Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014230.1 Kokia drynarioides strain JFW-HI SEQ_129263, 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: 620973
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 39 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:513 original size:18 final size:18
Alignment explanation
Indices: 487--532 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
477 TTATCACTCC
* *
487 GTTAAGAAATAATCGTGA
1 GTTACGAAATAATCATGA
505 GTTACGAAATAATCATGA
1 GTTACGAAATAATCATGA
523 GTTACGAAAT
1 GTTACGAAAT
533 CGTGCTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.43, C:0.09, G:0.20, T:0.28
Consensus pattern (18 bp):
GTTACGAAATAATCATGA
Found at i:2434 original size:41 final size:41
Alignment explanation
Indices: 2377--2615 Score: 225
Period size: 41 Copynumber: 5.8 Consensus size: 41
2367 TATGGAAAAG
2377 AGCATTAGC-ATCGTTTATGAGAAAGCGCCGCTAAAGGTCAA
1 AGCATTAGCGA-CGTTTATGAGAAAGCGCCGCTAAAGGTCAA
* *
2418 AGCATTAGTGACGTTTATGAGAAAGCGCCGCTAAAGGTCAT
1 AGCATTAGCGACGTTTATGAGAAAGCGCCGCTAAAGGTCAA
** * * *
2459 AGCATTAGCGGTGTTTATAAGAAAGCGTCGCTAAAGATCACA
1 AGCATTAGCGACGTTTATGAGAAAGCGCCGCTAAAGGTCA-A
* * * * * ** * *
2501 A-CATTAGCGTCATTCATTAGAAAGTGCTACTAAAGGTTAG
1 AGCATTAGCGACGTTTATGAGAAAGCGCCGCTAAAGGTCAA
* * *
2541 AGCATTAGCGGCGTTTATGA-AAAACGCCGTTAAAGGTCACA
1 AGCATTAGCGACGTTTATGAGAAAGCGCCGCTAAAGGTCA-A
* *
2582 A-CATTATCGACGTTTATGAGAAATACGCCGCTAA
1 AGCATTAGCGACGTTTATGAGAAA-GCGCCGCTAA
2616 TGGTTAAGTA
Statistics
Matches: 157, Mismatches: 35, Indels: 11
0.77 0.17 0.05
Matches are distributed among these distances:
40 30 0.19
41 116 0.74
42 11 0.07
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (41 bp):
AGCATTAGCGACGTTTATGAGAAAGCGCCGCTAAAGGTCAA
Found at i:6576 original size:43 final size:43
Alignment explanation
Indices: 6467--6579 Score: 138
Period size: 43 Copynumber: 2.6 Consensus size: 43
6457 ATTTGTTAAT
* * *
6467 TTTAGCGGCATTTGTGAAAAAAGCGCCGCTAAAGACCATATTA
1 TTTAGCGGCGTTTGTGAAAAAAGCACCGCGAAAGACCATATTA
* * *
6510 TTTAGCGGCGTTTGT-AATAAAAGCACTGCGAAAGACCATGTTC
1 TTTAGCGGCGTTTGTGAA-AAAAGCACCGCGAAAGACCATATTA
* *
6553 TTTAGCGGCGTTTGTGGAGAAAGCACC
1 TTTAGCGGCGTTTGTGAAAAAAGCACC
6580 TCTAGTGGCG
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
42 2 0.03
43 56 0.95
44 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGAAAAAAGCACCGCGAAAGACCATATTA
Found at i:13772 original size:24 final size:24
Alignment explanation
Indices: 13615--13776 Score: 96
Period size: 24 Copynumber: 6.6 Consensus size: 24
13605 ATATATATAT
* *
13615 GTTTTCGCTCGTCAGCATGAATAC
1 GTTTACGCTCGTCAGAATGAATAC
* * * *
13639 ATTTACACTCATCAGCATAT-ATATAT
1 GTTTACGCTCGTCAG-A-ATGA-ATAC
*
13665 GTTTACGCTCGTCAGCATGAATAC
1 GTTTACGCTCGTCAGAATGAATAC
* * * * * * *
13689 ATTTATGCTTGTTAGCATAAACAC
1 GTTTACGCTCGTCAGAATGAATAC
*
13713 GTTTACGCTCATCA-ACAT-ATATATTC
1 GTTTACGCTCGTCAGA-ATGA-ATA--C
*
13739 ATTTACGCTCGTCAGAATGAATAC
1 GTTTACGCTCGTCAGAATGAATAC
13763 GTTTACGCTCGTCA
1 GTTTACGCTCGTCA
13777 ACTTATCAGA
Statistics
Matches: 101, Mismatches: 27, Indels: 20
0.68 0.18 0.14
Matches are distributed among these distances:
23 1 0.01
24 61 0.60
25 2 0.02
26 35 0.35
27 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (24 bp):
GTTTACGCTCGTCAGAATGAATAC
Found at i:15540 original size:66 final size:66
Alignment explanation
Indices: 15430--15578 Score: 244
Period size: 66 Copynumber: 2.3 Consensus size: 66
15420 CGCACATAAG
** **
15430 CATACTTAATAGGGTTTGCATGCAAAATGGGCTTCACAACAGAAGGGTCATTCACATAAGAGTTC
1 CATACTTTGTAGGGTTCCCATGCAAAATGGGCTTCACAACAGAAGGGTCATTCACATAAGAGTTC
15495 A
66 A
*
15496 CATACTTTGTAGGGTTCCCATGCAAAATGGGCTTCACAAGAGAAGGGTCATTCACATAAGAGTTC
1 CATACTTTGTAGGGTTCCCATGCAAAATGGGCTTCACAACAGAAGGGTCATTCACATAAGAGTTC
15561 A
66 A
*
15562 CATACTTTGTACGGTTC
1 CATACTTTGTAGGGTTC
15579 GCTAAGTAGT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 77 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (66 bp):
CATACTTTGTAGGGTTCCCATGCAAAATGGGCTTCACAACAGAAGGGTCATTCACATAAGAGTTC
A
Found at i:23157 original size:16 final size:17
Alignment explanation
Indices: 23128--23165 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
23118 CGATTTTAAG
23128 TTTATAATACTTTATAT
1 TTTATAATACTTTATAT
*
23145 TTTATAAT-TTTTATAT
1 TTTATAATACTTTATAT
*
23161 ATTAT
1 TTTAT
23166 GTAATTTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTATAATACTTTATAT
Found at i:34411 original size:191 final size:196
Alignment explanation
Indices: 34118--34497 Score: 470
Period size: 195 Copynumber: 2.0 Consensus size: 196
34108 GGGAAATGAT
* *
34118 GAAAGAAATATGGATCCTAAATGGATTACAAGCCCTACAATGACTGAGATTTATGCATCAGTGCA
1 GAAAGAAATATGGACCCTAAATGGATTACAAGCCCTACAATGACTGAGATCTATGCATCAGTGCA
* * *
34183 TATTCTTGACAACTCGTGTGAGCAGCACCGTTAGGGAATAG-TTATA-TGC-ACAGATACCGTAT
66 TACTCTTGACAACTCGTGTGAGCAGCACCGTTAGGGAACAGTTTATAGTACAACAGATACCGTAT
* * *
34245 CGATGGTCGA-GGTACCGCATATGTTGCGAGTCCTCGATAGCTTGTGTTAGCAGCATCGTGACTT
131 CGATGG-CGAGGGTACCGCATATGTTGCGAGTCCTCAATAGCTCGTGTGAGCAGCATCGTGACTT
34309 GG
195 GG
* * * * * *
34311 GAAAGAGATATGGACCCTAAATGGATTACAGGCCCTACGAT-AGCTGGGA-CTATGC-TTATTGC
1 GAAAGAAATATGGACCCTAAATGGATTACAAGCCCTACAATGA-CTGAGATCTATGCATCAGTGC
* * * *
34373 ATACTCTTGACAGCTTC-TGTGAGCAGCATCGTTAGGGAACAGTTTATAGTACATATAGGTACCG
65 ATACTCTTGACAAC-TCGTGTGAGCAGCACCGTTAGGGAACAGTTTATAGTACA-ACAGATACCG
* * * *
34437 TATCGATGGCTAGGGTACCGCATATGTTGTGAGTCCTTAATAGCTCGTGTGAGTAGCATCG
128 TATCGATGGCGAGGGTACCGCATATGTTGCGAGTCCTCAATAGCTCGTGTGAGCAGCATCG
34498 AGTACTGGTA
Statistics
Matches: 158, Mismatches: 22, Indels: 12
0.82 0.11 0.06
Matches are distributed among these distances:
191 40 0.25
192 13 0.08
193 44 0.28
194 2 0.01
195 59 0.37
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (196 bp):
GAAAGAAATATGGACCCTAAATGGATTACAAGCCCTACAATGACTGAGATCTATGCATCAGTGCA
TACTCTTGACAACTCGTGTGAGCAGCACCGTTAGGGAACAGTTTATAGTACAACAGATACCGTAT
CGATGGCGAGGGTACCGCATATGTTGCGAGTCCTCAATAGCTCGTGTGAGCAGCATCGTGACTTG
G
Found at i:37218 original size:27 final size:27
Alignment explanation
Indices: 37188--37243 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
37178 TGTAAACTTT
37188 ATTCTTGGCAAATACCACTTACTGTTC
1 ATTCTTGGCAAATACCACTTACTGTTC
37215 ATTCTTGGCAAATACCACTTACTGTTC
1 ATTCTTGGCAAATACCACTTACTGTTC
37242 AT
1 AT
37244 ACTTCTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.38
Consensus pattern (27 bp):
ATTCTTGGCAAATACCACTTACTGTTC
Found at i:41475 original size:2 final size:2
Alignment explanation
Indices: 41468--41503 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
41458 ACAAACCCTT
41468 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
41504 TATATATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:45669 original size:39 final size:39
Alignment explanation
Indices: 45605--45682 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
45595 CTGCGCTAGT
*
45605 GCTTCTGGATATGTTAGCAGTGTTAAATCGTTAATAATC
1 GCTTCTGGATATGTTAGCAGCGTTAAATCGTTAATAATC
*
45644 GCTTTTGGATATGTTAGCAGCGTTAAATCGTTAATAATC
1 GCTTCTGGATATGTTAGCAGCGTTAAATCGTTAATAATC
45683 TGTAGAAGCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (39 bp):
GCTTCTGGATATGTTAGCAGCGTTAAATCGTTAATAATC
Found at i:49954 original size:18 final size:17
Alignment explanation
Indices: 49931--49964 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
49921 AATTGAAGAG
49931 AATTAACAAAAGATTAGT
1 AATTAACAAAAG-TTAGT
*
49949 AATTAATAAAAGTTAG
1 AATTAACAAAAGTTAG
49965 AAAAGAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.56, C:0.03, G:0.12, T:0.29
Consensus pattern (17 bp):
AATTAACAAAAGTTAGT
Found at i:55608 original size:90 final size:89
Alignment explanation
Indices: 55441--55683 Score: 285
Period size: 89 Copynumber: 2.7 Consensus size: 89
55431 CATTAAAACC
* ** ** *
55441 GGGTCAAA-TTCAATTTTTTTAAACTTTAGGGGTTAAATCAGAATTTTTGGAAAGTTT-GAGGGT
1 GGGTCAAATTTGAATTTTTGGAAA-TTTAGGGGTTAAATTTGAATTTTTAGAAAGTTTAG-GGGT
55504 TAAATTAGAATTTTTGGAAAAATTTGA
64 TAAATTAGAATTTTTGG-AAAATTTGA
*
55531 GGGTCAAATTTGAATTTTTGGAAAGTTTAGGGGTTAAATTTGAATTTTT-GAAAATTTAGGGGTT
1 GGGTCAAATTTGAATTTTTGGAAA-TTTAGGGGTTAAATTTGAATTTTTAGAAAGTTTAGGGGTT
* *
55595 AAATTTGATTTTTTGGAAAATTTGA
65 AAATTAGAATTTTTGGAAAATTTGA
* * * * * *
55620 GGGTAAAATTTGATTTTTTGGAAAATTCGAGGGTCAAATTTGAATTTTTAGAAAGTTTAAGGGT
1 GGGTCAAATTTGAATTTTTGGAAATTTAG-GGGTTAAATTTGAATTTTTAGAAAGTTTAGGGGT
55684 CAAAAAACAA
Statistics
Matches: 133, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
88 3 0.02
89 49 0.37
90 46 0.35
91 35 0.26
ACGTcount: A:0.33, C:0.03, G:0.23, T:0.41
Consensus pattern (89 bp):
GGGTCAAATTTGAATTTTTGGAAATTTAGGGGTTAAATTTGAATTTTTAGAAAGTTTAGGGGTTA
AATTAGAATTTTTGGAAAATTTGA
Found at i:55617 original size:17 final size:17
Alignment explanation
Indices: 55595--55646 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
55585 TTTAGGGGTT
55595 AAATTTGATTTTTTGGA
1 AAATTTGATTTTTTGGA
*
55612 AAATTTGA-----GGGTA
1 AAATTTGATTTTTTGG-A
55625 AAATTTGATTTTTTGGA
1 AAATTTGATTTTTTGGA
55642 AAATT
1 AAATT
55647 CGAGGGTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 12
0.66 0.05 0.29
Matches are distributed among these distances:
12 2 0.07
13 9 0.33
17 14 0.52
18 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (17 bp):
AAATTTGATTTTTTGGA
Found at i:55683 original size:60 final size:59
Alignment explanation
Indices: 55481--55688 Score: 256
Period size: 59 Copynumber: 3.5 Consensus size: 59
55471 GGTTAAATCA
* * *
55481 GAATTTTTGGAAAGTTTGAGGGTTAAATTAGAATTTTTGGAAAAATTTGAGGGTCAAATTT
1 GAATTTTTGGAAAGTTTAAGGGTAAAATTTGAATTTTTGG-AAAA-TTGAGGGTCAAATTT
* * * *
55542 GAATTTTTGGAAAGTTTAGGGGTTAAATTTGAATTTTT-GAAAATTTAGGGGTTAAATTT
1 GAATTTTTGGAAAGTTTAAGGGTAAAATTTGAATTTTTGGAAAATTGA-GGGTCAAATTT
* * * *
55601 GATTTTTTGGAAAATTTGAGGGTAAAATTTGATTTTTTGGAAAATTCGAGGGTCAAATTT
1 GAATTTTTGGAAAGTTTAAGGGTAAAATTTGAATTTTTGGAAAATT-GAGGGTCAAATTT
*
55661 GAATTTTTAGAAAGTTTAAGGGTCAAAA
1 GAATTTTTGGAAAGTTTAAGGGT-AAAA
55689 AACAATTTTA
Statistics
Matches: 126, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
58 3 0.02
59 46 0.37
60 37 0.29
61 40 0.32
ACGTcount: A:0.34, C:0.02, G:0.24, T:0.40
Consensus pattern (59 bp):
GAATTTTTGGAAAGTTTAAGGGTAAAATTTGAATTTTTGGAAAATTGAGGGTCAAATTT
Found at i:55684 original size:30 final size:30
Alignment explanation
Indices: 55441--55687 Score: 237
Period size: 30 Copynumber: 8.3 Consensus size: 30
55431 CATTAAAACC
* ** * *
55441 GGGTCAAA-TTCAATTTTTTTAAACTTTAG
1 GGGTCAAATTTGAATTTTTGGAAAATTTAA
* ** * *
55470 GGGTTAAATCAGAATTTTTGGAAAGTTTGA
1 GGGTCAAATTTGAATTTTTGGAAAATTTAA
* * *
55500 GGGTTAAATTAGAATTTTTGGAAAAATTTGA
1 GGGTCAAATTTGAATTTTTGG-AAAATTTAA
* *
55531 GGGTCAAATTTGAATTTTTGGAAAGTTTAG
1 GGGTCAAATTTGAATTTTTGGAAAATTTAA
* *
55561 GGGTTAAATTTGAATTTTT-GAAAATTTAG
1 GGGTCAAATTTGAATTTTTGGAAAATTTAA
* * *
55590 GGGTTAAATTTGATTTTTTGGAAAATTTGA
1 GGGTCAAATTTGAATTTTTGGAAAATTTAA
* * **
55620 GGGTAAAATTTGATTTTTTGGAAAATTCGA
1 GGGTCAAATTTGAATTTTTGGAAAATTTAA
* *
55650 GGGTCAAATTTGAATTTTTAGAAAGTTTAA
1 GGGTCAAATTTGAATTTTTGGAAAATTTAA
55680 GGGTCAAA
1 GGGTCAAA
55688 AAACAATTTT
Statistics
Matches: 186, Mismatches: 29, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
29 34 0.18
30 125 0.67
31 27 0.15
ACGTcount: A:0.34, C:0.03, G:0.23, T:0.40
