Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr5
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: 43060996
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2186021 characters in sequence are not A, C, G, or T
File 114 of 128
Found at i:37958274 original size:396 final size:392
Alignment explanation
Indices: 37957423--37958216 Score: 1009
Period size: 396 Copynumber: 2.0 Consensus size: 392
37957413 TTGATGGTGA
* * * * * * ** *
37957423 ATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTTTATCTCCATGTGCAACA
1 ATTTTACCTCCC-GA-G-TACAGTGGAGTACATCGAAACAAG-AATTCTATCTCCCTGAACAGCA
37957488 GTGGAATAGATTGAAGATTACAGATCTTATCTCCATAAGCAATAGTGGAGCAGATCAATGATGGC
62 GTGGAATAGATTGAAGATTACAGATCTTATCTCCATAAGCAATAGTGGAGCAGATCAATGATGGC
* * *
37957553 AGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGCAGCCAGCAATTCTATCTCCCTGGGCAA
127 AGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAACAATTCTATCTCCCTGGCCAA
* *
37957618 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCTTAAGTAGTAGTGGAGCAGATCAAAGATG
192 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
** * *
37957683 GTGGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCTAGTAATTCTATCTCCCTAGGC
257 GCAGATTTTACCTCCCTGAGGTTACAGTGGAATACATTGAAGCCAGTAATTCTATCTCCCTAGGC
* ** * * * *
37957748 AGCACTGGAATAGATTGAAGATTACAGATCTTATCTCCTTAAGTAGTAGTGGAGCAGATCAAAGA
322 AGCACTGAAATAGATCAAAGATAACAGATCTTATCTCATTAAGTAGCAGTGAAGCAGATCAAAGA
* *
37957813 TAATGG
387 GAATAG
* *
37957819 ATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAACCAGTAATTCTATCTCCCTGAACAGCA
1 ATTTTACCTCCC-GA-G-TACAGTGGAGTACATCGAAACAAG-AATTCTATCTCCCTGAACAGCA
* *
37957884 GTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAATGATGGC
62 GTGGAATAGATTGAAGATTACAGATCTTATCTCCATAAGCAATAGTGGAGCAGATCAATGATGGC
* * *
37957949 GGATTTTACTTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATCTCCCTGGCCAA
127 AGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAACAATTCTATCTCCCTGGCCAA
* * * * * *
37958014 TAGTGGAATAGATTGAAGATTATAGATCTTATTTCCCTAGGCAGTAGTGGAGTAGATCGAAGATG
192 CAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATG
* * *
37958079 GCAGATTTTACCTCCCTGAGGTTACAGTGGAATATATTGAAGCCAGTAATTCTATCTCTCTAGTC
257 GCAGATTTTACCTCCCTGAGGTTACAGTGGAATACATTGAAGCCAGTAATTCTATCTCCCTAGGC
* * * * * * *
37958144 GGCAGTGAAATCGATCAAAGA-AAGCAGATCTTGTCTTCATGT-ATTGGCA-TGAAGTAGATCAA
322 AGCACTGAAATAGATCAAAGATAA-CAGATCTTATC-TCAT-TAAGTAGCAGTGAAGCAGATCAA
*
37958206 AGAGAGTAG
384 AGAGAATAG
37958215 AT
1 AT
37958217 CTTGTCTTCC
Statistics
Matches: 348, Mismatches: 47, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
395 1 0.00
396 339 0.97
397 7 0.02
398 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (392 bp):
ATTTTACCTCCCGAGTACAGTGGAGTACATCGAAACAAGAATTCTATCTCCCTGAACAGCAGTGG
AATAGATTGAAGATTACAGATCTTATCTCCATAAGCAATAGTGGAGCAGATCAATGATGGCAGAT
TTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAACAATTCTATCTCCCTGGCCAACAGT
GGAATAGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAG
ATTTTACCTCCCTGAGGTTACAGTGGAATACATTGAAGCCAGTAATTCTATCTCCCTAGGCAGCA
CTGAAATAGATCAAAGATAACAGATCTTATCTCATTAAGTAGCAGTGAAGCAGATCAAAGAGAAT
AG
Found at i:37975842 original size:17 final size:17
Alignment explanation
Indices: 37975797--37975842 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
37975787 CACCATATAC
*
37975797 TTATATAATACTAACAA
1 TTATATAATATTAACAA
*
37975814 ATATAT-ATATTAA-AA
1 TTATATAATATTAACAA
37975829 TTTATATAATATTA
1 -TTATATAATATTA
37975843 TTTTACATCG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
15 2 0.08
16 11 0.46
17 11 0.46
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (17 bp):
