333 original size:31 final size:26
Alignment explanation
Indices: 1509270--1509332 Score: 126
Period size: 26 Copynumber: 2.4 Consensus size: 26
1509260 ATAAAGTTTC
1509270 ACCCGACCCGAATATATGGATTAGAA
1 ACCCGACCCGAATATATGGATTAGAA
1509296 ACCCGACCCGAATATATGGATTAGAA
1 ACCCGACCCGAATATATGGATTAGAA
1509322 ACCCGACCCGA
1 ACCCGACCCGA
1509333 CTCGAAATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.37, C:0.29, G:0.19, T:0.16
Consensus pattern (26 bp):
ACCCGACCCGAATATATGGATTAGAA
Found at i:1511736 original size:25 final size:23
Alignment explanation
Indices: 1511711--1511763 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 23
1511701 TATTATGTTA
1511711 TTTATTATT-TAAACTTATAATATTA
1 TTTATTATTAT-AACTTA-AAT-TTA
1511736 TTTATTATTATAACTTAAATTTA
1 TTTATTATTATAACTTAAATTTA
1511759 TTTAT
1 TTTAT
1511764 CGAGTAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 8 0.30
24 3 0.11
25 15 0.56
26 1 0.04
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (23 bp):
TTTATTATTATAACTTAAATTTA
Found at i:1513423 original size:22 final size:22
Alignment explanation
Indices: 1513368--1513435 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
1513358 TCGTAAACGC
**
1513368 TAAATGAACACGTTCGTGAACATA
1 TAAATGAACACGTTCACGAAC--A
**
1513392 TAAACAAACACGTTCACGAACA
1 TAAATGAACACGTTCACGAACA
* *
1513414 TAAATGAACATGTTCACAAACA
1 TAAATGAACACGTTCACGAACA
1513436 AAAAATAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
22 19 0.53
24 17 0.47
ACGTcount: A:0.47, C:0.21, G:0.12, T:0.21
Consensus pattern (22 bp):
TAAATGAACACGTTCACGAACA
Found at i:1513453 original size:49 final size:50
Alignment explanation
Indices: 1513400--1513494 Score: 147
Period size: 50 Copynumber: 1.9 Consensus size: 50
1513390 TATAAACAAA
*
1513400 CACGTTCACGAACA-TAAATGAACATGTTCACAAACAAAAAATAAAAGAG
1 CACGTTCACGAACATTAAACGAACATGTTCACAAACAAAAAATAAAAGAG
* * *
1513449 CACGTTCATGAACATTAAACGAACATGTTCACAAATAATAAATAAA
1 CACGTTCACGAACATTAAACGAACATGTTCACAAACAAAAAATAAA
1513495 CGAACACGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 13 0.32
50 28 0.68
ACGTcount: A:0.52, C:0.18, G:0.11, T:0.20
Consensus pattern (50 bp):
CACGTTCACGAACATTAAACGAACATGTTCACAAACAAAAAATAAAAGAG
Found at i:1518629 original size:21 final size:20
Alignment explanation
Indices: 1518605--1518697 Score: 132
Period size: 21 Copynumber: 4.5 Consensus size: 20
1518595 TCGTACCAAG
1518605 GACGAGAAGAGCATTCATCAA
1 GACGAGAAG-GCATTCATCAA
*
1518626 GACGAGAATGTCATTCATCAA
1 GACGAGAA-GGCATTCATCAA
*
1518647 GACGAGAATGCCATTCATCAA
1 GACGAGAA-GGCATTCATCAA
1518668 GACGAGAAGGTCATTCATCAA
1 GACGAGAAGG-CATTCATCAA
1518689 GACGAGAAG
1 GACGAGAAG
1518698 ACCACATCGC
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
20 1 0.01
21 65 0.97
22 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.24, T:0.17
Consensus pattern (20 bp):
GACGAGAAGGCATTCATCAA
Found at i:1518652 original size:42 final size:42
Alignment explanation
Indices: 1518605--1518701 Score: 160
Period size: 42 Copynumber: 2.3 Consensus size: 42
1518595 TCGTACCAAG
* *
1518605 GACGAGAAGAGCATTCATCAAGACGAGAATGTCATTCATCAA
1 GACGAGAAGACCATTCATCAAGACGAGAAGGTCATTCATCAA
1518647 GACGAGAATG-CCATTCATCAAGACGAGAAGGTCATTCATCAA
1 GACGAGAA-GACCATTCATCAAGACGAGAAGGTCATTCATCAA