Consensus pattern (30 bp):
GGGTCAAATTTGAATTTTTGGAAAATTTAA
Found at i:55696 original size:119 final size:120
Alignment explanation
Indices: 55455--55697 Score: 326
Period size: 120 Copynumber: 2.0 Consensus size: 120
55445 CAAATTCAAT
* * * *
55455 TTTTTTAAACTTTAGGGGTTAAATCAGAATTTTTGGAAAGTTTGAGGGTTAAATTAGAATTTTTG
1 TTTTTGAAAATTTAGGGGTTAAATCAGAATTTTTGGAAAATTTGAGGGTAAAATTAGAATTTTTG
* * * * ****
55520 GAAAAATTTGAGGGTCAAATTTGAATTTTTGGAAAGTTTAGGGGTTAAATTTGAA
66 GAAAAATTCGAGGGTCAAATTTGAATTTTTAGAAAGTTTAAGGGTCAAAAAACAA
** * * *
55575 TTTTTGAAAATTTAGGGGTTAAATTTGATTTTTTGGAAAATTTGAGGGTAAAATTTGATTTTTTG
1 TTTTTGAAAATTTAGGGGTTAAATCAGAATTTTTGGAAAATTTGAGGGTAAAATTAGAATTTTTG
55640 G-AAAATTCGAGGGTCAAATTTGAATTTTTAGAAAGTTTAAGGGTCAAAAAACAA
66 GAAAAATTCGAGGGTCAAATTTGAATTTTTAGAAAGTTTAAGGGTCAAAAAACAA
55694 TTTT
1 TTTT
55698 AAAATAAAGT
Statistics
Matches: 106, Mismatches: 17, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
119 49 0.46
120 57 0.54
ACGTcount: A:0.34, C:0.03, G:0.22, T:0.41
Consensus pattern (120 bp):
TTTTTGAAAATTTAGGGGTTAAATCAGAATTTTTGGAAAATTTGAGGGTAAAATTAGAATTTTTG
GAAAAATTCGAGGGTCAAATTTGAATTTTTAGAAAGTTTAAGGGTCAAAAAACAA
Found at i:57376 original size:40 final size:40
Alignment explanation
Indices: 57332--57456 Score: 162
Period size: 40 Copynumber: 3.1 Consensus size: 40
57322 CCCATTATCG
* *
57332 GGGTAAGAGATCTTATGGTCTTCAGTCTGCCCTCTAGTTA
1 GGGTAAGAGATCTGATGGTCTTCAATCTGCCCTCTAGTTA
* *
57372 GGGTAAAAGATCTGATGGTCTTCAATCTACCCTCT-GATTA
1 GGGTAAGAGATCTGATGGTCTTCAATCTGCCCTCTAG-TTA
* ** *
57412 GGGAAAGAGATAAGATGATCTTCAATCTGCCCTCTAGTTA
1 GGGTAAGAGATCTGATGGTCTTCAATCTGCCCTCTAGTTA
57452 GGGTA
1 GGGTA
57457 GAAGATTGAA
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
39 1 0.01
40 70 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (40 bp):
GGGTAAGAGATCTGATGGTCTTCAATCTGCCCTCTAGTTA
Found at i:57675 original size:50 final size:50
Alignment explanation
Indices: 57569--57704 Score: 166
Period size: 50 Copynumber: 2.7 Consensus size: 50
57559 CTTTAGTCTA
* * * * **
57569 CCCCTCTATAGCTTTAGGTGAATGAGATTCGCCATTGCGGCTTCAATTTG
1 CCCCTCTACAGCTTTAGGTGTATGAGATTTGTCATTGCGGCTTCAATCCG
57619 CCCCTCTACAGCTTTAGGTGTATGAGATTTGTCATTGCGGCTTCAATCCG
1 CCCCTCTACAGCTTTAGGTGTATGAGATTTGTCATTGCGGCTTCAATCCG
** * *
57669 TTCCTCTACAACTTTAGGGGTAT-AGGATTTGTCATT
1 CCCCTCTACAGCTTTAGGTGTATGA-GATTTGTCATT
57705 CTATTGCCAT
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
49 1 0.01
50 74 0.99
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (50 bp):
CCCCTCTACAGCTTTAGGTGTATGAGATTTGTCATTGCGGCTTCAATCCG
Found at i:66491 original size:24 final size:24
Alignment explanation
Indices: 66473--66582 Score: 166
Period size: 24 Copynumber: 4.6 Consensus size: 24
66463 TTTAGCCCAC
66473 ACGAGCCCAGAATGATTAGCTCTT
1 ACGAGCCCAGAATGATTAGCTCTT
* *
66497 ACGAGCCCAGAATGGTTAGATCTT
1 ACGAGCCCAGAATGATTAGCTCTT
* *
66521 ACGAGCCCAGAATGGTTAGCTTTT
1 ACGAGCCCAGAATGATTAGCTCTT
*
66545 ATGAGCCCAGAATGATTAGCTCTT
1 ACGAGCCCAGAATGATTAGCTCTT
*
66569 ACGAGCCCGGAATG
1 ACGAGCCCAGAATG
66583 GTTATCCAGT
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 77 1.00
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (24 bp):
ACGAGCCCAGAATGATTAGCTCTT
Found at i:71433 original size:21 final size:21
Alignment explanation
Indices: 71392--71445 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
71382 GGAGTTTTGG
**
71392 GTATCGGTAGTTACATGACTT
1 GTATCGGTAGAAACATGACTT
71413 GTATCGGTAGAAATCAT-ACTT
1 GTATCGGTAGAAA-CATGACTT
*
71434 GTATTGGTAGAA
1 GTATCGGTAGAA
71446 CTAGCACAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 26 0.90
22 3 0.10
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (21 bp):
GTATCGGTAGAAACATGACTT
Found at i:76738 original size:20 final size:21
Alignment explanation
Indices: 76702--76751 Score: 52
Period size: 20 Copynumber: 2.4 Consensus size: 21
76692 ATTGGTATGG
*
76702 TTTATATTAAGTATAAATA-GA
1 TTTA-ATTAAGTATAAAAATGA
76723 TTTAATTAAG-ATTAAAAATGA
1 TTTAATTAAGTA-TAAAAATGA
76744 -TTAATTAA
1 TTTAATTAA
76752 AGCTTAATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 1 0.04
20 19 0.73
21 6 0.23
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (21 bp):
TTTAATTAAGTATAAAAATGA
Found at i:80139 original size:4 final size:4
Alignment explanation
Indices: 80114--80182 Score: 58
Period size: 4 Copynumber: 17.5 Consensus size: 4
80104 ACAAAAACCA
*
80114 ATTT AATTT -TTT ATTT AATT ATTT ATTT ATTT CA-TT -TTT ATTT CATTTT
1 ATTT -ATTT ATTT ATTT ATTT ATTT ATTT ATTT -ATTT ATTT ATTT -A-TTT
80163 ATTT ATTT A-TT ATTT -TTT AT
1 ATTT ATTT ATTT ATTT ATTT AT
80183 ATAAATAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
3 11 0.20
4 33 0.61
5 7 0.13
6 3 0.06
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:80144 original size:16 final size:16
Alignment explanation
Indices: 80119--80177 Score: 61
Period size: 15 Copynumber: 3.8 Consensus size: 16
80109 AACCAATTTA
80119 ATTT-TTTATTTAATT
1 ATTTATTTATTTAATT
*
80134 ATTTATTTATTTCATT
1 ATTTATTTATTTAATT
*
80150 -TTTATTTCATTTTATTT
1 ATTTATTT-A-TTTAATT
80167 ATTTA-TTATTT
1 ATTTATTTATTT
80178 TTTATATAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
15 14 0.38
16 12 0.32
17 7 0.19
18 4 0.11
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (16 bp):
ATTTATTTATTTAATT
Found at i:80155 original size:11 final size:11
Alignment explanation
Indices: 80139--80177 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
80129 TAATTATTTA
80139 TTTATTTCATT
1 TTTATTTCATT
80150 TTTATTTCA-T
1 TTTATTTCATT
80160 TTTATTT-ATT
1 TTTATTTCATT
80170 TATTATTT
1 T-TTATTT
80178 TTTATATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 1 0.04
10 10 0.38
11 15 0.58
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTATTTCATT
Found at i:80180 original size:29 final size:27
Alignment explanation
Indices: 80120--80182 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 27
80110 ACCAATTTAA
80120 TTTTTTATTTAATTATTTATTTATTTC
1 TTTTTTATTTAATTATTTATTTATTTC
* * *
80147 ATTTTTATTTCATTTTATTTATTTA-TTA
1 TTTTTTATTT-A-ATTATTTATTTATTTC
80175 TTTTTTAT
1 TTTTTTAT
80183 ATAAATAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 9 0.30
28 10 0.33
29 11 0.37
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (27 bp):
TTTTTTATTTAATTATTTATTTATTTC
Found at i:81400 original size:2 final size:2
Alignment explanation
Indices: 81350--81382 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
81340 CTTAAATTTA
81350 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
81383 GTTTATTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:81413 original size:24 final size:24
Alignment explanation
Indices: 81350--81414 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 24
81340 CTTAAATTTA
*
81350 ATATATATATATA-TATA-T-A-T
1 ATATATATATATAGTGTATTCATT
*
81370 ATATATATATATAGTTTATTCATT
1 ATATATATATATAGTGTATTCATT
*
81394 ATATATAGTATGTA-TGTATTC
1 ATATATA-TATATAGTGTATTC
81415 GCCGAATACA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 13 0.35
21 3 0.08
22 1 0.03
23 1 0.03
24 14 0.38
25 5 0.14
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.51
Consensus pattern (24 bp):
ATATATATATATAGTGTATTCATT
Found at i:89697 original size:29 final size:29
Alignment explanation
Indices: 89575--89743 Score: 176
Period size: 30 Copynumber: 5.7 Consensus size: 29
89565 TCAAATTCAT
* * *
89575 ATTTTTGAAAACTTTAAGGGTCAAATTAGA
1 ATTTTTGGAAAGTTT-AGGGTCAAATTTGA
* *
89605 ATTTTTGGAAAGTTTAGGGGTAAAATTAGA
1 ATTTTTGGAAAGTTTA-GGGTCAAATTTGA
* *
89635 ATTTTTGGAAAAATTTAAGGGTCAAATTTAA
1 ATTTTTGG-AAAGTTT-AGGGTCAAATTTGA
*
89666 ATTTTTGGAAAGTTTAGGATCAAATTTGA
1 ATTTTTGGAAAGTTTAGGGTCAAATTTGA
* *
89695 ATTTTTGGAAAATTTAGGGGTTAAATTTGA
1 ATTTTTGGAAAGTTTA-GGGTCAAATTTGA
* **
89725 ATTTCTAAAAAGTTTAGGG
1 ATTTTTGGAAAGTTTAGGG
89744 GTTAAAAATA
Statistics
Matches: 118, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
29 31 0.26
30 62 0.53
31 24 0.20
32 1 0.01
ACGTcount: A:0.37, C:0.03, G:0.21, T:0.39
Consensus pattern (29 bp):
ATTTTTGGAAAGTTTAGGGTCAAATTTGA
Found at i:89757 original size:29 final size:28
Alignment explanation
Indices: 89703--89762 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 28
89693 GAATTTTTGG
**
89703 AAAATTTAGGGGTTAAATTTGAATTTCTA
1 AAAATTTAGGGGTTAAAAATGAATTT-TA
89732 AAAAGTTTAGGGGTTAAAAAT-AATTTTA
1 AAAA-TTTAGGGGTTAAAAATGAATTTTA
89760 AAA
1 AAA
89763 TAAAATATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 5 0.18
29 9 0.32
30 14 0.50
ACGTcount: A:0.45, C:0.02, G:0.17, T:0.37
Consensus pattern (28 bp):
AAAATTTAGGGGTTAAAAATGAATTTTA
Found at i:92478 original size:19 final size:19
Alignment explanation
Indices: 92454--92501 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
92444 CTACAAACGT
92454 TGTCGTGACATACTATGTA
1 TGTCGTGACATACTATGTA
92473 TGTCGTGACATACTATGTA
1 TGTCGTGACATACTATGTA
92492 TGTCGTGACA
1 TGTCGTGACA
92502 AAGAAGTCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (19 bp):
TGTCGTGACATACTATGTA
Found at i:95405 original size:40 final size:40
Alignment explanation
Indices: 95361--95476 Score: 151
Period size: 40 Copynumber: 2.9 Consensus size: 40
95351 TCTTTTCGAT
* * *
95361 CTTTTCATTTATTACCCTTTTGGATAACATCTTTTTCAAC
1 CTTTTCATTTATTATCCTTTCGGATAATATCTTTTTCAAC
* ** *
95401 CTTTTCATTTATTATCCTTCCAAATAATATCTTTTTCGAC
1 CTTTTCATTTATTATCCTTTCGGATAATATCTTTTTCAAC
* *
95441 CTTTTCATCTATTATCCTTTCGGATAATATATTTTT
1 CTTTTCATTTATTATCCTTTCGGATAATATCTTTTT
95477 AATTATTCGA
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.23, C:0.21, G:0.04, T:0.52
Consensus pattern (40 bp):
CTTTTCATTTATTATCCTTTCGGATAATATCTTTTTCAAC
Found at i:96864 original size:17 final size:18
Alignment explanation
Indices: 96842--96875 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
96832 TTATTTATAA
96842 TTTAAA-AAATTAATTAT
1 TTTAAATAAATTAATTAT
*
96859 TTTAAATAATTTAATTA
1 TTTAAATAAATTAATTA
96876 AAGTTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTAAATAAATTAATTAT
Found at i:99874 original size:10 final size:11
Alignment explanation
Indices: 99857--99913 Score: 66
Period size: 10 Copynumber: 5.2 Consensus size: 11
99847 GCCTATATTA
99857 TATTTTAATTT
1 TATTTTAATTT
99868 T-TTTTAAATATT
1 TATTTT-AAT-TT
99880 TATTTT-ATTT
1 TATTTTAATTT
99890 TATTTT-ATTT
1 TATTTTAATTT
99900 TATTTTAATATT
1 TATTTTAAT-TT
99912 TA
1 TA
99914 ATAATTTTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
10 22 0.54
11 8 0.20
12 7 0.17
13 4 0.10
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TATTTTAATTT
Found at i:99888 original size:5 final size:5
Alignment explanation
Indices: 99878--99906 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
99868 TTTTTAAATA
99878 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
99907 ATATTTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:104292 original size:21 final size:21
Alignment explanation
Indices: 104255--104294 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
104245 AAATCCTTAG
*
104255 TAAATAGACAAATAAAAAATT
1 TAAATAGACAAAAAAAAAATT
104276 TAAATAG-CAAGAAAAAAAA
1 TAAATAGACAA-AAAAAAAA
104295 AACGGTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.70, C:0.05, G:0.07, T:0.17
Consensus pattern (21 bp):
TAAATAGACAAAAAAAAAATT