TTATATAATATTAACAA
Found at i:37976578 original size:79 final size:80
Alignment explanation
Indices: 37976477--37976637 Score: 315
Period size: 79 Copynumber: 2.0 Consensus size: 80
37976467 AAAAACAGTG
37976477 TTGTAATATTTAGTCTCTTTATCAATATTTTATATATTTATTAAATAATCGTTTCACCCACATCA
1 TTGTAATATTTAGTCTCTTTATCAATATTTTATATATTTATTAAATAATCGTTTCACCCACATCA
37976542 TATGTTTGATATAAT
66 TATGTTTGATATAAT
37976557 TTGTAATATTT-GTCTCTTTATCAATATTTTATATATTTATTAAATAATCGTTTCACCCACATCA
1 TTGTAATATTTAGTCTCTTTATCAATATTTTATATATTTATTAAATAATCGTTTCACCCACATCA
37976621 TATGTTTGATATAAT
66 TATGTTTGATATAAT
37976636 TT
1 TT
37976638 AGTGTTTATA
Statistics
Matches: 81, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
79 70 0.86
80 11 0.14
ACGTcount: A:0.32, C:0.12, G:0.06, T:0.50
Consensus pattern (80 bp):
TTGTAATATTTAGTCTCTTTATCAATATTTTATATATTTATTAAATAATCGTTTCACCCACATCA
TATGTTTGATATAAT
Found at i:37978577 original size:3 final size:3
Alignment explanation
Indices: 37978569--37978594 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
37978559 GTGAAGTGTT
37978569 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
37978595 GTAAATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:37979259 original size:19 final size:19
Alignment explanation
Indices: 37979217--37979252 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
37979207 AAAAATCAAA
*
37979217 ATAAAAATTGAAAAATGTT
1 ATAAAAATTGAAAAAGGTT
37979236 ATAAAAATT-AAAAAGGT
1 ATAAAAATTGAAAAAGGT
37979253 ATTTAAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.28
Consensus pattern (19 bp):
ATAAAAATTGAAAAAGGTT
Found at i:37982312 original size:107 final size:105
Alignment explanation
Indices: 37982126--37982478 Score: 434
Period size: 107 Copynumber: 3.4 Consensus size: 105
37982116 GATCTTAAGG
* *
37982126 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGGTGCCCATGCCATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGGTGCCCAAGCCATG
* *
37982191 TCCCAGACATGGTCTTACAGGGGACCTCTTATGAGTAAAAAC
66 TCCCAGACATGGTCTTACAGGGGACCTCTCATGACT--AAAC
* *
37982233 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGAATGTTCTCATGTCGGTGCCCAAGCCATG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGGTGCCCAAGCCATG
*
37982298 TCCCAGACATGGTCTTATAGGGGACCTCTCAT--CT---C
66 TCCCAGACATGGTCTTACAGGGGACCTCTCATGACTAAAC
* * ** * * *
37982333 GGTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTCTCGGTG-CCAATTCCA
1 -ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGGTGCCCAA-GCCA
* * *
37982396 TGTCTCAGACATGGTCTTACATGGGACCTCTCGTGATCTCAAGA-
64 TGTCCCAGACATGGTCTTACAGGGGACCTCTCATGA-CT-AA-AC
37982440 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGAT
37982479 CTCTTTACCC
Statistics
Matches: 214, Mismatches: 21, Indels: 22
0.83 0.08 0.09
Matches are distributed among these distances:
99 4 0.02
100 45 0.21
101 35 0.16
103 2 0.01
105 1 0.00
106 36 0.17
107 91 0.43
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (105 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGGTGCCCAAGCCATG
TCCCAGACATGGTCTTACAGGGGACCTCTCATGACTAAAC
Found at i:37982349 original size:50 final size:50
Alignment explanation
Indices: 37982127--37982482 Score: 356
Period size: 50 Copynumber: 6.8 Consensus size: 50
37982117 ATCTTAAGGA
** * *
37982127 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * * *
37982178 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTTATGAGTAAAAAC-A
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT--CT-----CGG
* * ** *
37982234 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGAATGTTCTCATGTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* *