1518689 GACGAGAAGACCA
1 GACGAGAAGACCA
1518702 CATCGCATGG
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
41 1 0.02
42 49 0.96
43 1 0.02
ACGTcount: A:0.40, C:0.21, G:0.23, T:0.16
Consensus pattern (42 bp):
GACGAGAAGACCATTCATCAAGACGAGAAGGTCATTCATCAA
Found at i:1521333 original size:13 final size:13
Alignment explanation
Indices: 1521317--1521382 Score: 52
Period size: 12 Copynumber: 5.1 Consensus size: 13
1521307 AGAAATGTAG
1521317 AAAGAGAAA-AAGA
1 AAAGA-AAAGAAGA
1521330 AAAGAAAAGAAG-
1 AAAGAAAAGAAGA
1521342 AAAGAAAAGAA-A
1 AAAGAAAAGAAGA
1521354 AAATTGAAAATGAA-A
1 AAA--GAAAA-GAAGA
1521369 AAATGAAAA-AAGA
1 AAA-GAAAAGAAGA
1521382 A
1 A
1521383 TTAAAGAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
12 19 0.40
13 10 0.21
14 11 0.23
15 7 0.15
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (13 bp):
AAAGAAAAGAAGA
Found at i:1521335 original size:17 final size:17
Alignment explanation
Indices: 1521315--1521354 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
1521305 AGAGAAATGT
1521315 AGAAAGAGAA-AAAGAAA
1 AGAAA-AGAAGAAAGAAA
1521332 AGAAAAGAAGAAAGAAA
1 AGAAAAGAAGAAAGAAA
1521349 AGAAAA
1 AGAAAA
1521355 AATTGAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (17 bp):
AGAAAAGAAGAAAGAAA
Found at i:1521345 original size:12 final size:12
Alignment explanation
Indices: 1521301--1521352 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
1521291 CATGAAGAGA
*
1521301 AAGAAGAGAAATG
1 AAGAA-AGAAAAG
*
1521314 TAGAAAGAGAAA-
1 AAGAAAGA-AAAG
1521326 AAGAAAAGAAAAG
1 AAG-AAAGAAAAG
1521339 AAGAAAGAAAAG
1 AAGAAAGAAAAG
1521351 AA
1 AA
1521353 AAAATTGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
12 19 0.58
13 14 0.42
ACGTcount: A:0.71, C:0.00, G:0.25, T:0.04
Consensus pattern (12 bp):
AAGAAAGAAAAG
Found at i:1521370 original size:15 final size:13
Alignment explanation
Indices: 1521329--1521377 Score: 57
Period size: 12 Copynumber: 3.8 Consensus size: 13
1521319 AGAGAAAAAG
1521329 AAAA-GAAAAGAA
1 AAAATGAAAAGAA
*
1521341 GAAA-GAAAAGAA
1 AAAATGAAAAGAA
1521353 AAAATTGAAAATGAA
1 AAAA-TGAAAA-GAA
1521368 AAAATGAAAA
1 AAAATGAAAA
1521378 AAGAATTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 14 0.44
14 11 0.34
15 7 0.22
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (13 bp):
AAAATGAAAAGAA
Found at i:1522858 original size:128 final size:127
Alignment explanation
Indices: 1522627--1523035 Score: 556
Period size: 128 Copynumber: 3.2 Consensus size: 127
1522617 AAGTTGCGAT
* * * * *
1522627 ATGTTGTGGCACGGCTGAACCCACATTAGGTTGAGATGACAAGATTCGGAAGAATAAGAAGGCAT
1 ATGTTGGGGCACGACTGAACCCACATTAGGTTGAGATGA-AAAATTCAGAAGAAGAAGAAGGCAT
* *
1522692 GAAGAATAAGCCTTACAATCTGAGGTGAT-GGGACATTTTGAAGGCTCGTACCAGTATAAGATA
65 GAAGAATGAGCCTTACAATCTGAGGTGATGGGGA-ATTTTGAAGGCCCGTACCAGTATAAGATA
* *
1522755 ATGTTGGGGCATGACTGAACCCACATTAGGTTGAGATGATAAAATTTAGAAGAAGAAGAAGGCAT
1 ATGTTGGGGCACGACTGAACCCACATTAGGTTGAGATGA-AAAATTCAGAAGAAGAAGAAGGCAT
* * * *
1522820 GAAGAATGAGCCTTACAAACTAAGGTGATGGGGAATTTTGAAGGCCCATACTAGTATAAGATA
65 GAAGAATGAGCCTTACAATCTGAGGTGATGGGGAATTTTGAAGGCCCGTACCAGTATAAGATA
* * **
1522883 ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGAAAAGATTCAGACCAAG--G-AGGCAT