Found at i:106716 original size:24 final size:23
Alignment explanation
Indices: 106680--106725 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
106670 AAATATTTGG
**
106680 TTTTTTCGGTTTTTAATATTTTTT
1 TTTTTTCAATTTTTAA-ATTTTTT
*
106704 TTTTTTCAATTTTTGAATTTTT
1 TTTTTTCAATTTTTAAATTTTT
106726 ATTCATTTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.15, C:0.04, G:0.07, T:0.74
Consensus pattern (23 bp):
TTTTTTCAATTTTTAAATTTTTT
Found at i:108080 original size:30 final size:29
Alignment explanation
Indices: 108028--108200 Score: 152
Period size: 30 Copynumber: 5.7 Consensus size: 29
108018 AAAATGAAAA
* *
108028 TTTGGAAAGTTTAGGGGCTAAATTCAAATT
1 TTTGG-AAGTTTGGGGGTTAAATTCAAATT
**
108058 TTTAGGAAGTTTGGGGGTTAAATTTGAATT
1 TTT-GGAAGTTTGGGGGTTAAATTCAAATT
* *
108088 TTTGGAAAGTTTAGGGGTTAAATCCAAATT
1 TTTGG-AAGTTTGGGGGTTAAATTCAAATT
* *
108118 TTTAGGAAGTTTGAGGGTTAAA-TCTAGATTT
1 TTT-GGAAGTTTGGGGGTTAAATTC-A-AATT
* *
108149 TTTGAGAAG-TTGAGGGTTTAAATCCAAATT
1 TTTG-GAAGTTTG-GGGGTTAAATTCAAATT
*
108179 TTTGGATAGTTTGGAGGTTAAA
1 TTTGGA-AGTTTGGGGGTTAAA
108201 ACGCAATTTC
Statistics
Matches: 115, Mismatches: 18, Indels: 20
0.75 0.12 0.13
Matches are distributed among these distances:
29 5 0.04
30 84 0.73
31 25 0.22
32 1 0.01
ACGTcount: A:0.31, C:0.04, G:0.26, T:0.39
Consensus pattern (29 bp):
TTTGGAAGTTTGGGGGTTAAATTCAAATT
Found at i:108097 original size:60 final size:60
Alignment explanation
Indices: 108028--108200 Score: 233
Period size: 60 Copynumber: 2.9 Consensus size: 60
108018 AAAATGAAAA
* * *
108028 TTTGGAAAGTTTAGGGGCTAAATTCAAATTTTTAGGAAGTTTGGGGGTTAAAT-TTGAATT
1 TTTGGAAAGTTTAGGGGTTAAATCCAAATTTTTAGGAAGTTTGGGGGTTAAATCTAG-ATT
*
108088 TTTGGAAAGTTTAGGGGTTAAATCCAAATTTTTAGGAAGTTTGAGGGTTAAATCTAGATT
1 TTTGGAAAGTTTAGGGGTTAAATCCAAATTTTTAGGAAGTTTGGGGGTTAAATCTAGATT
* * * *
108148 TTTTGAGAAGTTGAGGGTTTAAATCCAAATTTTT-GGATAGTTTGGAGGTTAAA
1 TTTGGA-AAGTTTAGGGGTTAAATCCAAATTTTTAGGA-AGTTTGGGGGTTAAA
108201 ACGCAATTTC
Statistics
Matches: 101, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
60 61 0.60
61 40 0.40
ACGTcount: A:0.31, C:0.04, G:0.26, T:0.39
Consensus pattern (60 bp):
TTTGGAAAGTTTAGGGGTTAAATCCAAATTTTTAGGAAGTTTGGGGGTTAAATCTAGATT
Found at i:110069 original size:42 final size:42
Alignment explanation
Indices: 109837--111365 Score: 1185
Period size: 39 Copynumber: 38.5 Consensus size: 42
109827 TCTTGATTTA
* *
109837 GGGGTAAAAGATTGGATGA---CTTGAATCTGCCCCATGATC
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
* * * * * *
109876 AGGGTAAGAGATTAG-TG-TGTCTTTAATCTTGCCTC-TGTTT
1 GGGGTAAGAGATTGGATGATGTCTTCAATC-TGCCCCATGATC
** * * * *
109916 AAGGTAAAAGA-TCG--GATG-CTTCAATCTGTCTCATGATC
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
** * *
109954 AAGGTAAGAGATTGG-TG-TGTCTCCAATCTGCCCTC-TGATT
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCC-CATGATC
* * * * *
109994 AGGGTAAAAGA-T-CA-GATG-CTTCAATTTGCCCCATGGTC
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
* * * *
110032 GGGGTAAGAGATTAGATGATATCTTCAATTTGTCCCATGATC
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
*
110074 GGGGTAAGAGATTGGATG--G-CTTCAATCTGCCCTATGATC
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
* * ** *
110113 GGGGTAAAAGAATGGATGATGTCTTCAATCTGCCTTATGATG
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
* * *
110155 GGGGCTAAGAGATT--A-GATGACTTCAATTTGCCTCATGATC
1 GGGG-TAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
*
110195 GGGGTAAGAGATTGGATGA---CTTCAATCTGCCCCATGGTC
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
* ** *
110234 GGGGTAAGAGATTGG-TG-TGTCTTCAATTTGCCCTTTGATT
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
* * * * * *
110274 AGGGTAAAAGA-TCG--GAT-CCTTCAATCTGTCTCATGATC
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
* * *
110312 GGGGTAAGAGATTGG-TG-TGTCTTCAATTTGCCCTC-TAATT
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCC-CATGATC
* * * *
110352 AGGGTAAAAGA-TCG--GATG-CTTCAATCTGCCCCATGGTC
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
* *
110390 GGGGTAAGAGATTGAATGATGTCTTCAATCTGCTCCATGATC
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
* * *
110432 GGGGTAAGAGATT---TGATGGCTTCAATTTGCCCCATGATT
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
* *
110471 GGGGTAAGAGATTAGATG--GT-TTCAATCTGCCCCAT-ATT
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
* * *
110509 GAGGTAAAAGATTGGATGATGTCTTCAATTTGCCCCATGATC
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
* * *
110551 GGGGTAAGAGATTGGATG--G-CTACAATCTGCCTCATAATC
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
*
110590 GGGGTAAGAGATTGGATGA---CTTCAATCTGCCCCATGATT
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
* * * *
110629 GGGGTAAAAGATTGGATGATGTCTTCAATTTACCTCATGATC
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
* *
110671 GGGGTAAGAGATTGGATGA---CTTCATTATGCCCCATGATC
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
110710 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
* * * *
110752 GTGGTAAGAGATTGGATG--G-CTTCAATCTACCCCATTATT
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
* * *
110791 GGGGTAAAAGATTGGATGATGTTTTCAGTCTGCCCCATGATC
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
* * *
110833 -AGGTAAGAGATTGGATGA---CTTCAATCTGCCCTATGATTG
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGA-TC
* *
110872 GGGGTAAGAGATT-G-T-ATGGCTTCAATCAGCCCCATGATC
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
* * * *
110911 AGGGTAAGAGA-TGG-TG-TGTCTTCAATTTTGCCTC-TGATT
1 GGGGTAAGAGATTGGATGATGTCTTCAA-TCTGCCCCATGATC
** * * * * *
110950 AAGGTAAAAGA-TCG--GATGT-TTCAATATGCCTCATGATT
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
* * *
110988 TGGGTAAAAGATTGG-TG-TGTCTTCAATCTGCCCTC-TGATT
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCC-CATGATC
* * * * * *
111028 AGGGTAAAAGA-TCG--GATG-CTTCAATCTGCCTCATGGTT
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
* * *
111066 GAGGTAAAAGATTGGATGATGTCTTCAATCTGCCCCACGATC
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
*
111108 GGGTTAAGAGATTGGATG--G-CTTCAATCTGCCCCATGATC
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
* * * *
111147 GGGGTAAAAGATTGGATTATGTCTTCAATCTACCCTAT-ATC
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
* *
111188 GGGGTAAGAGATTGGATGA---CTTCAATCTGTCCCATGATT
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
*
111227 GGGGTAAGAGATT--A-GATGGCTTCAATCTGCCCCATGATC
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
* *** *
111266 AGGGTAAGAGATTGGATGATGTCTTCAATCTGCCTTTTGATT
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
** * * * *
111308 AAGGTAAAAGATT--A-GAT-ACTTTAATTTGCCCCATGATC
1 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
111346 GGGGTAAGAGATTGGATGAT
1 GGGGTAAGAGATTGGATGAT
111366 ATTTTCGCTT
Statistics
Matches: 1199, Mismatches: 203, Indels: 174
0.76 0.13 0.11
Matches are distributed among these distances:
36 2 0.00
37 17 0.01
38 215 0.18
39 428 0.36
40 182 0.15
41 78 0.07
42 270 0.23
43 7 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (42 bp):
GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATC
Found at i:110547 original size:119 final size:120
Alignment explanation
Indices: 109930--111365 Score: 1112
Period size: 119 Copynumber: 12.0 Consensus size: 120
109920 TAAAAGATCG
* * ** *
109930 GATG-CTTCAATCTGTCTCATGATCAAGGTAAGAGATTGGTG-TGTCTCCAATCTGCCCTC-TGA
1 GATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATT--TGATGTCTTCAATCTGCCC-CATGA
* * ** * * * * *
109992 TTAGGGTAAAAGATCAGAT-GCTTCAATTTGCCCCATGGTCGGGGTAAGAGATTAGAT
63 TTGGGGTAAGAGATTGGATGGTTTCAATCTGCCCCATGATTGGGGTAAGAGATTGGAT
* * * * * * *
110049 GATATCTTCAATTTGTCCCATGATCGGGGTAAGAGATTGGATGGCTTCAATCTGCCCTATGATCG
1 GATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTTGATGTCTTCAATCTGCCCCATGATTG
* * ** *
110114 GGGTAAAAGAATGGATGATGTCTTCAATCTGCCTTATGATGGGGGCTAAGAGATT--A-
66 GGGTAAGAGATTGGATG--GT-TTCAATCTGCCCCATGATTGGGG-TAAGAGATTGGAT
* * * * * * *
110170 GATGACTTCAATTTGCCTCATGATCGGGGTAAGAGATTGGATGACTTCAATCTGCCCCATGGTCG
1 GATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTTGATGTCTTCAATCTGCCCCATGATTG
* ** * * *
110235 GGGTAAGAGATTGG-TGTGTCTTCAATTTGCCCTTTGATTAGGGTAAAAGA-TCG--
66 GGGTAAGAGATTGGATG-GT-TTCAATCTGCCCCATGATTGGGGTAAGAGATTGGAT
* * * * *
110288 GAT-CCTTCAATCTGTCTCATGATCGGGGTAAGAGATTGGTG-TGTCTTCAATTTGCCCTC-TAA
1 GATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATT--TGATGTCTTCAATCTGCCC-CATGA
* * * * * * *
110350 TTAGGGTAAAAGATCGGAT-GCTTCAATCTGCCCCATGGTCGGGGTAAGAGATTGAAT
63 TTGGGGTAAGAGATTGGATGGTTTCAATCTGCCCCATGATTGGGGTAAGAGATTGGAT
* * *
110407 GATGTCTTCAATCTGCTCCATGATCGGGGTAAGAGATTTGATGGCTTCAATTTGCCCCATGATTG
1 GATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTTGATGTCTTCAATCTGCCCCATGATTG
* * *
110472 GGGTAAGAGATTAGATGGTTTCAATCTGCCCCAT-ATTGAGGTAAAAGATTGGAT
66 GGGTAAGAGATTGGATGGTTTCAATCTGCCCCATGATTGGGGTAAGAGATTGGAT
* * * * * * *
110526 GATGTCTTCAATTTGCCCCATGATCGGGGTAAGAGATTGGATGGCTACAATCTGCCTCATAATCG
1 GATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTTGATGTCTTCAATCTGCCCCATGATTG
** *
110591 GGGTAAGAGATTGGATGACTTCAATCTGCCCCATGATTGGGGTAAAAGATTGGAT
66 GGGTAAGAGATTGGATGGTTTCAATCTGCCCCATGATTGGGGTAAGAGATTGGAT
* * * * * * * *
110646 GATGTCTTCAATTTACCTCATGATCGGGGTAAGAGATTGGATGACTTCATTATGCCCCATGATCG
1 GATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTTGATGTCTTCAATCTGCCCCATGATTG
* *
110711 GGGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGTGGTAAGAGATTGGAT
66 GGGTAAGAGATTGGATG--GT-TTCAATCTGCCCCATGATTGGGGTAAGAGATTGGAT
* * * * * *
110769 G--G-CTTCAATCTACCCCATTATTGGGGTAAAAGATTGGATGATGTTTTCAGTCTGCCCCATGA
1 GATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATT---TGATGTCTTCAATCTGCCCCATGA
** ** *
110831 -TCAGGTAAGAGATTGGATGACTTCAATCTGCCCTATGATTGGGGGTAAGAGATT-G-T
63 TTGGGGTAAGAGATTGGATGGTTTCAATCTGCCCCATGATT-GGGGTAAGAGATTGGAT
* * * * * *
110887 -ATGGCTTCAATCAGCCCCATGATCAGGGTAAGAGATGGTG-TGTCTTCAATTTTGCCTC-TGAT
1 GATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGAT-TTGATGTCTTCAA-TCTGCCCCATGAT
** * * * * * *
110949 TAAGGTAAAAGATCGGAT-GTTTCAATATGCCTCATGATTTGGGTAAAAGATTGG-T
64 TGGGGTAAGAGATTGGATGGTTTCAATCTGCCCCATGATTGGGGTAAGAGATTGGAT
** * ** * *
111004 G-TGTCTTCAATCTGCCCTC-TGATTAGGGTAAAAGATCGGATG-CTTCAATCTGCCTCATGGTT
1 GATGTCTTCAATCTGCCC-CATGATCGGGGTAAGAGATTTGATGTCTTCAATCTGCCCCATGATT
* * * * *
111066 GAGGTAAAAGATTGGATGATGTCTTCAATCTGCCCCACGATCGGGTTAAGAGATTGGAT
65 GGGGTAAGAGATTGGATG--GT-TTCAATCTGCCCCATGATTGGGGTAAGAGATTGGAT
* * * *
111125 G--G-CTTCAATCTGCCCCATGATCGGGGTAAAAGATTGGATTATGTCTTCAATCTACCCTAT-A
1 GATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATT---TGATGTCTTCAATCTGCCCCATGA
* ** *
111186 TCGGGGTAAGAGATTGGATGACTTCAATCTGTCCCATGATTGGGGTAAGAGATT--A-
63 TTGGGGTAAGAGATTGGATGGTTTCAATCTGCCCCATGATTGGGGTAAGAGATTGGAT
* * ***
111241 GATGGCTTCAATCTGCCCCATGATCAGGGTAAGAGATTGGATGATGTCTTCAATCTGCCTTTTGA
1 GATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATT---TGATGTCTTCAATCTGCCCCATGA
** * * ** * *
111306 TTAAGGTAAAAGATTAGATACTTT-AATTTGCCCCATGATCGGGGTAAGAGATTGGAT
63 TTGGGGTAAGAGATTGGATGGTTTCAATCTGCCCCATGATTGGGGTAAGAGATTGGAT
111363 GAT
1 GAT
111366 ATTTTCGCTT
Statistics