37982285 TGCCCAA-GCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TG-CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
37982335 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
37982385 TGCCAATTCCATGTCTCAGACATGGTCTTACATGGGACCTCTCGTGATCTCAAGAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC--G-G
*
37982441 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
37982483 TTACCCAAAT
Statistics
Matches: 256, Mismatches: 32, Indels: 29
0.81 0.10 0.09
Matches are distributed among these distances:
49 4 0.02
50 98 0.38
51 64 0.25
52 6 0.02
53 4 0.02
55 3 0.01
56 72 0.28
57 5 0.02
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:37982600 original size:13 final size:13
Alignment explanation
Indices: 37982582--37982606 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37982572 AATCAACATC
37982582 AAATAAATTCATG
1 AAATAAATTCATG
37982595 AAATAAATTCAT
1 AAATAAATTCAT
37982607 AGTTGCTGGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATAAATTCATG
Found at i:37987752 original size:44 final size:43
Alignment explanation
Indices: 37987625--37987767 Score: 254
Period size: 41 Copynumber: 3.3 Consensus size: 43
37987615 ATCAATGACA
*
37987625 AGTGGCAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
1 AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
37987668 AG-G-CAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
1 AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
37987709 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
1 AGTGACAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATC
37987753 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
37987768 ATGTGATCCG
Statistics
Matches: 97, Mismatches: 0, Indels: 5
0.95 0.00 0.05
Matches are distributed among these distances:
41 40 0.41
42 2 0.02
43 20 0.21
44 35 0.36
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.29
Consensus pattern (43 bp):
AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
Found at i:38003407 original size:17 final size:18
Alignment explanation
Indices: 38003374--38003407 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
38003364 ATTTAAATTG
38003374 CGGTCGCGATCGCGTTTT
1 CGGTCGCGATCGCGTTTT
*
38003392 CGGTCGC-ATTGCGTTT
1 CGGTCGCGATCGCGTTT
38003408 ATCGCGGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.06, C:0.26, G:0.32, T:0.35
Consensus pattern (18 bp):
CGGTCGCGATCGCGTTTT
Found at i:38004976 original size:15 final size:15
Alignment explanation
Indices: 38004956--38004990 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
38004946 AGGAAGTAGG
*
38004956 ACTGAGCAACAAAAA
1 ACTGAGAAACAAAAA
*
38004971 ACTGAGAAACCAAAA
1 ACTGAGAAACAAAAA
38004986 ACTGA
1 ACTGA
38004991 CCCGATCTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.57, C:0.20, G:0.14, T:0.09
Consensus pattern (15 bp):
ACTGAGAAACAAAAA
Found at i:38012247 original size:38 final size:38
Alignment explanation
Indices: 38012196--38012272 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
38012186 TAAAACGTCA
38012196 AAAGAAGCAATGCAATTCTTTTTTTTCTTGATATAATG
1 AAAGAAGCAATGCAATTCTTTTTTTTCTTGATATAATG
38012234 AAAGAAGCAATGCAATTCTTTTTTTTCTTGATATAATG
1 AAAGAAGCAATGCAATTCTTTTTTTTCTTGATATAATG
38012272 A
1 A
38012273 TATATCTGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (38 bp):
AAAGAAGCAATGCAATTCTTTTTTTTCTTGATATAATG
Found at i:38021295 original size:24 final size:24
Alignment explanation
Indices: 38021268--38021317 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
38021258 ACACAAAGTA
38021268 AGCTTAAAAAGCTTAGTAAGTCAT
1 AGCTTAAAAAGCTTAGTAAGTCAT
*
38021292 AGCTTAAAACGCTTAGTAAGTCAT