1 ATGTTGGGGCACGACTGAACCCACATTAGGTTGAGATGAAAA-ATTCAGAAGAAGAAGAAGGCAT
* * *
1522945 GAAGAATGAGCCTTACAATTTGAGGTAATAGGGGCATTTTGAAAGGCCCGTACCAGTATAAGATA
65 GAAGAATGAGCCTTACAATCTGAGGTGAT-GGGGAATTTTG-AAGGCCCGTACCAGTATAAGATA
1523010 ATGTTGGGGCACGACTGAACCCACAT
1 ATGTTGGGGCACGACTGAACCCACAT
1523036 CATGATGAGA
Statistics
Matches: 250, Mismatches: 27, Indels: 9
0.87 0.09 0.03
Matches are distributed among these distances:
125 31 0.12
126 11 0.04
127 50 0.20
128 154 0.62
129 4 0.02
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (127 bp):
ATGTTGGGGCACGACTGAACCCACATTAGGTTGAGATGAAAAATTCAGAAGAAGAAGAAGGCATG
AAGAATGAGCCTTACAATCTGAGGTGATGGGGAATTTTGAAGGCCCGTACCAGTATAAGATA
Found at i:1523107 original size:127 final size:126
Alignment explanation
Indices: 1522627--1523097 Score: 382
Period size: 128 Copynumber: 3.7 Consensus size: 126
1522617 AAGTTGCGAT
* * * * * * * **
1522627 ATGTTGTGGCACGGCTGAACCCACATTAGGTTGAGATGACAAGATTCGGAAGAATAAGAAGGCAT
1 ATGTTGGGGCACGACTGAACCCACATCATGATGAGATAAAAAGATTC---AGACCAAGAAGGCAT
* ** * * * * *
1522692 GAAGAATAAGCCTTACAA-TCTGAGGTGAT-GGGACATTTTGAAGGCTCGTACCAGTATAAGATA
63 GAAGAATGAGCCGCACAACTC-GAAGTAATAGGGGCATTTTGAAGGCCCATACCAGTATAAGATA
* * * * * * **
1522755 ATGTTGGGGCATGACTGAACCCACATTAGGTTGAGATGATAAAA-TTTAGAAGAAGAAGAAGGCA
1 ATGTTGGGGCACGACTGAACCCACATCATGATGAGAT-A-AAAAGATT--CAGACCAAGAAGGCA
** * * *
1522819 TGAAGAATGAGCCTTACAAACT--AAGGTGAT-GGGGAATTTTGAAGGCCCATACTAGTATAAGA
62 TGAAGAATGAGCCGCAC-AACTCGAA-GTAATAGGGGCATTTTGAAGGCCCATACCAGTATAAGA
1522881 TA
125 TA
* * *
1522883 ATGTTGGGGCACGACTGAACCCACATCATGTTGAGATGAAAAGATTCAGACCAAGGAGGCATGAA
1 ATGTTGGGGCACGACTGAACCCACATCATGATGAGATAAAAAGATTCAGACCAAGAAGGCATGAA
** * * * *
1522948 GAATGAGCCTTACAATTTGAGGTAATAGGGGCATTTTGAAAGGCCCGTACCAGTATAAGATA
66 GAATGAGCCGCACAACTCGAAGTAATAGGGGCATTTTG-AAGGCCCATACCAGTATAAGATA
**
1523010 ATGTTGGGGCACGACTGAACCCACATCATGATGAGA-AAATAAGATTCAGACCAAGAAGTTATTG
1 ATGTTGGGGCACGACTGAACCCACATCATGATGAGATAAA-AAGATTCAGACCAAGAAGGCA-TG
* *
1523074 -AGAATGAGTCGCGCAACTCGAAGT
64 AAGAATGAGCCGCACAACTCGAAGT
1523098 GTCAGGGGCA
Statistics
Matches: 287, Mismatches: 42, Indels: 29
0.80 0.12 0.08
Matches are distributed among these distances:
124 3 0.01
125 32 0.11
126 17 0.06
127 94 0.33
128 133 0.46
129 4 0.01
130 4 0.01
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.23
Consensus pattern (126 bp):
ATGTTGGGGCACGACTGAACCCACATCATGATGAGATAAAAAGATTCAGACCAAGAAGGCATGAA
GAATGAGCCGCACAACTCGAAGTAATAGGGGCATTTTGAAGGCCCATACCAGTATAAGATA
Found at i:1523886 original size:53 final size:55
Alignment explanation
Indices: 1523804--1524005 Score: 282
Period size: 55 Copynumber: 3.7 Consensus size: 55
1523794 TGAAGCAAAA
* * *
1523804 GAAGATTATTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGATGCGATTGAT
1 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTT
* * *
1523859 GAAGATTA-T-GGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCAATCGTT
1 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTT
* ** *
1523912 GAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACAAGTTTGTT
1 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTT
* *
1523967 GAAGATGATTCAAGTCTTATACTCTCTGAAGAAATAGGG
1 GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGG
1524006 AGCGAACCCA
Statistics
Matches: 131, Mismatches: 14, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
53 47 0.36
54 2 0.02
55 82 0.63
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (55 bp):
GAAGATTATTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGTT
Found at i:1535629 original size:12 final size:12
Alignment explanation
Indices: 1535612--1535637 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1535602 GGTGGAGAAA
1535612 GATAATGAGGGT
1 GATAATGAGGGT
1535624 GATAATGAGGGT
1 GATAATGAGGGT
1535636 GA
1 GA
1535638 CGGTGGTAGT
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:0.35, C:0.00, G:0.42, T:0.23
Consensus pattern (12 bp):
GATAATGAGGGT
Found at i:1536629 original size:22 final size:22
Alignment explanation
Indices: 1536573--1536625 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
1536563 TATAGAAAAT
*
1536573 CATTTAAATTGAAATTATTGTA
1 CATTTAAATTAAAATTATTGTA
*
1536595 C-TATAACATTAAAATTATT-TA
1 CATTTAA-ATTAAAATTATTGTA
1536616 CATTTAAATT
1 CATTTAAATT
1536626 TAAACAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (22 bp):
CATTTAAATTAAAATTATTGTA
Found at i:1537233 original size:22 final size:22
Alignment explanation
Indices: 1537177--1537229 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
1537167 TATAGAAAAT
*
1537177 CATTTAAATTGAAATTATTGTA
1 CATTTAAATTAAAATTATTGTA
*
1537199 C-TATAACATTAAAATTATT-TA
1 CATTTAA-ATTAAAATTATTGTA
1537220 CATTTAAATT
1 CATTTAAATT
1537230 TAAACAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (22 bp):
CATTTAAATTAAAATTATTGTA
Found at i:1538675 original size:31 final size:31
Alignment explanation
Indices: 1538560--1538676 Score: 121
Period size: 31 Copynumber: 3.7 Consensus size: 31
1538550 AGTTTCAAAT
*
1538560 ATTAAACTTCTCATAAA-ATTACAAAATAATC
1 ATTAAACTTATCA-AAATATTACAAAATAATC
* * *
1538591 ATTAAAATTAATCAAATTATTATAAAAATAATC
1 ATTAAACTT-ATCAAAATATTA-CAAAATAATC
* **
1538624 ATTAAATTTATCAATCTATTACAAAATAATTC
1 ATTAAACTTATCAAAATATTACAAAATAA-TC
1538656 -TTAAACTTATCAAAATATTAC
1 ATTAAACTTATCAAAATATTAC
1538677 TATTTTGTAA
Statistics
Matches: 71, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
31 35 0.49
32 19 0.27
33 17 0.24
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (31 bp):
ATTAAACTTATCAAAATATTACAAAATAATC
Found at i:1548770 original size:29 final size:30
Alignment explanation
Indices: 1548728--1548786 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
1548718 TTTGTGTTTA
* * *
1548728 GTTGGTTTAGCAGAATGT-AGATTATCGTG
1 GTTGATTTAGCAGAATATAAGATTACCGTG
1548757 GTTGATTTAGCAGAATATAAGATTACCGTG
1 GTTGATTTAGCAGAATATAAGATTACCGTG
1548787 TTTGGTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.29, C:0.08, G:0.27, T:0.36
Consensus pattern (30 bp):
GTTGATTTAGCAGAATATAAGATTACCGTG
Found at i:1548828 original size:24 final size:26
Alignment explanation
Indices: 1548799--1548857 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
1548789 TGGTTAAAGA
1548799 ATAAAATTAT-TGAATATATATTTG-
1 ATAAAATTATCTGAATATATATTTGT
* *
1548823 ATAAAATTATCTTATTATATATTTGT
1 ATAAAATTATCTGAATATATATTTGT
*
1548849 ATAATATTA
1 ATAAAATTA
1548858 CAAATTGTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 10 0.33
25 12 0.40
26 8 0.27