Matches: 1071, Mismatches: 189, Indels: 111
0.78 0.14 0.08
Matches are distributed among these distances:
115 7 0.01
116 61 0.06
117 94 0.09
118 68 0.06
119 352 0.33
120 281 0.26
121 74 0.07
122 41 0.04
123 84 0.08
124 9 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (120 bp):
GATGTCTTCAATCTGCCCCATGATCGGGGTAAGAGATTTGATGTCTTCAATCTGCCCCATGATTG
GGGTAAGAGATTGGATGGTTTCAATCTGCCCCATGATTGGGGTAAGAGATTGGAT
Found at i:111517 original size:49 final size:49
Alignment explanation
Indices: 111462--111638 Score: 176
Period size: 49 Copynumber: 3.6 Consensus size: 49
111452 AGATTCGCCA
* * * *
111462 TTGCGGCCTCAATCTTTCCCTTCATATCTCTAAGGTATAAGGTTCATTG
1 TTGCGGCTTCAACCTTTCCCTTCATATCTCTAAGGTATAAGGTTCGTCG
* * * * *
111511 TTGCGGCTTTAACCTTTCCCTTCATATCTCCATGGTACAAGATTCGTCG
1 TTGCGGCTTCAACCTTTCCCTTCATATCTCTAAGGTATAAGGTTCGTCG
* ** ** * *
111560 TTGCGGCTTCAATCTTTCCCAACACATAT-TCTAAGGTATCGGGTTCGCCA
1 TTGCGGCTTCAACCTTTCCC--TTCATATCTCTAAGGTATAAGGTTCGTCG
*
111610 TTGCGGCATCAACCTTTCCCTTCATATCT
1 TTGCGGCTTCAACCTTTCCCTTCATATCT
111639 TCATGATACC
Statistics
Matches: 100, Mismatches: 25, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
48 5 0.05
49 59 0.59
50 31 0.31
51 5 0.05
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.36
Consensus pattern (49 bp):
TTGCGGCTTCAACCTTTCCCTTCATATCTCTAAGGTATAAGGTTCGTCG
Found at i:111777 original size:49 final size:49
Alignment explanation
Indices: 111610--111777 Score: 135
Period size: 49 Copynumber: 3.4 Consensus size: 49
111600 GGGTTCGCCA
* *
111610 TTGCGGCATCAA-CCTTTCCCTTCATATCTTCATGATACCAGATTTACCG
1 TTGCGGCCTCAATCC-TTCCCTTCATATCTTCATGATACCAGATTTACTG
* * * * * * * *
111659 TTACGGCCTCAATCCTTCCCATCACATCTTCTAAGGTACGAGGTTTGCTG
1 TTGCGGCCTCAATCCTTCCCTTCATATCTTC-ATGATACCAGATTTACTG
** * * **
111709 TTGCATCCTTAGCAT--TTCCCTTTATATCTTCATGATACCAGATTTTTTG
1 TTGCGGCCTCA--ATCCTTCCCTTCATATCTTCATGATACCAGATTTACTG
111758 TTGCGGCCTCAATCCTTCCC
1 TTGCGGCCTCAATCCTTCCC
111778 ATAACATCTT
Statistics
Matches: 87, Mismatches: 26, Indels: 12
0.70 0.21 0.10
Matches are distributed among these distances:
47 2 0.02
49 49 0.56
50 34 0.39
52 2 0.02
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.37
Consensus pattern (49 bp):
TTGCGGCCTCAATCCTTCCCTTCATATCTTCATGATACCAGATTTACTG
Found at i:111830 original size:99 final size:98
Alignment explanation
Indices: 111462--111829 Score: 357
Period size: 99 Copynumber: 3.7 Consensus size: 98
111452 AGATTCGCCA
* * * * * *
111462 TTGCGGCCTCAATCTTTCCCTTCATATC-TCTAAGGTATAAGGTT-CATTGTTGCGGCTTTAACC
1 TTGCGGCCTCAATCCTTCCCATAACATCTTCTAAGGTACAAGGTTGC--CGTTGCGGCTTTAACC
* * * **
111525 TTTCCCTTCATATCTCCATGGTACAAGATTCGTCG
64 TTTCCCTTCATATCTTCATGATACCAGATTTATCG
* * * * * * *
111560 TTGCGGCTTCAATCTTTCCCA-ACACATATTCTAAGGTATC-GGGTTCGCCATTGCGGCATCAAC
1 TTGCGGCCTCAATCCTTCCCATA-ACATCTTCTAAGGTA-CAAGGTT-GCCGTTGCGGCTTTAAC
*
111623 CTTTCCCTTCATATCTTCATGATACCAGATTTACCG
63 CTTTCCCTTCATATCTTCATGATACCAGATTTATCG
* * * * ** * * *
111659 TTACGGCCTCAATCCTTCCCATCACATCTTCTAAGGTACGAGGTTTGCTGTTGCATCCTTAGCAT
1 TTGCGGCCTCAATCCTTCCCATAACATCTTCTAAGGTACAAGG-TTGCCGTTGCGGCTTTAACCT
* * *
111724 TTCCCTTTATATCTTCATGATACCAGATTTTTTG
65 TTCCCTTCATATCTTCATGATACCAGATTTATCG
*
111758 TTGCGGCCTCAATCCTTCCCATAACATCTTCTAAGGTACAAGGCTTGCCGTTGTGGCTTTAACCT
1 TTGCGGCCTCAATCCTTCCCATAACATCTTCTAAGGTACAAGG-TTGCCGTTGCGGCTTTAACCT
111823 TTCCCTT
65 TTCCCTT
111830 TGTATTTTTA
Statistics
Matches: 216, Mismatches: 46, Indels: 15
0.78 0.17 0.05
Matches are distributed among these distances:
98 23 0.11
99 190 0.88
100 2 0.01
101 1 0.00
ACGTcount: A:0.20, C:0.28, G:0.15, T:0.36
Consensus pattern (98 bp):
TTGCGGCCTCAATCCTTCCCATAACATCTTCTAAGGTACAAGGTTGCCGTTGCGGCTTTAACCTT
TCCCTTCATATCTTCATGATACCAGATTTATCG
Found at i:111850 original size:99 final size:99
Alignment explanation
Indices: 111452--111875 Score: 306
Period size: 99 Copynumber: 4.3 Consensus size: 99
111442 TCGAGGTAAA
* * * * * * *
111452 AGATTCGCCATTGCGGCCTCAATCTTTCCCTTCATATC-TCTAAGGTATAAGG-TT-CATTGTTG
1 AGATTCGCCGTTGCGGCCTCAATCCTTCCCATAACATCTTCTAAGGTACAAGGCTTGC--CGTTG
* * * * * *
111514 CGGCTTTAACCTTTCCCTTCATATCTCCATGG-TACA
64 CAGCCTTAACATTTCCCTTTATATCTTCA-GGATACC
* * * * * *
111550 AGATTCGTCGTTGCGGCTTCAATCTTTCCCA-ACACATATTCTAAGGTATC--GGGTTCGCCATT
1 AGATTCGCCGTTGCGGCCTCAATCCTTCCCATA-ACATCTTCTAAGGTA-CAAGGCTT-GCCGTT
* * * * * *
111612 GCGGCATCAACCTTTCCCTTCATATCTTCATGATACC
63 GCAGCCTTAACATTTCCCTTTATATCTTCAGGATACC
** * * * * *
111649 AGATTTACCGTTACGGCCTCAATCCTTCCCATCACATCTTCTAAGGTACGAGGTTTGCTGTTGCA
1 AGATTCGCCGTTGCGGCCTCAATCCTTCCCATAACATCTTCTAAGGTACAAGGCTTGCCGTTGCA
* * *
111714 TCCTTAGCATTTCCCTTTATATCTTCATGATACC
66 GCCTTAACATTTCCCTTTATATCTTCAGGATACC
**** **
111748 AGATTTTTTGTTGCGGCCTCAATCCTTCCCATAACATCTTCTAAGGTACAAGGCTTGCCGTTGTG
1 AGATTCGCCGTTGCGGCCTCAATCCTTCCCATAACATCTTCTAAGGTACAAGGCTTGCCGTTGCA
* * * * * * *
111813 GCTTTAACCTTTCCCTTTGTATTTTTAGGGTATC
66 GCCTTAACATTTCCCTTTATATCTTCAGGATACC
111847 AGATTCGCCGTTGCGGCCTCAAT-CTTCCC
1 AGATTCGCCGTTGCGGCCTCAATCCTTCCC
111876 TGTCTAACCT
Statistics
Matches: 259, Mismatches: 57, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
98 40 0.15
99 214 0.83
100 4 0.02
101 1 0.00
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.36
Consensus pattern (99 bp):
AGATTCGCCGTTGCGGCCTCAATCCTTCCCATAACATCTTCTAAGGTACAAGGCTTGCCGTTGCA
GCCTTAACATTTCCCTTTATATCTTCAGGATACC
Found at i:111866 original size:198 final size:197
Alignment explanation
Indices: 111452--111875 Score: 433
Period size: 198 Copynumber: 2.2 Consensus size: 197
111442 TCGAGGTAAA
* * * * * * *
111452 AGATTCGCCATTGCGGCCTCAATCTTTCCCTTCATATCTCTAAGGTATAAGGTTCATTGTTGCGG
1 AGATTCGCCGTTGCGGCCTCAATCCTTCCCATCACATCTCTAAGGTACAAGGTTCACTGTTGCAG
* * * * *
111517 CTTTAACCTTTCCCTTCATATCTCCATGGTACAAGATTCGTCGTTGCGGCTTCAATCTTTCCCAA
66 CCTTAACATTTCCCTTCATATCTCCATGATACAAGATTCGTCGTTGCGGCCTCAATCCTTCCCAA
* *
111582 CACATATTCTAAGGTATCGGGTTCGCCATTGCGGCATCAACCTTTCCCTTCATATCTTCATGATA
131 CACATATTCTAAGGTATCGGCTTCGCCATTGCGGCATCAACCTTTCCCTTCATATCTTCAGGATA
111647 CC
196 CC
** * * **
111649 AGATTTACCGTTACGGCCTCAATCCTTCCCATCACATCTTCTAAGGTACGAGGTTTGCTGTTGCA
1 AGATTCGCCGTTGCGGCCTCAATCCTTCCCATCACATC-TCTAAGGTACAAGGTTCACTGTTGCA
* * * * * ** *
111714 TCCTTAGCATTTCCCTTTATATCTTCATGATACCAGATTTTTTGTTGCGGCCTCAATCCTTCCCA
65 GCCTTAACATTTCCCTTCATATCTCCATGATACAAGATTCGTCGTTGCGGCCTCAATCCTTCCCA
* * * * * ** * *
111779 TA-ACATCTTCTAAGGTA-CAAGGCTT-GCCGTTGTGGCTTTAACCTTTCCCTTTGTATTTTTAG
130 -ACACATATTCTAAGGTATC--GGCTTCGCCATTGCGGCATCAACCTTTCCCTTCATATCTTCAG
* *
111841 GGTATC
192 GATACC
111847 AGATTCGCCGTTGCGGCCTCAAT-CTTCCC
1 AGATTCGCCGTTGCGGCCTCAATCCTTCCC
111876 TGTCTAACCT
Statistics
Matches: 181, Mismatches: 42, Indels: 8
0.78 0.18 0.03
Matches are distributed among these distances:
197 38 0.21
198 138 0.76
199 5 0.03
ACGTcount: A:0.20, C:0.28, G:0.16, T:0.36
Consensus pattern (197 bp):
AGATTCGCCGTTGCGGCCTCAATCCTTCCCATCACATCTCTAAGGTACAAGGTTCACTGTTGCAG
CCTTAACATTTCCCTTCATATCTCCATGATACAAGATTCGTCGTTGCGGCCTCAATCCTTCCCAA
CACATATTCTAAGGTATCGGCTTCGCCATTGCGGCATCAACCTTTCCCTTCATATCTTCAGGATA
CC
Found at i:112443 original size:112 final size:112
Alignment explanation
Indices: 112302--112714 Score: 616
Period size: 112 Copynumber: 3.7 Consensus size: 112
112292 AATTGCAAAG
* ** *
112302 AAAATGCTTGAATCAAGGTTGTAAGGTGGATGAAATTGAGTTTTATTGGAAACAAAGCTCGTATG
1 AAAATGCTTGAA-CAAGGTTGTAAGGTGGATGAAATTGAATTTTATTGGAGGCAAAACTCGTATG
*
112367 AATGAAAAGATTACGAATCATTGGTCCACTAATCGTTATTTCGATACA
65 AATGAAAAGATTACGAATCATTGGTCCACTAATCGTTATTTTGATACA
112415 AAAATGCTTGAACAAGGTTGTAAGGTGGAT-AAATTTGAATTTTATTGGAGGCAAAACTCGTATG
1 AAAATGCTTGAACAAGGTTGTAAGGTGGATGAAA-TTGAATTTTATTGGAGGCAAAACTCGTATG
* ** *
112479 AATGAAAATATTAAAAATCATTGGTCCACTAATTGTTATTTTGA-AGCA
65 AATGAAAAGATTACGAATCATTGGTCCACTAATCGTTATTTTGATA-CA
* *
112527 AAAA-GCTTGAACAAGGTTGTAAGGTGGATAAAATTGAATTTTATTGGAGGCAAAGCTCGTATGA
1 AAAATGCTTGAACAAGGTTGTAAGGTGGATGAAATTGAATTTTATTGGAGGCAAAACTCGTATGA
* * **
112591 ATGAAAAGATTACGAATCATTGGTCCACTAACCATTATTTTGATGGA
66 ATGAAAAGATTACGAATCATTGGTCCACTAATCGTTATTTTGATACA
* * *
112638 AAAATGTTTGAATAAGGTTGTAAGGTGGATGAAATTGAATTTTATTGGAGGCAAAACTCGTACGA
1 AAAATGCTTGAACAAGGTTGTAAGGTGGATGAAATTGAATTTTATTGGAGGCAAAACTCGTATGA
112703 ATGAAAAGATTA
66 ATGAAAAGATTA
112715 AAAATGACAA
Statistics
Matches: 272, Mismatches: 23, Indels: 11
0.89 0.08 0.04
Matches are distributed among these distances:
111 101 0.37
112 159 0.58
113 12 0.04
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (112 bp):
AAAATGCTTGAACAAGGTTGTAAGGTGGATGAAATTGAATTTTATTGGAGGCAAAACTCGTATGA
ATGAAAAGATTACGAATCATTGGTCCACTAATCGTTATTTTGATACA
Found at i:112583 original size:223 final size:224
Alignment explanation
Indices: 112302--112719 Score: 687
Period size: 223 Copynumber: 1.9 Consensus size: 224
112292 AATTGCAAAG
* * *
112302 AAAATGCTTGAATCAAGGTTGTAAGGTGGATGAAATTGAGTTTTATTGGAAACAAAGCTCGTATG
1 AAAAAGCTTGAATCAAGGTTGTAAGGTGGATAAAATTGAATTTTATTGGAAACAAAGCTCGTATG
* *
112367 AATGAAAAGATTACGAATCATTGGTCCACTAATCGTTATTTCGATACAAAAATGCTTGAACAAGG
66 AATGAAAAGATTACGAATCATTGGTCCACTAACCATTATTTCGATACAAAAATGCTTGAACAAGG
* *
112432 TTGTAAGGTGGAT-AAATTTGAATTTTATTGGAGGCAAAACTCGTATGAATGAAAATATTAAAAA
131 TTGTAAGGTGGATGAAA-TTGAATTTTATTGGAGGCAAAACTCGTACGAATGAAAAGATTAAAAA
112496 TCATTGGTCCACTAATTGTTATTTTGAAGC
195 TCATTGGTCCACTAATTGTTATTTTGAAGC
**
112526 AAAAAGCTTGAA-CAAGGTTGTAAGGTGGATAAAATTGAATTTTATTGGAGGCAAAGCTCGTATG
1 AAAAAGCTTGAATCAAGGTTGTAAGGTGGATAAAATTGAATTTTATTGGAAACAAAGCTCGTATG
* ** * *
112590 AATGAAAAGATTACGAATCATTGGTCCACTAACCATTATTTTGATGGAAAAATGTTTGAATAAGG
66 AATGAAAAGATTACGAATCATTGGTCCACTAACCATTATTTCGATACAAAAATGCTTGAACAAGG
112655 TTGTAAGGTGGATGAAATTGAATTTTATTGGAGGCAAAACTCGTACGAATGAAAAGATTAAAAAT
131 TTGTAAGGTGGATGAAATTGAATTTTATTGGAGGCAAAACTCGTACGAATGAAAAGATTAAAAAT
112720 GACAAACATT
Statistics
Matches: 179, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
223 165 0.92
224 14 0.08
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (224 bp):
AAAAAGCTTGAATCAAGGTTGTAAGGTGGATAAAATTGAATTTTATTGGAAACAAAGCTCGTATG
AATGAAAAGATTACGAATCATTGGTCCACTAACCATTATTTCGATACAAAAATGCTTGAACAAGG
TTGTAAGGTGGATGAAATTGAATTTTATTGGAGGCAAAACTCGTACGAATGAAAAGATTAAAAAT
CATTGGTCCACTAATTGTTATTTTGAAGC
Found at i:114008 original size:11 final size:11
Alignment explanation
Indices: 113961--114015 Score: 74
Period size: 11 Copynumber: 5.0 Consensus size: 11
113951 TTCATCTTGA
*
113961 CTTTTTTTCTT
1 CTTTTTTTTTT
*
113972 CCTTTTTTTTT
1 CTTTTTTTTTT
* *
113983 CTTCTTCTTTT
1 CTTTTTTTTTT
113994 CTTTTTTTTTT
1 CTTTTTTTTTT
114005 CTTTTTTTTTT
1 CTTTTTTTTTT
114016 AAAAAATGTC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 37 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
CTTTTTTTTTT
Found at i:114066 original size:14 final size:14
Alignment explanation
Indices: 114035--114080 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
114025 CCTTTACATG
*
114035 TTTTCATCTTGATT-
1 TTTTCTTCTT-ATTC
114049 TTTTCTTTCTT-TTC
1 TTTTC-TTCTTATTC
114063 TTTTCTTCTTATTC
1 TTTTCTTCTTATTC
114077 TTTT
1 TTTT
114081 TTTTTATCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
13 7 0.25
14 17 0.61
15 4 0.14
ACGTcount: A:0.07, C:0.17, G:0.02, T:0.74
Consensus pattern (14 bp):
TTTTCTTCTTATTC