1 AGCTTAAAAAGCTTAGTAAGTCAT
38021316 AG
1 AG
38021318 AAAATAAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (24 bp):
AGCTTAAAAAGCTTAGTAAGTCAT
Found at i:38021701 original size:44 final size:42
Alignment explanation
Indices: 38021599--38021714 Score: 148
Period size: 43 Copynumber: 2.7 Consensus size: 42
38021589 AGCTCGTACA
*
38021599 ATGCCAACGTCCCAGACGTGGTCTTACATGTAAACAAACGTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACAAAC-TCG
38021642 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAAACCTCAAA-TCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAAA---CAAACTCG
38021686 ATGCCAACGTCCCAGACGTGGTCTTACAC
1 ATGCCAACGTCCCAGACGTGGTCTTACAC
38021715 AAATACTCAT
Statistics
Matches: 65, Mismatches: 1, Indels: 13
0.82 0.01 0.16
Matches are distributed among these distances:
42 2 0.03
43 29 0.45
44 28 0.43
45 2 0.03
46 4 0.06
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAAACAAACTCG
Found at i:38025783 original size:33 final size:33
Alignment explanation
Indices: 38025746--38025835 Score: 128
Period size: 33 Copynumber: 2.7 Consensus size: 33
38025736 TCAGCTCATA
38025746 GCTGTTCGTGCACATCAATGGACACAGCACAAG
1 GCTGTTCGTGCACATCAATGGACACAGCACAAG
* *
38025779 GCTGTTCGTGCACACCAATGGACACAGCACATG
1 GCTGTTCGTGCACATCAATGGACACAGCACAAG
* *
38025812 ACTGTTCGGGCATC-TCAATGGACA
1 GCTGTTCGTGCA-CATCAATGGACA
38025836 GCCAACCATT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
33 50 0.98
34 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (33 bp):
GCTGTTCGTGCACATCAATGGACACAGCACAAG
Found at i:38031566 original size:28 final size:28
Alignment explanation
Indices: 38031517--38031571 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
38031507 TCGTAGCATA
* *
38031517 TAGATAACAACATGTAATGAAATAACTG
1 TAGATAACAACATATAAAGAAATAACTG
38031545 TAGATTAACAA-ATATAAAGAAATAACT
1 TAGA-TAACAACATATAAAGAAATAACT
38031572 ATCAACCTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 18 0.75
29 6 0.25
ACGTcount: A:0.55, C:0.09, G:0.11, T:0.25
Consensus pattern (28 bp):
TAGATAACAACATATAAAGAAATAACTG
Found at i:38031747 original size:5 final size:5
Alignment explanation
Indices: 38031737--38031763 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
38031727 AGAAATCTGC
38031737 TTGAT TTGAT TTGAT TTGAT TTGAT TT
1 TTGAT TTGAT TTGAT TTGAT TTGAT TT
38031764 TCTTTCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.63
Consensus pattern (5 bp):
TTGAT
Found at i:38032305 original size:45 final size:44
Alignment explanation
Indices: 38032243--38032361 Score: 127
Period size: 44 Copynumber: 2.7 Consensus size: 44
38032233 CGGCTTTAAC
* **
38032243 CTGCTCCACTGCAACTTCAAGGAGATAAGGTTTGCCAT-CTTCAGT
1 CTGCTCCACTACAACTTCAAGGAGATAAGACTTG-CATACTT-AGT
*
38032288 CTGC-CCTACTACAACTTC-AGGAGGATAAGACTTGCTTACTTAGT
1 CTGCTCC-ACTACAACTTCAAGGA-GATAAGACTTGCATACTTAGT
* *
38032332 CTGCTCCACTGCAACTTCAGGGAGATAAGA
1 CTGCTCCACTACAACTTCAAGGAGATAAGA
38032362 TTAGATGCAA
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
44 32 0.51
45 31 0.49
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (44 bp):
CTGCTCCACTACAACTTCAAGGAGATAAGACTTGCATACTTAGT
Found at i:38032493 original size:217 final size:217
Alignment explanation
Indices: 38032112--38033076 Score: 1259
Period size: 217 Copynumber: 4.5 Consensus size: 217
38032102 CTAGTGCTGC
* * *
38032112 AGTCTACTCCACTGCAA-TGTCAGGGAGATAAGACTAGTTGCGATCTGCTCTTTGCAACTTCAGA
1 AGTCTGCTCCACTGCAACT-TCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGA
* * * *
38032176 GAGATAAGATCCAAGATTTTAATCCACTGCACTGTAACTTTAGGGAGATAGGACTATCGGCTTTA
65 GAGATAAGATCCAAGATTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTATCGGCTTTA
* * *
38032241 ACCTGCTCCACTGCAACTTCA-AGGAGATAAGGTTTGCCATCTTCAGTCTGCC-CTACTACAACT
130 ACCTGCTCCACTGCAACTTCAGA-GAGATAAGATTTGCCATCTTCAGTCTACCTC-ACTGCAACT
38032304 TCAGGAGGATAAGACTTGCTTACTT
193 TCAGGAGGATAAGACTTGCTTACTT
* * *
38032329 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGATGCAATCTGTTCTCTGCAACTTCAGAG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAG
* * *
38032394 AGATAAGATCCAAGATTTTAATCCGTTCCACTACAACTTTAGGGAGATAGGATTATCGGATTTAA
66 AGATAAGATCCAAGATTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTATCGGCTTTAA
* * * * *
38032459 CCTGCTCCACTACAACTTTAGAGAGATAAGGTTTGCCATCTTCAGTCTGCCCCACTGCAACTTCA
131 CCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCAACTTCA
38032524 GGAGGAT-A-A---G-------
196 GGAGGATAAGACTTGCTTACTT
* * *
38032534 A-----CTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAATTTTAGAG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAG
* * * * *
38032594 AAATAAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTATCGGCTTTAA
66 AGATAAGATCCAAGATTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTATCGGCTTTAA
* * * *
38032659 TCTGCTCTACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTACTTCACTGCAACTTCA
131 CCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCAACTTCA
* * * *
38032724 GAAAGATAGGACTTGCTTGCTT
196 GGAGGATAAGACTTGCTTACTT
*
38032746 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATATGCTCTCTGCAACTTCAGAG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAG
* * * * *
38032811 AGATAAGATCCAAGTTTTTAATCCGCTCTACTGCAACTTCAGGGAGATAGGATTATCAGCTCTAA
66 AGATAAGATCCAAGATTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTATCGGCTTTAA
* * * * *
38032876 TCTGCTCCACTGCAACTTTAGGGAGATAAGATTTTCCATCTTCAGTCTATCTCACTGCAACTTCA
131 CCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCAACTTCA
* *
38032941 GGACGATAGGACTTGCTTACTT
196 GGAGGATAAGACTTGCTTACTT
*
38032963 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGAG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAG
*** * *
38033028 AGATAAGATCTGTGGTTTTAATCAGCTCCACTGCAACTTTAGGGAGATA
66 AGATAAGATCCAAGATTTTAATCCGCTCCACTGCAACTTTAGGGAGATA
38033077 ATATCATTAG
Statistics
Matches: 658, Mismatches: 70, Indels: 40
0.86 0.09 0.05
Matches are distributed among these distances:
200 171 0.26
202 1 0.00
205 2 0.00
212 2 0.00
215 1 0.00
216 1 0.00
217 477 0.72
218 3 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (217 bp):
AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAG
AGATAAGATCCAAGATTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGATTATCGGCTTTAA
CCTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCCATCTTCAGTCTACCTCACTGCAACTTCA
GGAGGATAAGACTTGCTTACTT
Found at i:38032548 original size:27 final size:27
Alignment explanation
Indices: 38032510--38032563 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
38032500 TCAGTCTGCC
38032510 CCACTGCAACTTCA-GGAGGATAAGACT
1 CCACTGCAACTTCAGGGA-GATAAGACT
38032537 CCACTGCAACTTCAGGGAGATAAGACT
1 CCACTGCAACTTCAGGGAGATAAGACT
38032564 AGATGTGATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 23 0.88
28 3 0.12
ACGTcount: A:0.33, C:0.26, G:0.22, T:0.19
Consensus pattern (27 bp):
CCACTGCAACTTCAGGGAGATAAGACT
Found at i:38032765 original size:44 final size:43
Alignment explanation
Indices: 38032535--38033077 Score: 267
Period size: 44 Copynumber: 12.6 Consensus size: 43
38032525 GAGGATAAGA
* * * *
38032535 CTCCACTGCAACTTCAGGGAGATAAGACTAG-ATGTGA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTCTTAGTCTG
* * * * * * * * *
38032576 CT-CTCTGCAATTTTAGAGAAATAAGATCTAAGGTT-TTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCTTCTTAGTCTG