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (26 bp):
ATAAAATTATCTGAATATATATTTGT
Found at i:1548856 original size:18 final size:18
Alignment explanation
Indices: 1548835--1548882 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
1548825 AAAATTATCT
*
1548835 TATTATATATTTGTATAA
1 TATTATATATTTGTAAAA
* *
1548853 TATTACA-AATTGTAAAA
1 TATTATATATTTGTAAAA
1548870 TATTTATATATTT
1 TA-TTATATATTT
1548883 TATTTAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
17 10 0.43
18 10 0.43
19 3 0.13
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (18 bp):
TATTATATATTTGTAAAA
Found at i:1558577 original size:46 final size:44
Alignment explanation
Indices: 1558525--1558611 Score: 111
Period size: 46 Copynumber: 1.9 Consensus size: 44
1558515 GGTTTTACGC
* *
1558525 GGTCCTTCGGGATAATTCTACGTGGTTCTTCGGGACATTTCTACAT
1 GGTCCTTCGGGACAATTCTACGTGGTCCTTC--GACATTTCTACAT
* * *
1558571 GGTCCTTCGGTACATTTCTATGTGGTCCTTCGACATTTCTA
1 GGTCCTTCGGGACAATTCTACGTGGTCCTTCGACATTTCTA
1558612 TGTGGCACTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
44 10 0.28
46 26 0.72
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.39
Consensus pattern (44 bp):
GGTCCTTCGGGACAATTCTACGTGGTCCTTCGACATTTCTACAT
Found at i:1558608 original size:21 final size:22
Alignment explanation
Indices: 1558520--1558616 Score: 97
Period size: 23 Copynumber: 4.3 Consensus size: 22
1558510 TCGAGGGTTT
* * *
1558520 TACGCGGTCCTTCGGGATAATTC
1 TACGTGGTCCTTC-GGACATTTC
*
1558543 TACGTGGTTCTTCGGGACATTTC
1 TACGTGGTCCTTC-GGACATTTC
*
1558566 TACATGGTCCTTCGGTACATTTC
1 TACGTGGTCCTTCGG-ACATTTC
*
1558589 TATGTGGTCCTTC-GACATTTC
1 TACGTGGTCCTTCGGACATTTC
*
1558610 TATGTGG
1 TACGTGG
1558617 CACTTTGGTG
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
21 14 0.22
22 3 0.05
23 48 0.74
ACGTcount: A:0.15, C:0.23, G:0.24, T:0.38
Consensus pattern (22 bp):
TACGTGGTCCTTCGGACATTTC
Found at i:1561801 original size:17 final size:16
Alignment explanation
Indices: 1561776--1561810 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
1561766 TTTTAAAATA
*
1561776 TTTTTTAATTTTTATT
1 TTTTTTAATTTATATT
1561792 TTTTTATAATTTATATT
1 TTTTT-TAATTTATATT
1561809 TT
1 TT
1561811 ATTACTTGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTTAATTTATATT
Found at i:1561887 original size:17 final size:17
Alignment explanation
Indices: 1561865--1561898 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1561855 TTTATATTTA
*
1561865 AAATTTTGAATATTTTT
1 AAATTTTAAATATTTTT
*
1561882 AAATTTTAAATGTTTTT
1 AAATTTTAAATATTTTT
1561899 CATTTTAAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
AAATTTTAAATATTTTT
Found at i:1562990 original size:21 final size:19
Alignment explanation
Indices: 1562956--1562994 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
1562946 GATATTTATT
1562956 TATTTTTAATTTTTAATAG
1 TATTTTTAATTTTTAATAG
1562975 TATTTTTAGTATTTTTAATA
1 TATTTTTA--ATTTTTAATA
1562995 TATATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
21 10 0.56
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (19 bp):
TATTTTTAATTTTTAATAG
Found at i:1569038 original size:22 final size:22
Alignment explanation
Indices: 1569010--1569062 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
1569000 TAAATGAGCT