Found at i:118247 original size:30 final size:30
Alignment explanation
Indices: 118213--118338 Score: 114
Period size: 30 Copynumber: 4.2 Consensus size: 30
118203 AAAAATGAAA
* *
118213 TTTTGGAAAGTTTGGATGTCAAAT-TCAAAT
1 TTTTGGAAAGTTTAGAGGTCAAATCT-AAAT
* *
118243 TTTTGGGAAGTTTAGAGGACAAATCTAAAT
1 TTTTGGAAAGTTTAGAGGTCAAATCTAAAT
* *
118273 TTTTGAAAAG-TTCGAGGGTCAAATCTAAAT
1 TTTTGGAAAGTTTAGA-GGTCAAATCTAAAT
* * * *
118303 TTTTGGGAAGTTCA-AGGGTCAAATCCAAAA
1 TTTTGGAAAGTTTAGA-GGTCAAATCTAAAT
118333 TTTTGG
1 TTTTGG
118339 CTTCGTGGAA
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
29 4 0.05
30 73 0.92
31 2 0.03
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.35
Consensus pattern (30 bp):
TTTTGGAAAGTTTAGAGGTCAAATCTAAAT
Found at i:118582 original size:24 final size:24
Alignment explanation
Indices: 118554--118605 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
118544 CAATTATGAG
*
118554 CCCAAAA-TGACGTTGTTTTGGGAA
1 CCCAAAACT-ACGTCGTTTTGGGAA
*
118578 CCCAAAACTACGTCGTTTTGGGAT
1 CCCAAAACTACGTCGTTTTGGGAA
118602 CCCA
1 CCCA
118606 TATAAACCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (24 bp):
CCCAAAACTACGTCGTTTTGGGAA
Found at i:119881 original size:17 final size:18
Alignment explanation
Indices: 119859--119898 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
119849 TATAATAACA
* *
119859 TAATATTTTATATGAA-T
1 TAATATATTATATAAACT
119876 TAATATATTATATAAACT
1 TAATATATTATATAAACT
119894 TAATA
1 TAATA
119899 ATAACAGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (18 bp):
TAATATATTATATAAACT
Found at i:119984 original size:23 final size:23
Alignment explanation
Indices: 119958--120005 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
119948 ATAAATACTC
119958 ATAT-TTATATTATTAAAATATTT
1 ATATCTTATATTA-TAAAATATTT
*
119981 ATATCTTATTTTATAAAATATTT
1 ATATCTTATATTATAAAATATTT
120004 AT
1 AT
120006 TAATTTCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (23 bp):
ATATCTTATATTATAAAATATTT
Found at i:120079 original size:20 final size:21
Alignment explanation
Indices: 120049--120088 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
120039 TATTTCCAAT
120049 AAAATTTTAAAAATATTATTC
1 AAAATTTTAAAAATATTATTC
*
120070 AAAA-TTTAAAATTATTATT
1 AAAATTTTAAAAATATTATT
120089 AATGTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (21 bp):
AAAATTTTAAAAATATTATTC
Found at i:120085 original size:17 final size:19
Alignment explanation
Indices: 120063--120109 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
120053 TTTTAAAAAT
120063 ATTATTCA-AAAT-TTAAA
1 ATTATTCATAAATGTTAAA
*
120080 ATTATT-ATTAATGTTAAA
1 ATTATTCATAAATGTTAAA
*
120098 ATTATTCTTAAA
1 ATTATTCATAAA
120110 ATAAAATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 1 0.04
17 9 0.38
18 11 0.46
19 3 0.12
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (19 bp):
ATTATTCATAAATGTTAAA
Found at i:120185 original size:16 final size:15
Alignment explanation
Indices: 120166--120207 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
120156 AATATATATG
120166 TTTAATAATATTAAAT
1 TTTAATAA-ATTAAAT
*
120182 TTT-ATAAATTAATT
1 TTTAATAAATTAAAT
120196 TTTATATAAATT
1 TTTA-ATAAATT
120208 TTTTTAAAGC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 9 0.39
15 4 0.17
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTAATAAATTAAAT
Found at i:125639 original size:54 final size:54
Alignment explanation
Indices: 125575--125684 Score: 184
Period size: 54 Copynumber: 2.0 Consensus size: 54
125565 TAATCCTTGT
*
125575 TTAGAAAGCACTTTCAATACTAACCCGTTACTTCTCTATCCCTATTATTCGTAA
1 TTAGAAAGCACTTTCAATACTAACCCGTTACTTCTCTATCCCTATTATTCATAA
* * *
125629 TTAGAAAGCACTTTCAATACTAACCCGTTACTTTTCTATCCTTATTGTTCATAA
1 TTAGAAAGCACTTTCAATACTAACCCGTTACTTCTCTATCCCTATTATTCATAA
125683 TT
1 TT
125685 TCCAACCAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (54 bp):
TTAGAAAGCACTTTCAATACTAACCCGTTACTTCTCTATCCCTATTATTCATAA
Found at i:126056 original size:28 final size:28
Alignment explanation
Indices: 126025--126090 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
126015 TCATATTTTC
*
126025 GCCACAAAGGCCATTCATTCTAGAGTTT
1 GCCACAAAGACCATTCATTCTAGAGTTT
*
126053 GCCACAAAGACCATTCGTTCTAGAGTTT
1 GCCACAAAGACCATTCATTCTAGAGTTT
126081 GCCACAAAGA
1 GCCACAAAGA
126091 ATACTCTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (28 bp):
GCCACAAAGACCATTCATTCTAGAGTTT
Found at i:126104 original size:28 final size:28
Alignment explanation
Indices: 126042--126096 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
126032 AGGCCATTCA
* *
126042 TTCTAGAGTTTGCCACAAAGACCATTCG
1 TTCTAGAGTTTGCCACAAAGAACACTCG
*
126070 TTCTAGAGTTTGCCACAAAGAATACTC
1 TTCTAGAGTTTGCCACAAAGAACACTC
126097 TTTTTAGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (28 bp):
TTCTAGAGTTTGCCACAAAGAACACTCG
Found at i:131311 original size:24 final size:26
Alignment explanation
Indices: 131284--131331 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
131274 AGAGAAATGT
131284 AAATG-TGATATATGA-A-ATTATGAG
1 AAATGATGA-ATATGAGAGATTATGAG
131308 AAATGATGAATATGAGAGATTATG
1 AAATGATGAATATGAGAGATTATG
131332 CCCATGTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.52
25 4 0.19
26 6 0.29
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (26 bp):
AAATGATGAATATGAGAGATTATGAG
Found at i:131469 original size:22 final size:22
Alignment explanation
Indices: 131394--131495 Score: 114
Period size: 22 Copynumber: 4.4 Consensus size: 22
131384 ATGCTAGCGC
*
131394 GCTTACTGTTCAGCATTGTGTGT
1 GCTT-CTGTTCAGCACTGTGTGT
*
131417 GCTTCTATTCAGCACTGTGTGT
1 GCTTCTGTTCAGCACTGTGTGT
*
131439 GCTTCTGTTCAGCACTATGTGT
1 GCTTCTGTTCAGCACTGTGTGT
* *
131461 GTTTTTGTTTCCCCAGCACTGTGTGT
1 GCTTCTG-TT---CAGCACTGTGTGT
131487 GCTTCTGTT
1 GCTTCTGTT
131496 TCCCCAGCAG
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
22 41 0.62
23 6 0.09
25 2 0.03
26 17 0.26
ACGTcount: A:0.11, C:0.22, G:0.24, T:0.44
Consensus pattern (22 bp):
GCTTCTGTTCAGCACTGTGTGT
Found at i:131477 original size:26 final size:26
Alignment explanation
Indices: 131426--131504 Score: 94
Period size: 26 Copynumber: 3.2 Consensus size: 26
131416 TGCTTCTATT
*
131426 CAGCACTGTGTGTGCTTCTG-TT---
1 CAGCACTATGTGTGCTTCTGTTTCCC
* *
131448 CAGCACTATGTGTGTTTTTGTTTCCC
1 CAGCACTATGTGTGCTTCTGTTTCCC
*
131474 CAGCACTGTGTGTGCTTCTGTTTCCC
1 CAGCACTATGTGTGCTTCTGTTTCCC
131500 CAGCA
1 CAGCA
131505 GTTATGTACT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
22 17 0.36
23 2 0.04
26 28 0.60
ACGTcount: A:0.11, C:0.27, G:0.23, T:0.39
Consensus pattern (26 bp):
CAGCACTATGTGTGCTTCTGTTTCCC
Found at i:136835 original size:23 final size:23
Alignment explanation
Indices: 136809--136921 Score: 102
Period size: 23 Copynumber: 4.9 Consensus size: 23
136799 ATTTATACAC
136809 CTCAATTTACAATAATTAAACAT
1 CTCAATTTACAATAATTAAACAT
*
136832 CTCAATTTTCAATAATTAAACA-
1 CTCAATTTACAATAATTAAACAT
* * * *
136854 CTTCAATTTGCAACATTTAAACAC
1 C-TCAATTTACAATAATTAAACAT
* * * * *
136878 CTTAATATGCAACAGTTAAACAT
1 CTCAATTTACAATAATTAAACAT
* *
136901 CTCAATTTACAGTATTTAAAC
1 CTCAATTTACAATAATTAAAC
136922 GCTTTATTTA
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
22 1 0.01
23 72 0.97
24 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.35
Consensus pattern (23 bp):
CTCAATTTACAATAATTAAACAT
Found at i:136918 original size:46 final size:45
Alignment explanation
Indices: 136809--136921 Score: 118
Period size: 46 Copynumber: 2.5 Consensus size: 45
136799 ATTTATACAC
* * * * *
136809 CTCAATTTACAATAATTAAACATCTCAATTTTCAATAATTAAACA
1 CTCAATTTACAATATTTAAACACCTCAATATGCAACAATTAAACA
* * * *
136854 CTTCAATTTGCAACATTTAAACACCTTAATATGCAACAGTTAAACA
1 C-TCAATTTACAATATTTAAACACCTCAATATGCAACAATTAAACA
*
136900 TCTCAATTTACAGTATTTAAAC
1 -CTCAATTTACAATATTTAAAC
136922 GCTTTATTTA
Statistics
Matches: 54, Mismatches: 12, Indels: 3
0.78 0.17 0.04
Matches are distributed among these distances:
45 1 0.02
46 52 0.96
47 1 0.02
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.35
Consensus pattern (45 bp):
CTCAATTTACAATATTTAAACACCTCAATATGCAACAATTAAACA
Found at i:143871 original size:3 final size:3
Alignment explanation
Indices: 143863--143899 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
143853 AAAAGGAGTA
143863 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
143900 GGAGGAGGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:145656 original size:25 final size:27
Alignment explanation
Indices: 145628--145683 Score: 73
Period size: 24 Copynumber: 2.2 Consensus size: 27
145618 AATAAGATTC
*
145628 AGAAATTTTTTT-ATACA-ACACTCAA
1 AGAAATTTTTTTGAGACATACACTCAA
*
145653 AG-AATTTTTTTGAGACATACATTCAA
1 AGAAATTTTTTTGAGACATACACTCAA
145679 AGAAA
1 AGAAA
145684 ATTTAAAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 9 0.35
25 6 0.23
26 9 0.35
27 2 0.08
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (27 bp):
AGAAATTTTTTTGAGACATACACTCAA
Found at i:145658 original size:24 final size:26
Alignment explanation
Indices: 145631--145682 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
145621 AAGATTCAGA
*
145631 AATTTTTTT-ATACA-ACACTCAAAG
1 AATTTTTTTGAGACATACACTCAAAG
*
145655 AATTTTTTTGAGACATACATTCAAAG
1 AATTTTTTTGAGACATACACTCAAAG
145681 AA
1 AA
145683 AATTTAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 9 0.38
25 4 0.17
26 11 0.46
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (26 bp):
AATTTTTTTGAGACATACACTCAAAG
Found at i:145678 original size:26 final size:26
Alignment explanation
Indices: 145605--145682 Score: 74
Period size: 25 Copynumber: 3.1 Consensus size: 26
145595 TAATAGGGAG
* * *
145605 GAATTTTTTTGGGA-ATAAGATTCAGA
1 GAATTTTTTTGAGACAT-ACATTCAAA
* *
145631 -AATTTTTTT-ATACA-ACACTCAAA
1 GAATTTTTTTGAGACATACATTCAAA
145654 GAATTTTTTTGAGACATACATTCAAA
1 GAATTTTTTTGAGACATACATTCAAA
145680 GAA
1 GAA
145683 AATTTAAAGT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
23 6 0.15
24 10 0.24
25 14 0.34
26 11 0.27
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (26 bp):
GAATTTTTTTGAGACATACATTCAAA
Found at i:148168 original size:21 final size:21
Alignment explanation
Indices: 148144--148195 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
148134 ATCTGGATTA
* *
148144 CTTCTATCGATACCATTAAGG
1 CTTCTACCGATACCATCAAGG
148165 CTTCTACCGATACCATCAAGG
1 CTTCTACCGATACCATCAAGG
148186 CTTCTACCGA
1 CTTCTACCGA
148196 CACAACGGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.27, C:0.31, G:0.13, T:0.29
Consensus pattern (21 bp):
CTTCTACCGATACCATCAAGG
Found at i:149496 original size:24 final size:24
Alignment explanation
Indices: 149469--149639 Score: 216
Period size: 24 Copynumber: 7.1 Consensus size: 24
149459 GCAAGTTCAT
* * *
149469 TACGTTTATGCTCGCCAGCATAAA
1 TACGTTTACGCTCGTCAGCATGAA
*
149493 TACGTTTACGCTCGTCAGTATGAA
1 TACGTTTACGCTCGTCAGCATGAA
* *
149517 TACGGTTACGCTCGCCAGCATGAA
1 TACGTTTACGCTCGTCAGCATGAA
* * *
149541 TACATTTACACTCATCAGCATGAA
1 TACGTTTACGCTCGTCAGCATGAA
*
149565 TACGTTTACGCTCGTCAACATGAA
1 TACGTTTACGCTCGTCAGCATGAA
* *
149589 TACATTTACGCTCGTCAACATGAA
1 TACGTTTACGCTCGTCAGCATGAA
* *
149613 TACATTTACGCTCGTCAACATGAA
1 TACGTTTACGCTCGTCAGCATGAA
149637 TAC
1 TAC
149640 AAGAAACATT
Statistics