* * * *
38032619 CTCCACTGCAACTTCAAGGAGATAGGATTATCGGC-T-TTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-T--GCTTCTTAGTCTG
* * * *
38032663 CTCTACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTG-CTTCTT-AGTCTG
* ** *
38032708 CTTCACTGCAACTTCAGAAAGATAGGACTTGCTTGCTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTT-CTTAGTCTG
* * * * *
38032752 CTCCACTGCAACTTCAGGGAGATAAGACTAGATGC-GA-TATG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTCTTAGTCTG
* * ** * * *
38032793 CT-CTCTGCAACTTCAGAGAGATAAGATCCAAG-TTTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA--CTTGCTTCTTAGTCTG
* * * *
38032836 CTCTACTGCAACTTCAGGGAGATAGGATTATCAGC-TC-TAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACT-T--GCTTCTTAGTCTG
* * * *
38032880 CTCCACTGCAACTTTAGGGAGATAAGATTTTCCATCTTCAGTCT-
1 CTCCACTGCAACTTCAGGGAGATAAGA-CTTGCTTCTT-AGTCTG
* *
38032924 ATCTCACTGCAACTTCA-GGACGATAGGACTTGCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCTT-CTTAGTCTG
* * * *
38032969 CTCCACTGCAACTTCAGGGAGATAAGACTAG-ATGTGA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTCTTAGTCTG
* * * * *
38033010 CT-CTCTGCAACTTCAGAGAGATAAGATCTGTGGTT-TTAATCAG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCTTCTTAGTCTG
*
38033053 CTCCACTGCAACTTTAGGGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAA
38033078 TATCATTAGC
Statistics
Matches: 383, Mismatches: 84, Indels: 67
0.72 0.16 0.13
Matches are distributed among these distances:
40 63 0.16
41 19 0.05
42 16 0.04
43 24 0.06
44 194 0.51
45 67 0.17
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.29
Consensus pattern (43 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCTTCTTAGTCTG
Found at i:38032894 original size:417 final size:423
Alignment explanation
Indices: 38032116--38033076 Score: 1308
Period size: 417 Copynumber: 2.3 Consensus size: 423
38032106 TGCTGCAGTC
* * *
38032116 TACTCCACTGCAA-TGTCAGGGAGATAAGACTAGTTGCGATCTGCTCTTTGCAACTTCAGAGAGA
1 TACTCCACTGCAACT-TCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGAGAGA
* * * * *
38032180 TAAGATCCAAGATTTTAATCCACTGCACTGTAACTTTAGGGAGATAGGACTATCGGCTTTAACCT
65 TAAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGACTATCGGCTTTAACCT
* * *
38032245 GCTCCACTGCAACTTCAAGGAGATAAGGTTTGCCATCTTCAGTCTGCCCTACTACAACTTCAGGA
130 GCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTACCCTACTACAACTTCAGAA
* * *
38032310 GGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGATGCAATCT
195 AGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCAATAT
* * *
38032375 GTTCTCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCGTTCCACTACAACTTTAGGGAG
260 GCTCTCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCGCTCCACTACAACTTCAGGGAG
* * *
38032440 ATAGGATTATCGGATTTAACCTGCTCCACTACAACTTTAGAGAGATAAGGTTTGCCATCTTCAGT
325 ATAGGATTATCAGATCTAACCTGCTCCACTACAACTTTAGAGAGATAAGATTTGCCATCTTCAGT
*
38032505 CTGCCCCACTGCAACTTCA-G-G-AGGA-TA-AG
390 CTACCCCACTGCAACTTCAGGAGAAGGATTATAG
* * *
38032534 -ACTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAATTTTAGAGAAAT
1 TACTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGAGAGAT
* * * *
38032598 AAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTATCGGCTTTAATCTG
66 AAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGACTATCGGCTTTAACCTG
* * * *
38032663 CTCTACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTA-CTTCACTGCAACTTCAGAA
131 CTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTACCCT-ACTACAACTTCAGAA
* * *
38032727 AGATAGGACTTGCTTGCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATAT
195 AGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCAATAT
* * *
38032792 GCTCTCTGCAACTTCAGAGAGATAAGATCCAAGTTTTTAATCCGCTCTACTGCAACTTCAGGGAG
260 GCTCTCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCGCTCCACTACAACTTCAGGGAG
* * * * *
38032857 ATAGGATTATCAGCTCTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTTCCATCTTCAGT
325 ATAGGATTATCAGATCTAACCTGCTCCACTACAACTTTAGAGAGATAAGATTTGCCATCTTCAGT
* *
38032922 CTATCTCACTGCAACTTCAGGACGATAGGACTTGCTTACTTAG
390 CTACCCCACTGCAACTTCAGGA-GA-AGGA-----TTA--TAG
*
38032965 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGAGAG
1 --TACTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGAGAG
** *
38033030 ATAAGATCTGTGGTTTTAATCAGCTCCACTGCAACTTTAGGGAGATA
64 ATAAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTTAGGGAGATA
38033077 ATATCATTAG
Statistics
Matches: 470, Mismatches: 54, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
416 2 0.00
417 357 0.76
418 2 0.00
420 1 0.00
422 4 0.01
428 2 0.00
431 2 0.00
434 100 0.21
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (423 bp):
TACTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTCAGAGAGAT
AAGATCTAAGGTTTTAATCCGCTCCACTGCAACTTTAGGGAGATAGGACTATCGGCTTTAACCTG
CTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTACCCTACTACAACTTCAGAAA
GATAAGACTTGCTTACTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCAATATG
CTCTCTGCAACTTCAGAGAGATAAGATCCAAGATTTTAATCCGCTCCACTACAACTTCAGGGAGA
TAGGATTATCAGATCTAACCTGCTCCACTACAACTTTAGAGAGATAAGATTTGCCATCTTCAGTC
TACCCCACTGCAACTTCAGGAGAAGGATTATAG
Found at i:38046028 original size:28 final size:28
Alignment explanation
Indices: 38045984--38046038 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
38045974 TCGTAGCATA
* *
38045984 TAGATAACAACATATAATGAAATAACTG
1 TAGATAACAACAGATAAAGAAATAACTG
38046012 TAGATTAACAA-AGATAAAGAAATAACT
1 TAGA-TAACAACAGATAAAGAAATAACT
38046039 ATCAACCTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 18 0.75
29 6 0.25
ACGTcount: A:0.56, C:0.09, G:0.11, T:0.24
Consensus pattern (28 bp):
TAGATAACAACAGATAAAGAAATAACTG
Found at i:38046214 original size:5 final size:5
Alignment explanation
Indices: 38046204--38046230 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
38046194 AGAAATCTGC
38046204 TTGAT TTGAT TTGAT TTGAT TTGAT TT
1 TTGAT TTGAT TTGAT TTGAT TTGAT TT
38046231 TCTTTCCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.63
Consensus pattern (5 bp):
TTGAT
Found at i:38062536 original size:25 final size:24
Alignment explanation
Indices: 38062457--38062537 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 24
38062447 CAACTCTTAT
* * *
38062457 GAGCGTCCCGATATATGGCTCTCCA
1 GAGCTTCCC-ATATATGGCTATCTA
* * *
38062482 GAGCTTCCC-GATATGGCTAACTT
1 GAGCTTCCCATATATGGCTATCTA
* *
38062505 GAACTTCCCAATATATGGCTATCTG
1 GAGCTTCCC-ATATATGGCTATCTA
38062530 GAGCTTCC
1 GAGCTTCC
38062538 TGATTAATGG
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
23 17 0.40
25 26 0.60
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.28
Consensus pattern (24 bp):
GAGCTTCCCATATATGGCTATCTA
Found at i:38062580 original size:24 final size:25
Alignment explanation
Indices: 38062530--38062584 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
38062520 TGGCTATCTG
*
38062530 GAGCTTCCTGATTAATGGCTCGCAT
1 GAGCTTCCTAATTAATGGCTCGCAT
**
38062555 GAGCTTCCTAATT-ATGGCTCTTAT
1 GAGCTTCCTAATTAATGGCTCGCAT
38062579 GAGCTT
1 GAGCTT
38062585 TCTGTTATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 15 0.56
25 12 0.44
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (25 bp):
GAGCTTCCTAATTAATGGCTCGCAT
Found at i:38065864 original size:21 final size:20