1569010 CATAAACGAGTTTGTTCGTGAA
1 CATAAACGAGTTTGTTCGTGAA
1569032 CATAAACGAGTTTGTTCGTGAA
1 CATAAACGAGTTTGTTCGTGAA
*
1569054 AATAAACGA
1 CATAAACGA
1569063 ACTGAACACA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (22 bp):
CATAAACGAGTTTGTTCGTGAA
Found at i:1576113 original size:2 final size:2
Alignment explanation
Indices: 1576106--1576131 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1576096 GATTAAGTGC
1576106 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
1576132 GAAGCTTTTA
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:1579881 original size:23 final size:23
Alignment explanation
Indices: 1579851--1579902 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
1579841 TGAAAGGGAT
*
1579851 GCTGCAGTTCGGCAAACATTGCA
1 GCTGCAGTTCGGCAAACATTGAA
1579874 GCTGCAGTTCGGCAAACATTGAA
1 GCTGCAGTTCGGCAAACATTGAA
1579897 GCTGCA
1 GCTGCA
1579903 ACAAGACCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (23 bp):
GCTGCAGTTCGGCAAACATTGAA
Found at i:1581498 original size:21 final size:23
Alignment explanation
Indices: 1581462--1581503 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
1581452 TTTAATTATC
*
1581462 ACAAATATTTTTTA-GGTAAATT
1 ACAAATATTATTTAGGGTAAATT
1581484 ACAAAT-TTATTTAGGGTAAA
1 ACAAATATTATTTAGGGTAAA
1581504 CTATGAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (23 bp):
ACAAATATTATTTAGGGTAAATT
Found at i:1583690 original size:10 final size:8
Alignment explanation
Indices: 1583669--1583716 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 8
1583659 CTATTTTTTT
1583669 CAAAAAAA
1 CAAAAAAA
1583677 CAAAAAAA
1 CAAAAAAA
1583685 GGCAAAAAAA
1 --CAAAAAAA
*
1583695 AAAAACAAA
1 CAAAA-AAA
*
1583704 CAAAAAAC
1 CAAAAAAA
1583712 CAAAA
1 CAAAA
1583717 TTTCAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
8 19 0.56
9 7 0.21
10 8 0.24
ACGTcount: A:0.81, C:0.15, G:0.04, T:0.00
Consensus pattern (8 bp):
CAAAAAAA
Found at i:1584683 original size:22 final size:22
Alignment explanation
Indices: 1584656--1584708 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
1584646 TAAATGAGCT
1584656 CATAAACGAGTTTGTTCGTGAA
1 CATAAACGAGTTTGTTCGTGAA
1584678 CATAAACGAGTTTGTTCGTGAA
1 CATAAACGAGTTTGTTCGTGAA
*
1584700 AATAAACGA
1 CATAAACGA
1584709 ACTGAACACA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (22 bp):
CATAAACGAGTTTGTTCGTGAA
Found at i:1595524 original size:23 final size:23
Alignment explanation
Indices: 1595494--1595545 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
1595484 TGAAAGGGAT
*
1595494 GCTGCAGTTCGGCAAACATTGCA
1 GCTGCAGTTCGGCAAACATTGAA
1595517 GCTGCAGTTCGGCAAACATTGAA
1 GCTGCAGTTCGGCAAACATTGAA
1595540 GCTGCA
1 GCTGCA
1595546 ACAAGACCTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.21
Consensus pattern (23 bp):
GCTGCAGTTCGGCAAACATTGAA
Found at i:1599343 original size:21 final size:20
Alignment explanation
Indices: 1599295--1599337 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
1599285 TATTTTTTTC
1599295 AAAAAAACAAAAAAAGGCAAA
1 AAAAAAACAAAAAAA-GCAAA
*
1599316 AAAAAAACAAACAAA-CAAA
1 AAAAAAACAAAAAAAGCAAA
1599335 AAA
1 AAA
1599338 CCAAAATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
21 14 0.67
ACGTcount: A:0.84, C:0.12, G:0.05, T:0.00
Consensus pattern (20 bp):