Matches: 130, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 130 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (24 bp):
TACGTTTACGCTCGTCAGCATGAA
Found at i:152021 original size:23 final size:23
Alignment explanation
Indices: 151993--152036 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
151983 AAACAAAATA
151993 GAACACCATCCAAGCAGATAATG
1 GAACACCATCCAAGCAGATAATG
* * *
152016 GAACACCGTCGAAGCGGATAA
1 GAACACCATCCAAGCAGATAA
152037 AAAGAGAGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.41, C:0.25, G:0.23, T:0.11
Consensus pattern (23 bp):
GAACACCATCCAAGCAGATAATG
Found at i:154724 original size:24 final size:24
Alignment explanation
Indices: 154692--154838 Score: 170
Period size: 24 Copynumber: 6.1 Consensus size: 24
154682 GCAAGTTCAT
* *
154692 TACGTTTACGTTCATCAGCATGAA
1 TACGTTTACGCTCGTCAGCATGAA
*
154716 TACGTTTACGCTTG-CTAGCATGAA
1 TACGTTTACGCTCGTC-AGCATGAA
*
154740 TACGTTTACGGTCGTCAGCATGAA
1 TACGTTTACGCTCGTCAGCATGAA
* * * *
154764 TATGTTTATGCTCGCCAGAATGAA
1 TACGTTTACGCTCGTCAGCATGAA
* *
154788 TATGTTTATGCTCGTCAGCATGAA
1 TACGTTTACGCTCGTCAGCATGAA
* *
154812 TATGTTTATGCTCGTCAGCATGAA
1 TACGTTTACGCTCGTCAGCATGAA
154836 TAC
1 TAC
154839 AAGAAACATT
Statistics
Matches: 108, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
23 1 0.01
24 106 0.98
25 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (24 bp):
TACGTTTACGCTCGTCAGCATGAA
Found at i:154763 original size:48 final size:48
Alignment explanation
Indices: 154692--154838 Score: 188
Period size: 48 Copynumber: 3.1 Consensus size: 48
154682 GCAAGTTCAT
* * * * *
154692 TACGTTTACGTTCATCAGCATGAATACGTTTACGCTTGCTAGCATGAA
1 TACGTTTACGCTCGTCAGCATGAATATGTTTATGCTCGCTAGCATGAA
* * *
154740 TACGTTTACGGTCGTCAGCATGAATATGTTTATGCTCGCCAGAATGAA
1 TACGTTTACGCTCGTCAGCATGAATATGTTTATGCTCGCTAGCATGAA
* *
154788 TATGTTTATGCTCGTCAGCATGAATATGTTTATGCTCG-TCAGCATGAA
1 TACGTTTACGCTCGTCAGCATGAATATGTTTATGCTCGCT-AGCATGAA
154836 TAC
1 TAC
154839 AAGAAACATT
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
48 85 1.00
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (48 bp):
TACGTTTACGCTCGTCAGCATGAATATGTTTATGCTCGCTAGCATGAA
Found at i:156013 original size:91 final size:91
Alignment explanation
Indices: 155904--156084 Score: 283
Period size: 91 Copynumber: 2.0 Consensus size: 91
155894 TCGGGCTAAC
* * *
155904 TAGATTAAGGTACTGGGATACCAAATATATAAAAATTACCAAAAAATAACTATTTTAAGCTTGCC
1 TAGATTAAGGTACTGGGATACCAAATATATAAAAATCACCAAAAAATAACTAATTTAAGCTTACC
155969 AATTTAAAACTTGAACCTAAAAACCT
66 AATTTAAAACTTGAACCTAAAAACCT
* * *
155995 TAGATTAAGGTA-TCGGGATTCCAAATATATAAAAATCACGAAAAAATGACTAATTTAAGCTTAC
1 TAGATTAAGGTACT-GGGATACCAAATATATAAAAATCACCAAAAAATAACTAATTTAAGCTTAC
*
156059 CAATTTGAAACTTGAACCTAAAAACC
65 CAATTTAAAACTTGAACCTAAAAACC
156085 CTAAGAAAGG
Statistics
Matches: 82, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
90 1 0.01
91 81 0.99
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (91 bp):
TAGATTAAGGTACTGGGATACCAAATATATAAAAATCACCAAAAAATAACTAATTTAAGCTTACC
AATTTAAAACTTGAACCTAAAAACCT
Found at i:158075 original size:3 final size:3
Alignment explanation
Indices: 158067--158091 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
158057 ACATTAATGC
158067 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
158092 TGGTCTTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:159291 original size:23 final size:23
Alignment explanation
Indices: 159265--159331 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
159255 TGGCAGTGAC
159265 ACTGTAAACACTGCGACATTACT
1 ACTGTAAACACTGCGACATTACT
*
159288 ACTG---A-ACTG-G-CAGTGAC-
1 ACTGTAAACACTGCGACA-TTACT
159305 ACTGTAAACACTGCGACATTACT
1 ACTGTAAACACTGCGACATTACT
159328 ACTG
1 ACTG
159332 AACTGGCAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 16
0.65 0.04 0.31
Matches are distributed among these distances:
17 6 0.18
18 4 0.12
19 4 0.12
20 2 0.06
21 4 0.12
22 4 0.12
23 10 0.29
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (23 bp):
ACTGTAAACACTGCGACATTACT
Found at i:159301 original size:40 final size:40
Alignment explanation
Indices: 159211--159475 Score: 300
Period size: 40 Copynumber: 6.6 Consensus size: 40
159201 GAAAGATTAT
* * * * **
159211 TGAATTGGCAGTAACACTGTAAATACTGCAATGCTA-TAC
1 TGAACTGGCAGTGACACTGTAAACACTGCGATATTACTAC
*
159250 TGAACTGGCAGTGACACTGTAAACACTGCGACATTACTAC
1 TGAACTGGCAGTGACACTGTAAACACTGCGATATTACTAC
*
159290 TGAACTGGCAGTGACACTGTAAACACTGCGACATTACTAC
1 TGAACTGGCAGTGACACTGTAAACACTGCGATATTACTAC
* * * *
159330 TGAACTGGCAGTAACACTGTAAACAGTACAATATTACTAC
1 TGAACTGGCAGTGACACTGTAAACACTGCGATATTACTAC
* * * * *
159370 TAAACTAGCAATGACACTGTAAACACTGCAATATTACTAT
1 TGAACTGGCAGTGACACTGTAAACACTGCGATATTACTAC
159410 TGAACTGGCAGTGACACTGTAAAAACACTGCG-TATTACTAC
1 TGAACTGGCAGTGACACTGT--AAACACTGCGATATTACTAC
* * ** *
159451 CGAACTAGTTGTGACAATGTAAACA
1 TGAACTGGCAGTGACACTGTAAACA
159476 TAGCTAAGCT
Statistics
Matches: 194, Mismatches: 29, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
39 34 0.18
40 128 0.66
41 23 0.12
42 9 0.05
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.25
Consensus pattern (40 bp):
TGAACTGGCAGTGACACTGTAAACACTGCGATATTACTAC
Found at i:159317 original size:21 final size:21
Alignment explanation
Indices: 159253--159317 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
159243 GCTATACTGA
159253 ACTGGCAGTGACACTGTAAAC
1 ACTGGCAGTGACACTGTAAAC
*
159274 ACTGCGACA-TTACTACTG---A-
1 ACTG-G-CAGTGAC-ACTGTAAAC
159293 ACTGGCAGTGACACTGTAAAC
1 ACTGGCAGTGACACTGTAAAC
159314 ACTG
1 ACTG
159318 CGACATTACT
Statistics
Matches: 34, Mismatches: 2, Indels: 16
0.65 0.04 0.31
Matches are distributed among these distances:
17 6 0.18
18 4 0.12
19 4 0.12
20 2 0.06
21 8 0.24
22 4 0.12
23 6 0.18
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.22
Consensus pattern (21 bp):
ACTGGCAGTGACACTGTAAAC
Found at i:159428 original size:120 final size:119
Alignment explanation
Indices: 159211--159456 Score: 332
Period size: 120 Copynumber: 2.1 Consensus size: 119
159201 GAAAGATTAT
* * * * * * *
159211 TGAATTGGCAGTAACACTGTAAATACTGCAATGCTATACTGAACTGGCAGTGACACTGTAAACAC
1 TGAACTGGCAGTAACACTGTAAACACTACAATACTATACTAAACTAGCAATGACACTGTAAACAC
*
159276 TGCGACATTACTACTGAACTGGCAGTGACACTGT-AAACACTGCGACATTACTAC
66 TGCAACATTACTACTGAACTGGCAGTGACACTGTAAAACACTGCG-CATTACTAC
* *
159330 TGAACTGGCAGTAACACTGTAAACAGTACAATATTACTACTAAACTAGCAATGACACTGTAAACA
1 TGAACTGGCAGTAACACTGTAAACACTACAATACTA-TACTAAACTAGCAATGACACTGTAAACA
* * *
159395 CTGCAATATTACTATTGAACTGGCAGTGACACTGTAAAAACACTGCGTATTACTAC
65 CTGCAACATTACTACTGAACTGGCAGTGACACTGT-AAAACACTGCGCATTACTAC
*
159451 CGAACT
1 TGAACT
159457 AGTTGTGACA
Statistics
Matches: 110, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
119 30 0.27
120 57 0.52
121 13 0.12
122 10 0.09
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.25
Consensus pattern (119 bp):
TGAACTGGCAGTAACACTGTAAACACTACAATACTATACTAAACTAGCAATGACACTGTAAACAC
TGCAACATTACTACTGAACTGGCAGTGACACTGTAAAACACTGCGCATTACTAC
Found at i:166263 original size:40 final size:40
Alignment explanation
Indices: 166157--166386 Score: 219
Period size: 40 Copynumber: 5.8 Consensus size: 40
166147 TACAATGCTA
*
166157 TACTGAACTGGCAATGACACTATAAACACTGCTG-CATTAC
1 TACTGAACTGGCAGTGACACTATAAACACTG-TGACATTAC
* ** * * * *
166197 TACTGATCTACCAGTGGCATTGTAAACACTGTGAAATTAC
1 TACTGAACTGGCAGTGACACTATAAACACTGTGACATTAC
* *
166237 TACTGAACTGGTAATGACACTATAAACACTGTGACATTAC
1 TACTGAACTGGCAGTGACACTATAAACACTGTGACATTAC
* * * * **
166277 TATTGAACTAGTAGTCACACTATAAACACTACGACATTAC
1 TACTGAACTGGCAGTGACACTATAAACACTGTGACATTAC
* * ** *
166317 TACTGAACTGACAGTGACACTGTAAACACTGCAATATTAC
1 TACTGAACTGGCAGTGACACTATAAACACTGTGACATTAC
* * * *
166357 TAGTGAATTGGTAGTGACATTATAAACACT
1 TACTGAACTGGCAGTGACACTATAAACACT
166387 ACAGTATTAC
Statistics
Matches: 151, Mismatches: 38, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (40 bp):
TACTGAACTGGCAGTGACACTATAAACACTGTGACATTAC
Found at i:166356 original size:80 final size:79
Alignment explanation
Indices: 166134--166398 Score: 255
Period size: 80 Copynumber: 3.3 Consensus size: 79
166124 AATGGAAGTA
**
166134 ACACTATAAACACTAC-AATGCTA-TACTGAACTGGCAATGACACTATAAACACTGCTGCATTAC
1 ACACTATAAACACTACGAAT--TACTACTGAACTGGCAATGACACTATAAACACTGCAACATTAC
* **
166197 TACTGATCTACCAGTG
64 TACTGAACTAGTAGTG
* * * ** * **
166213 GCATTGTAAACACTGTGAAATTACTACTGAACTGGTAATGACACTATAAACACTGTGACATTACT
1 ACACTATAAACACTACG-AATTACTACTGAACTGGCAATGACACTATAAACACTGCAACATTACT
* *
166278 ATTGAACTAGTAGTC
65 ACTGAACTAGTAGTG
* * * *
166293 ACACTATAAACACTACGACATTACTACTGAACTGACAGTGACACTGTAAACACTGCAATATTACT
1 ACACTATAAACACTACGA-ATTACTACTGAACTGGCAATGACACTATAAACACTGCAACATTACT
* * *
166358 AGTGAATTGGTAGTG
65 ACTGAACTAGTAGTG
* *
166373 ACATTATAAACACTACAGTATTACTA
1 ACACTATAAACACTAC-GAATTACTA
166399 TCGAACTAGT
Statistics
Matches: 149, Mismatches: 32, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
79 14 0.09
80 131 0.88
81 4 0.03
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.28
Consensus pattern (79 bp):
ACACTATAAACACTACGAATTACTACTGAACTGGCAATGACACTATAAACACTGCAACATTACTA
CTGAACTAGTAGTG
Found at i:166395 original size:40 final size:41
Alignment explanation
Indices: 166118--166424 Score: 200
Period size: 40 Copynumber: 7.7 Consensus size: 41
166108 TCGGAAAGAT
* * * ***
166118 TACTGAAATGGAAGTAACACTATAAACACTACA-ATGCTA-
1 TACTGAACTGGTAGTGACACTATAAACACTACAGACATTAC
* * * *
166157 TACTGAACTGGCAATGACACTATAAACACTGCTG-CATTAC
1 TACTGAACTGGTAGTGACACTATAAACACTACAGACATTAC
* *** * * * ** *
166197 TACTGATCTACCAGTGGCATTGTAAACACT-GTGAAATTAC
1 TACTGAACTGGTAGTGACACTATAAACACTACAGACATTAC
* **
166237 TACTGAACTGGTAATGACACTATAAACACT-GTGACATTAC
1 TACTGAACTGGTAGTGACACTATAAACACTACAGACATTAC
* * *
166277 TATTGAACTAGTAGTCACACTATAAACACTAC-GACATTAC
1 TACTGAACTGGTAGTGACACTATAAACACTACAGACATTAC
** * * *
166317 TACTGAACTGACAGTGACACTGTAAACACTGCA-ATATTAC
1 TACTGAACTGGTAGTGACACTATAAACACTACAGACATTAC
* * * *
166357 TAGTGAATTGGTAGTGACATTATAAACACTACAG-TATTAC
1 TACTGAACTGGTAGTGACACTATAAACACTACAGACATTAC
* * *
166397 TA-TCGAACTAGTTGTGACACTGTAAACA
1 TACT-GAACTGGTAGTGACACTATAAACA
166425 TAGCTAAGCT
Statistics
Matches: 209, Mismatches: 52, Indels: 13
0.76 0.19 0.05
Matches are distributed among these distances:
39 32 0.15
40 177 0.85
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (41 bp):
TACTGAACTGGTAGTGACACTATAAACACTACAGACATTAC
Found at i:166396 original size:120 final size:120
Alignment explanation
Indices: 166173--166424 Score: 296
Period size: 120 Copynumber: 2.1 Consensus size: 120
166163 ACTGGCAATG
* * * * *
166173 ACACTATAAACACTGCTGCATTACTACTGATCTACCAGTGGCATTGTAAACACTGTGAAATTACT
1 ACACTATAAACACTACTGCATTACTACTGAACTACCAGTGACACTGTAAACACTGTCAAATTACT
** *
166238 ACTGAACTGGTAATGACACTATAAACACTGTGACATTACTATTGAACTAGTAGTC
66 ACTGAACTGGTAATGACACTATAAACACTCAGACATTACTATCGAACTAGTAGTC
166293 ACACTATAAACACTAC-GACATTACTACTGAACTGA-CAGTGACACTGTAAACACTG-CAATATT
1 ACACTATAAACACTACTG-CATTACTACTGAACT-ACCAGTGACACTGTAAACACTGTCAA-ATT
* * * * * * *
166355 ACTAGTGAATTGGTAGTGACATTATAAACACTACAG-TATTACTATCGAACTAGTTGTG
63 ACTACTGAACTGGTAATGACACTATAAACACT-CAGACATTACTATCGAACTAGTAGTC
*
166413 ACACTGTAAACA
1 ACACTATAAACA
166425 TAGCTAAGCT
Statistics
Matches: 112, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