AAAAAAACAAAAAAAGCAAA
Found at i:1601828 original size:21 final size:23
Alignment explanation
Indices: 1601792--1601833 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
1601782 TTTAATTATC
*
1601792 ACAAATATTTTTTA-GGTAAATT
1 ACAAATATTATTTAGGGTAAATT
1601814 ACAAAT-TTATTTAGGGTAAA
1 ACAAATATTATTTAGGGTAAA
1601834 CTATGAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.43, C:0.05, G:0.12, T:0.40
Consensus pattern (23 bp):
ACAAATATTATTTAGGGTAAATT
Found at i:1603814 original size:20 final size:20
Alignment explanation
Indices: 1603789--1603826 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1603779 TTCTGGGCAA
*
1603789 GTGCATCGATGCATTAAGGG
1 GTGCATCGATGCACTAAGGG
*
1603809 GTGCATCGTTGCACTAAG
1 GTGCATCGATGCACTAAG
1603827 ATAAATTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (20 bp):
GTGCATCGATGCACTAAGGG
Found at i:1604671 original size:31 final size:31
Alignment explanation
Indices: 1604629--1604739 Score: 161
Period size: 31 Copynumber: 3.6 Consensus size: 31
1604619 AGGGTTAAGG
1604629 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* *
1604660 GTTTACTTATGTTCTTCGGGACATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
1604691 GTTTACCTATGTTCTTCGGTACATAT-GACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
1604721 GATTACTTAGGTTCTTCGG
1 GTTTACCTATGTTCTTCGG
1604740 AATCTATGGA
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
30 19 0.26
31 53 0.74
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:1604748 original size:61 final size:62
Alignment explanation
Indices: 1604629--1604752 Score: 189
Period size: 61 Copynumber: 2.0 Consensus size: 62
1604619 AGGGTTAAGG
* * *
1604629 GTTTACCTATGTTCTTCGGGACATATGGACTGTTTACTTATGTTCTTCGGGACATATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACTGATTACTTAGGTTCTTCGGAACATATGGATT
*
1604691 GTTTACCTATGTTCTTCGGTACATAT-GACTGATTACTTAGGTTCTTCGGAATC-TATGGATT
1 GTTTACCTATGTTCTTCGGGACATATGGACTGATTACTTAGGTTCTTCGGAA-CATATGGATT
1604752 G
1 G
1604753 GTCCTTTGGG
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
61 31 0.54
62 26 0.46
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.42
Consensus pattern (62 bp):
GTTTACCTATGTTCTTCGGGACATATGGACTGATTACTTAGGTTCTTCGGAACATATGGATT
Found at i:1607865 original size:23 final size:23
Alignment explanation
Indices: 1607831--1607898 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
1607821 AACCTTATAT
1607831 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* *
1607854 GGCACTAT-GGTGCAATTCTACGT
1 GGCACT-TCGGTGCATTTCTACGC
*
1607877 GGCACTTCGGTGCATTTATACG
1 GGCACTTCGGTGCATTTCTACG
1607899 AGCTGTGGTG
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
22 1 0.03
23 37 0.95
24 1 0.03
ACGTcount: A:0.18, C:0.25, G:0.26, T:0.31
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:1614521 original size:20 final size:20
Alignment explanation
Indices: 1614496--1614533 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1614486 CCCCCTTTGA
*
1614496 AGGGGAACCGATTCCCCCAC
1 AGGGGAACCGATACCCCCAC
*
1614516 AGGGGAATCGATACCCCC
1 AGGGGAACCGATACCCCC
1614534 TGGGGTTCTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.37, G:0.26, T:0.11
Consensus pattern (20 bp):
AGGGGAACCGATACCCCCAC
Done.