119 3 0.03
120 107 0.96
121 2 0.02
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.28
Consensus pattern (120 bp):
ACACTATAAACACTACTGCATTACTACTGAACTACCAGTGACACTGTAAACACTGTCAAATTACT
ACTGAACTGGTAATGACACTATAAACACTCAGACATTACTATCGAACTAGTAGTC
Found at i:176008 original size:29 final size:29
Alignment explanation
Indices: 175976--176215 Score: 116
Period size: 28 Copynumber: 8.5 Consensus size: 29
175966 TAGATATAAC
* ** *
175976 CCTTTTTTAATAATATTTTTTCGATTAT-A
1 CCTTTTTCAA-AATATCCTTTCGAATATCA
176005 CCTTTTTCAAAATATCCTTTCGAATATCA
1 CCTTTTTCAAAATATCCTTTCGAATATCA
*
176034 CC-TTTTCAAAATATCCTTTCTG-ATATAA
1 CCTTTTTCAAAATATCCTTTC-GAATATCA
* * * * *
176062 CC-TTTTCAATTACATCCTTAC-AGTTATAA
1 CCTTTTTCAA-AATATCCTTTCGA-ATATCA
*
176091 CC-TTTTCAATAATATCCTTAT-GGATAT-A
1 CCTTTTTCAA-AATATCCTT-TCGAATATCA
* * *
176119 CC-TTTTCAAAATATCCTTACGGATATAA
1 CCTTTTTCAAAATATCCTTTCGAATATCA
* *
176147 CC-TTTTCAATAATATTC-TT--AATATATA
1 CCTTTTTCAA-AATATCCTTTCGAATAT-CA
* *
176174 GC-TTTTCAAAATATCCTTTC-AGATATAA
1 CCTTTTTCAAAATATCCTTTCGA-ATATCA
*
176202 CC-TTTTCAATATAT
1 CCTTTTTCAAAATAT
176216 TATTTCAGAT
Statistics
Matches: 173, Mismatches: 24, Indels: 29
0.77 0.11 0.13
Matches are distributed among these distances:
26 10 0.06
27 26 0.15
28 81 0.47
29 56 0.32
ACGTcount: A:0.33, C:0.19, G:0.04, T:0.44
Consensus pattern (29 bp):
CCTTTTTCAAAATATCCTTTCGAATATCA
Found at i:176205 original size:14 final size:14
Alignment explanation
Indices: 176188--176234 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
176178 TTCAAAATAT
176188 CCTTTCAGATATAA
1 CCTTTCAGATATAA
*
176202 CCTTTTCA-ATATAT
1 CC-TTTCAGATATAA
**
176216 TATTTCAGATATAA
1 CCTTTCAGATATAA
176230 CCTTT
1 CCTTT
176235 TGATCGCGTT
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
13 5 0.20
14 15 0.60
15 5 0.20
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (14 bp):
CCTTTCAGATATAA
Found at i:176215 original size:28 final size:28
Alignment explanation
Indices: 176008--176235 Score: 234
Period size: 28 Copynumber: 8.1 Consensus size: 28
175998 GATTATACCT
*
176008 TTTTCAAAATATCCTTTC-GAATATCACC
1 TTTTCAAAATATCCTTTCAG-ATATAACC
*
176036 TTTTCAAAATATCCTTTCTGATATAACC
1 TTTTCAAAATATCCTTTCAGATATAACC
* * * *
176064 TTTTCAATTACATCCTTACAGTTATAACC
1 TTTTCAA-AATATCCTTTCAGATATAACC
*
176093 TTTTCAATAATATCCTTAT-GGATAT-ACC
1 TTTTCAA-AATATCCTT-TCAGATATAACC
* *
176121 TTTTCAAAATATCCTTACGGATATAACC
1 TTTTCAAAATATCCTTTCAGATATAACC
* *
176149 TTTTCAATAATATTC-TT-A-ATATATAGC
1 TTTTCAA-AATATCCTTTCAGATATA-ACC
176176 TTTTCAAAATATCCTTTCAGATATAACC
1 TTTTCAAAATATCCTTTCAGATATAACC
* **
176204 TTTTCAATATATTATTTCAGATATAACC
1 TTTTCAAAATATCCTTTCAGATATAACC
176232 TTTT
1 TTTT
176236 GATCGCGTTA
Statistics
Matches: 169, Mismatches: 21, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
26 11 0.07
27 26 0.15
28 85 0.50
29 47 0.28
ACGTcount: A:0.33, C:0.19, G:0.04, T:0.43
Consensus pattern (28 bp):
TTTTCAAAATATCCTTTCAGATATAACC
Found at i:177193 original size:18 final size:17
Alignment explanation
Indices: 177166--177208 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
177156 GGAATATATA
177166 TTTT-TTTGCTTTTCTCT
1 TTTTCTTTGC-TTTCTCT
*
177183 TTTTCTTTGCTTTCTTT
1 TTTTCTTTGCTTTCTCT
177200 TTCTTCTTT
1 TT-TTCTTT
177209 TTTTTTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.00, C:0.19, G:0.05, T:0.77
Consensus pattern (17 bp):
TTTTCTTTGCTTTCTCT
Found at i:177814 original size:17 final size:17
Alignment explanation
Indices: 177794--177836 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
177784 AAATGAACTA
* *
177794 ACAAGTAAAATGCAACG
1 ACAACTAAAATACAACG
*
177811 ACAACTAAAATACAATG
1 ACAACTAAAATACAACG
*
177828 ACAATTAAA
1 ACAACTAAA
177837 TGAGATGCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.58, C:0.16, G:0.09, T:0.16
Consensus pattern (17 bp):
ACAACTAAAATACAACG
Found at i:178271 original size:18 final size:16
Alignment explanation
Indices: 178233--178280 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
178223 CGGGGTAACA
178233 TCTTCTTCCTCTT-TG
1 TCTTCTTCCTCTTCTG
*
178248 TTTTCTTCCTCTTCTG
1 TCTTCTTCCTCTTCTG
*
178264 ATCCTTCTTCTTCTTCT
1 -T-CTTCTTCCTCTTCT
178281 TCATTCACCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 12 0.44
16 2 0.07
17 1 0.04
18 12 0.44
ACGTcount: A:0.02, C:0.33, G:0.04, T:0.60
Consensus pattern (16 bp):
TCTTCTTCCTCTTCTG
Found at i:185684 original size:28 final size:28
Alignment explanation
Indices: 185644--185869 Score: 223
Period size: 28 Copynumber: 8.1 Consensus size: 28
185634 ATATGACCCT
* *
185644 TTTTCAATAATATTCTTTCGATTAT-ACC
1 TTTTCAA-AATATCCTTTCGAATATAACC
* *
185672 TTTTTCAAAATATCCTTTTGAATATCACC
1 -TTTTCAAAATATCCTTTCGAATATAACC
* *
185701 TTTTTAAAATATCCTTTCGGATATAACC
1 TTTTCAAAATATCCTTTCGAATATAACC
* *
185729 TTTTC--AATA-ACTTTACGAATATTACC
1 TTTTCAAAATATCCTTT-CGAATATAACC
* * *
185755 TTTTCAATAATATCCTTACGGAT-TAAAC
1 TTTTCAA-AATATCCTTTCGAATATAACC
* *
185783 TTTTCAAAATATCCTTACGGATATAACC
1 TTTTCAAAATATCCTTTCGAATATAACC
*
185811 TTTTCAATAATATCC-TTAGAATAT-ACC
1 TTTTCAA-AATATCCTTTCGAATATAACC
*
185838 TTTTCAAAATATGCTTTCGAATATAACC
1 TTTTCAAAATATCCTTTCGAATATAACC
185866 TTTT
1 TTTT
185870 GATCGCTCTA
Statistics
Matches: 165, Mismatches: 22, Indels: 21
0.79 0.11 0.10
Matches are distributed among these distances:
25 4 0.02
26 24 0.15
27 33 0.20
28 76 0.46
29 25 0.15
30 3 0.02
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.43
Consensus pattern (28 bp):
TTTTCAAAATATCCTTTCGAATATAACC
Found at i:185716 original size:14 final size:14
Alignment explanation
Indices: 185670--185717 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
185660 TTCGATTATA
185670 CCTTTTTCAAAATAT
1 CCTTTTT-AAAATAT
* *
185685 CCTTTTGAATATCA-
1 CCTTTTTAAAAT-AT
185699 CCTTTTTAAAATAT
1 CCTTTTTAAAATAT
185713 CCTTT
1 CCTTT
185718 CGGATATAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
13 1 0.04
14 19 0.70
15 7 0.26
ACGTcount: A:0.29, C:0.21, G:0.02, T:0.48
Consensus pattern (14 bp):
CCTTTTTAAAATAT
Found at i:188852 original size:151 final size:151
Alignment explanation
Indices: 188566--188859 Score: 455
Period size: 151 Copynumber: 1.9 Consensus size: 151
188556 TCCTAGACAA
*
188566 AAATTAAAAGTTCAAAAAGTCCATAAAATTAGTCTCAAACATACTAAACCAATAACATGTAAATC
1 AAATTAAAAGTTCAAAAAGTCCATAAAATTAGTCTCAAACATACTAAACCAATAACATGTAAACC
* * * * *
188631 GAGCTCCAAAGTCGCCATCTAATCTTAAGCTTAAGGATCACGTGAAATGAAACAAAACAGACAAG
66 GAGCTCCAAAGTCGCCATCCAATCCTAAGCCTAAGGATCACCTAAAATGAAACAAAACAGACAAG
*
188696 TGAGCTTTACGCCCAGTGTGT
131 GGAGCTTTACGCCCAGTGTGT
* * *
188717 AAATTAAAAGTTCAAAAAGTCCATAAAATTAGTC-CAAAACATGCTAAACCAATAGCGTGTAAAC
1 AAATTAAAAGTTCAAAAAGTCCATAAAATTAGTCTC-AAACATACTAAACCAATAACATGTAAAC
* * *
188781 CGAGCTCCAGAGTCGCCATCCAATCCTAAGCCTAAGGATCACCTAAAATGAAACAAAATAGACGA
65 CGAGCTCCAAAGTCGCCATCCAATCCTAAGCCTAAGGATCACCTAAAATGAAACAAAACAGACAA
188846 GGGAGCTTTACGCC
130 GGGAGCTTTACGCC
188860 TAGTATGTTA
Statistics
Matches: 129, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
150 1 0.01
151 128 0.99
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.21
Consensus pattern (151 bp):
AAATTAAAAGTTCAAAAAGTCCATAAAATTAGTCTCAAACATACTAAACCAATAACATGTAAACC
GAGCTCCAAAGTCGCCATCCAATCCTAAGCCTAAGGATCACCTAAAATGAAACAAAACAGACAAG
GGAGCTTTACGCCCAGTGTGT
Found at i:190132 original size:37 final size:36
Alignment explanation
Indices: 190078--190150 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 36
190068 TAGTGATCCA
190078 CTCCAATCCTTTCCACTTGATCACATTTACATTTTTT
1 CTCCAATCCTTTCCACTTGATCACATTTAC-TTTTTT
*
190115 CTCCAATCCTTTTCACTTGATCACATTTACTTTTTT
1 CTCCAATCCTTTCCACTTGATCACATTTACTTTTTT
190151 GCACTTAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 6 0.17
37 29 0.83
ACGTcount: A:0.21, C:0.29, G:0.03, T:0.48
Consensus pattern (36 bp):
CTCCAATCCTTTCCACTTGATCACATTTACTTTTTT
Found at i:190569 original size:14 final size:15
Alignment explanation
Indices: 190545--190573 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
190535 TTGCTAATTC
190545 GTTTAATTTTCTTTT
1 GTTTAATTTTCTTTT
190560 GTTT-ATTTTCTTTT
1 GTTTAATTTTCTTTT
190574 ATTTCTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.10, C:0.07, G:0.07, T:0.76
Consensus pattern (15 bp):
GTTTAATTTTCTTTT
Found at i:197962 original size:15 final size:16
Alignment explanation
Indices: 197942--197977 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
197932 CAGCAGAAGG
*
197942 AGAAGGAAGAAGAA-A
1 AGAAGGAAGAAAAAGA
197957 AGAAGGAAGAAAAAGA
1 AGAAGGAAGAAAAAGA
197973 AGAAG
1 AGAAG
197978 ATAATGATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (16 bp):
AGAAGGAAGAAAAAGA
Found at i:198313 original size:24 final size:25
Alignment explanation
Indices: 198275--198321 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
198265 GGTTCGACGA
*
198275 ATAAAAAAAAGGAAGAGGCACAAAG
1 ATAAAAAAAAGGAAGAAGCACAAAG
*
198300 ATAAAAAGAA-GAAGAAGCACAA
1 ATAAAAAAAAGGAAGAAGCACAA
198322 GGAAAACTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.66, C:0.09, G:0.21, T:0.04
Consensus pattern (25 bp):
ATAAAAAAAAGGAAGAAGCACAAAG
Found at i:199091 original size:15 final size:15
Alignment explanation
Indices: 199061--199100 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 15
199051 TGTGAATAAG
199061 GAAAAGAAAAGAAAAA
1 GAAAA-AAAAGAAAAA
199077 GAGAAAAAAAG-AAAA
1 GA-AAAAAAAGAAAAA
199092 GAAAAAAAA
1 GAAAAAAAA
199101 TATTGTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 7 0.30
15 6 0.26
16 7 0.30
17 3 0.13
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
GAAAAAAAAGAAAAA
Found at i:199098 original size:13 final size:13
Alignment explanation
Indices: 199061--199099 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
199051 TGTGAATAAG
199061 GAAAAGAAAAGAAA
1 GAAAAGAAAA-AAA
*
199075 -AAGAGAAAAAAA
1 GAAAAGAAAAAAA
199087 GAAAAGAAAAAAA
1 GAAAAGAAAAAAA
199100 ATATTGTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 3 0.14
13 19 0.86
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (13 bp):
GAAAAGAAAAAAA
Found at i:201808 original size:21 final size:21
Alignment explanation
Indices: 201783--201823 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
201773 GATACCTGAT
201783 AAAAGGTATCGATACTTTTTG
1 AAAAGGTATCGATACTTTTTG
*
201804 AAAAGGTTTCGATACTTTTT
1 AAAAGGTATCGATACTTTTT
201824 TATGATTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (21 bp):
AAAAGGTATCGATACTTTTTG
Found at i:202159 original size:22 final size:23
Alignment explanation
Indices: 202106--202172 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
202096 ATCAAAATTT
* *
202106 CCATATCACATAACTTATCAAAG
1 CCATATCATATAACATATCAAAG
202129 CCATATCATATAACATATCAAAG
1 CCATATCATATAACATATCAAAG
* *
202152 -TATATCATATAAAATATCAAA
1 CCATATCATATAACATATCAAA
202173 ACATATCGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
22 19 0.47
23 21 0.52
ACGTcount: A:0.49, C:0.19, G:0.03, T:0.28
Consensus pattern (23 bp):
CCATATCATATAACATATCAAAG
Found at i:202178 original size:22 final size:22
Alignment explanation
Indices: 202107--202179 Score: 83
Period size: 22 Copynumber: 3.3 Consensus size: 22
202097 TCAAAATTTC
* * *
202107 CATATCACATAACTTATCAAAGC
1 CATATCATATAACATATCAAA-A
*
202130 CATATCATATAACATATCAAAG
1 CATATCATATAACATATCAAAA
* *
202152 TATATCATATAAAATATCAAAA
1 CATATCATATAACATATCAAAA
202174 CATATC
1 CATATC
202180 GTACCCCCAT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
22 24 0.56
23 19 0.44
ACGTcount: A:0.49, C:0.19, G:0.03, T:0.29
Consensus pattern (22 bp):
CATATCATATAACATATCAAAA
Found at i:216432 original size:43 final size:42
Alignment explanation
Indices: 216378--216577 Score: 220
Period size: 43 Copynumber: 4.6 Consensus size: 42
216368 TTATACTCCC
* *
216378 ACCGAGTCATAAGTTCTTCCATTTACAATAATCTTATGCTCTT
1 ACCGAGACATAAG-TCTTCCATTTATAATAATCTTATGCTCTT
*
216421 ATCGAGACATAAGCTCTTCCATTTATAATAATCTTATGCTCTT
1 ACCGAGACATAAG-TCTTCCATTTATAATAATCTTATGCTCTT
* * *
216464 ACCAAGACATAAGTCTTCCATTTATACATAATCTCATGCTCAT
1 ACCGAGACATAAGTCTTCCATTTATA-ATAATCTTATGCTCTT
* * * ** *
216507 CCCGAGATATGAGTCTTCCATTTATATATATAATCCCATGCTCAT
1 ACCGAGACATAAGTCTTCCA-TT-TATA-ATAATCTTATGCTCTT
* *
216552 CCCGAGACATGAGTCTTCCATTTATA
1 ACCGAGACATAAGTCTTCCATTTATA
216578 TATCAAGTAT
Statistics
Matches: 139, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
42 13 0.09
43 84 0.60
44 4 0.03
45 38 0.27
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.36
Consensus pattern (42 bp):
ACCGAGACATAAGTCTTCCATTTATAATAATCTTATGCTCTT
Found at i:216551 original size:45 final size:45
Alignment explanation
Indices: 216423--216580 Score: 182
Period size: 45 Copynumber: 3.6 Consensus size: 45
216413 ATGCTCTTAT
* ** * *
216423 CGAGACATAAGCTCTTCCA-TT-TATA-ATAATCTTATGCTCTTAC
1 CGAGACATGAG-TCTTCCATTTATATATATAATCCCATGCTCATCC
* * * *
216466 CAAGACATAAGTCTTCCA-TT-TATACATAATCTCATGCTCATCC
1 CGAGACATGAGTCTTCCATTTATATATATAATCCCATGCTCATCC
*
216509 CGAGATATGAGTCTTCCATTTATATATATAATCCCATGCTCATCC
1 CGAGACATGAGTCTTCCATTTATATATATAATCCCATGCTCATCC
216554 CGAGACATGAGTCTTCCATTTATATAT
1 CGAGACATGAGTCTTCCATTTATATAT
216581 CAAGTATTTA
Statistics
Matches: 102, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
42 13 0.13
43 40 0.39
44 2 0.02
45 47 0.46
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.35
Consensus pattern (45 bp):
CGAGACATGAGTCTTCCATTTATATATATAATCCCATGCTCATCC
Found at i:216568 original size:88 final size:85
Alignment explanation
Indices: 216385--216577 Score: 217
Period size: 88 Copynumber: 2.2 Consensus size: 85
216375 CCCACCGAGT
* * * *
216385 CATAAGTTCTTCCATTTACAATAATCTTATGCTCTTATCGAGACATAAGCTCTTCCATTTATAAT
1 CATAAG-TCTTCCATTTATAATAATCTCATGCTCATACCGAGACATAAGCTCTTCCATTTATAAT
** *
216450 AATCTTATGCTCTTACCAAGA
65 AATCCCATGCTCATACCAAGA
* * *
216471 CATAAGTCTTCCATTTATACATAATCTCATGCTCATCCCGAGATATGAG-TCTTCCATTTATATA
1 CATAAGTCTTCCATTTATA-ATAATCTCATGCTCATACCGAGACATAAGCTCTTCCA-TT-TATA
* *
216535 TATAATCCCATGCTCATCCCGAGA
63 -ATAATCCCATGCTCATACCAAGA
*
216559 CATGAGTCTTCCATTTATA
1 CATAAGTCTTCCATTTATA
216578 TATCAAGTAT
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
85 19 0.21
86 31 0.34
87 4 0.04
88 36 0.40
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.37
Consensus pattern (85 bp):
CATAAGTCTTCCATTTATAATAATCTCATGCTCATACCGAGACATAAGCTCTTCCATTTATAATA
ATCCCATGCTCATACCAAGA
Found at i:230809 original size:19 final size:18
Alignment explanation
Indices: 230780--230816 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
230770 ATTTAAAAGC
*
230780 ATAAAATATGACATACAA
1 ATAAAATATGAAATACAA
230798 ATAAATATATGAAATACAA
1 ATAAA-ATATGAAATACAA
230817 TCATAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.24
Consensus pattern (18 bp):
ATAAAATATGAAATACAA
Found at i:231118 original size:15 final size:15
Alignment explanation
Indices: 231084--231125 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
231074 ATTAGGCATG
*
231084 AAAATAAAT-GACAA
1 AAAATAAATAAACAA
231098 ATAAATAAATAAACAA
1 A-AAATAAATAAACAA
*
231114 AAAATCAATAAA
1 AAAATAAATAAA
231126 TTAAATGTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 1 0.04
15 18 0.75
16 5 0.21
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.17
Consensus pattern (15 bp):
AAAATAAATAAACAA
Found at i:231962 original size:21 final size:23
Alignment explanation
Indices: 231937--231978 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
231927 AATTGAAAAA
231937 AAATCGA-AT-TTCGAGTTAAAC
1 AAATCGAGATATTCGAGTTAAAC
*
231958 AAATCGAGTTATTCGAGTTAA
1 AAATCGAGATATTCGAGTTAA
231979 TCGAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
22 1 0.06
23 10 0.56
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (23 bp):
AAATCGAGATATTCGAGTTAAAC
Found at i:231982 original size:18 final size:18
Alignment explanation
Indices: 231959--231993 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
231949 GAGTTAAACA
*
231959 AATCGAGTTATTCGAGTT
1 AATCGAATTATTCGAGTT
231977 AATCGAATTATTCGAGT
1 AATCGAATTATTCGAGT
231994 CAACTCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.37
Consensus pattern (18 bp):
AATCGAATTATTCGAGTT
Found at i:232136 original size:30 final size:30
Alignment explanation
Indices: 232102--232163 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
232092 AAACTCCAAA
* *
232102 CCTTTTTACTTTTCCC-CAAAAATTTTTACT
1 CCTTTTCACTTTTCCCAC-AAAACTTTTACT
*
232132 CCTTTTCACTTTTCTCACAAAACTTTTACT
1 CCTTTTCACTTTTCCCACAAAACTTTTACT
232162 CC
1 CC
232164 CCTCCTATCN
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.47
Consensus pattern (30 bp):
CCTTTTCACTTTTCCCACAAAACTTTTACT
Found at i:237548 original size:13 final size:14
Alignment explanation
Indices: 237519--237548 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
237509 TTCAGTACAT
237519 TGACATTTAACCTC
1 TGACATTTAACCTC
237533 TGACATTTAA-CTC
1 TGACATTTAACCTC
237546 TGA
1 TGA
237549 TTGCATTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (14 bp):
TGACATTTAACCTC
Found at i:239802 original size:17 final size:17
Alignment explanation
Indices: 239782--239827 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
239772 CAGTATTAAC
**
239782 GTCATTGCATTTTTATT
1 GTCATTGCATTTACATT
* *
239799 GTCATTACATCTACATT
1 GTCATTGCATTTACATT
239816 GTCATTGCATTT
1 GTCATTGCATTT
239828 CCATATATAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.22, C:0.17, G:0.11, T:0.50
Consensus pattern (17 bp):
GTCATTGCATTTACATT
Found at i:240401 original size:12 final size:11
Alignment explanation
Indices: 240373--240408 Score: 56
Period size: 12 Copynumber: 3.3 Consensus size: 11
240363 TCAGTCACAT
240373 AAAAAG-AAAG
1 AAAAAGAAAAG
240383 AAAAAGAAAAG
1 AAAAAGAAAAG
240394 AGAAAAGAAAAG
1 A-AAAAGAAAAG
240406 AAA
1 AAA
240409 TATATTGCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 6 0.25
11 7 0.29
12 11 0.46
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:242092 original size:13 final size:14
Alignment explanation
Indices: 242063--242092 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
242053 TTCAATACAT
242063 TGACATTTAACCTC
1 TGACATTTAACCTC
242077 TGACATTTAA-CTC
1 TGACATTTAACCTC
242090 TGA
1 TGA
242093 TTGTGTTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.30, C:0.23, G:0.10, T:0.37
Consensus pattern (14 bp):
TGACATTTAACCTC
Found at i:245630 original size:14 final size:14
Alignment explanation
Indices: 245608--245642 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
245598 ACATTTGAAT
*
245608 AAAAGTATTAAATA
1 AAAAATATTAAATA
*
245622 AAAAATATTAAATG
1 AAAAATATTAAATA
245636 AAAAATA
1 AAAAATA
245643 GAAAGCACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.26
Consensus pattern (14 bp):
AAAAATATTAAATA
Found at i:249777 original size:23 final size:23
Alignment explanation
Indices: 249750--249805 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
249740 TTGCACTTAG
* *
249750 GGGTTCGCATGTTATCATATAAA
1 GGGTTCGCATGCTAACATATAAA
*
249773 GGGTTCGTATGCTAACATATAAA
1 GGGTTCGCATGCTAACATATAAA
249796 GGGTTCGCAT
1 GGGTTCGCAT
249806 AACTAAACAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (23 bp):
GGGTTCGCATGCTAACATATAAA
Found at i:250261 original size:14 final size:14
Alignment explanation
Indices: 250229--250279 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
250219 TCTCATATAG
*
250229 GGGCTTGCTCAC-A
1 GGGCTTGCACACAA
250242 -GGCTTGCACACAA
1 GGGCTTGCACACAA
**
250255 GGGCTTGCACTTAA
1 GGGCTTGCACACAA
*
250269 GGGTTTGCACA
1 GGGCTTGCACA
250280 AATGGTTCGC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
12 10 0.32
13 1 0.03
14 20 0.65
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (14 bp):
GGGCTTGCACACAA
Found at i:250546 original size:22 final size:22
Alignment explanation
Indices: 250490--250587 Score: 83
Period size: 23 Copynumber: 4.4 Consensus size: 22
250480 AGGGGGTTTG
*
250490 CACATATACAACATG-TTGGGTT
1 CACATATACAACATGAAT-GGTT
* *
250512 CGCCTAATACAACATGAATGGTT
1 CACAT-ATACAACATGAATGGTT
250535 CACATATACAACATGTAA-GGTT
1 CACATATACAACATG-AATGGTT
* * *
250557 CGCCTAATACAACATGAAGGGTT
1 CACAT-ATACAACATGAATGGTT
*
250580 CATATATA
1 CACATATA
250588 TGATTTGCTA
Statistics
Matches: 61, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
22 25 0.41
23 35 0.57
24 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (22 bp):
CACATATACAACATGAATGGTT
Found at i:250557 original size:45 final size:45
Alignment explanation
Indices: 250490--250587 Score: 160
Period size: 45 Copynumber: 2.2 Consensus size: 45
250480 AGGGGGTTTG
** *
250490 CACATATACAACATGTTGGGTTCGCCTAATACAACATGAATGGTT
1 CACATATACAACATGTAAGGTTCGCCTAATACAACATGAAGGGTT
250535 CACATATACAACATGTAAGGTTCGCCTAATACAACATGAAGGGTT
1 CACATATACAACATGTAAGGTTCGCCTAATACAACATGAAGGGTT
*
250580 CATATATA
1 CACATATA
250588 TGATTTGCTA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (45 bp):
CACATATACAACATGTAAGGTTCGCCTAATACAACATGAAGGGTT
Found at i:250579 original size:23 final size:23
Alignment explanation
Indices: 250495--250580 Score: 104
Period size: 23 Copynumber: 3.8 Consensus size: 23
250485 GTTTGCACAT
**
250495 ATACAACATGTTGGGTTCGCCTA
1 ATACAACATGAAGGGTTCGCCTA
* * *
250518 ATACAACATGAATGGTTCACAT-
1 ATACAACATGAAGGGTTCGCCTA
250540 ATACAACATGTAA-GGTTCGCCTA
1 ATACAACATG-AAGGGTTCGCCTA
250563 ATACAACATGAAGGGTTC
1 ATACAACATGAAGGGTTC
250581 ATATATATGA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
22 19 0.36
23 34 0.64
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.27
Consensus pattern (23 bp):
ATACAACATGAAGGGTTCGCCTA
Found at i:252563 original size:28 final size:28
Alignment explanation
Indices: 252523--252731 Score: 117
Period size: 28 Copynumber: 7.5 Consensus size: 28
252513 CAAATGGAAG
*
252523 GCTCGGGTAGAGCGAAATTCTTAATCTT
1 GCTCGGGTAGAGCGATATTCTTAATCTT
* *
252551 GCTCGGGTAGAGC-ATTATTC-TACTTTT
1 GCTCGGGTAGAGCGA-TATTCTTAATCTT
* * *
252578 GGCTCGGGTAGAGCGTTATACTGAATCTT
1 -GCTCGGGTAGAGCGATATTCTTAATCTT
* * *
252607 GCTCGGGTAGAGC-ATTAATC-TACTTTT
1 GCTCGGGTAGAGCGA-TATTCTTAATCTT
* * * *
252634 AGCTTGGGT-GAAGCGTTATACTGAATCTT
1 -GCTCGGGTAG-AGCGATATTCTTAATCTT
* * * *
252663 GTTGGGGTAGAGC-ATTATTC-TACTTTT
1 GCTCGGGTAGAGCGA-TATTCTTAATCTT
* * *
252690 GGCTCGGGTAGAGCGTTATACTAAATCTT
1 -GCTCGGGTAGAGCGATATTCTTAATCTT
*
252719 GCTCAGGTAGAGC
1 GCTCGGGTAGAGC
252732 ATTATTATGC
Statistics
Matches: 131, Mismatches: 36, Indels: 28
0.67 0.18 0.14
Matches are distributed among these distances:
27 15 0.11
28 103 0.79
29 13 0.10
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (28 bp):
GCTCGGGTAGAGCGATATTCTTAATCTT
Done.