Alignment explanation
Indices: 38065817--38065865 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
38065807 GAAAATAATT
*
38065817 TCTA-AAAAATAGATTGATT
1 TCTATAAAAATAGATTGATG
* *
38065836 TTTCTAAAAATAGATTAGATG
1 TCTATAAAAATAGATT-GATG
38065857 TCTATAAAA
1 TCTATAAAA
38065866 CATTTTTTGG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 2 0.09
20 11 0.48
21 10 0.43
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (20 bp):
TCTATAAAAATAGATTGATG
Found at i:38074823 original size:51 final size:52
Alignment explanation
Indices: 38074763--38074981 Score: 259
Period size: 51 Copynumber: 4.3 Consensus size: 52
38074753 TGGTGGTTTG
* *
38074763 CACATAGTACCACCCATGTGACCATTGTC-ATCCGATACACGTAGTAGCCTA
1 CACATAGTACTACACATGTGACCATTGTCTATCCGATACACGTAGTAGCCTA
* * * * * * *
38074814 CACATAGTACTACACACGTGATCA-AG-CTTTCCGGTTCACGTAGTAGCCTG
1 CACATAGTACTACACATGTGACCATTGTCTATCCGATACACGTAGTAGCCTA
** * *
38074864 CACATAGTACTACACATGTGACCAAGGTC-ATCCGGTACACATAGTAGCCTA
1 CACATAGTACTACACATGTGACCATTGTCTATCCGATACACGTAGTAGCCTA
* *
38074915 CACATAGTACTACACATGTGACCATTATCTAT-CGATACACGTAGTAGCCTG
1 CACATAGTACTACACATGTGACCATTGTCTATCCGATACACGTAGTAGCCTA
*
38074966 CACTTAGTACTACACA
1 CACATAGTACTACACA
38074982 CGTGTTCATA
Statistics
Matches: 141, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
49 1 0.01
50 41 0.29
51 96 0.68
52 3 0.02
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (52 bp):
CACATAGTACTACACATGTGACCATTGTCTATCCGATACACGTAGTAGCCTA
Found at i:38074929 original size:12 final size:13
Alignment explanation
Indices: 38074899--38074931 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
38074889 GGTCATCCGG
38074899 TACACATAGTAGCC
1 TACACATAGTA-CC
38074913 TACACATAGTA-C
1 TACACATAGTACC
38074925 TACACAT
1 TACACAT
38074932 GTGACCATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.42
14 11 0.58
ACGTcount: A:0.39, C:0.27, G:0.09, T:0.24
Consensus pattern (13 bp):
TACACATAGTACC
Found at i:38078510 original size:19 final size:19
Alignment explanation
Indices: 38078483--38078523 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
38078473 TTTGAAAATA
* *
38078483 AAAACAAAACAGTTAAAGG
1 AAAACAAAACAGATAAAAG
*
38078502 AAAAGAAAACAGATAAAAG
1 AAAACAAAACAGATAAAAG
38078521 AAA
1 AAA
38078524 GTAGGTTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.71, C:0.07, G:0.15, T:0.07
Consensus pattern (19 bp):
AAAACAAAACAGATAAAAG
Found at i:38078697 original size:27 final size:27
Alignment explanation
Indices: 38078659--38078716 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
38078649 GTTGTTAATT
38078659 TTTTTTACTAAATTTATTGATAGGATA
1 TTTTTTACTAAATTTATTGATAGGATA
* * *
38078686 TTTTTTATTAAATTTATTGGTATGATA
1 TTTTTTACTAAATTTATTGATAGGATA
38078713 TTTT
1 TTTT
38078717 GAAAAATAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.59
Consensus pattern (27 bp):
TTTTTTACTAAATTTATTGATAGGATA
Found at i:38084170 original size:22 final size:22
Alignment explanation
Indices: 38084142--38084186 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
38084132 GATTTATGGG
38084142 TAGGACAGCATTTTGAAAACTT
1 TAGGACAGCATTTTGAAAACTT
38084164 TAGGACAGCATTTTGAAAACTT
1 TAGGACAGCATTTTGAAAACTT
38084186 T
1 T
38084187 CTTTTTCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (22 bp):
TAGGACAGCATTTTGAAAACTT
Found at i:38087784 original size:2 final size:2
Alignment explanation
Indices: 38087777--38087826 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
38087767 ACAATGGTAC
* * *
38087777 CA CA CA CA CA CA CA CA TA CA CA TA CA CA TA 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 CA CA CA
38087819 CA CA CA CA
1 CA CA CA CA
38087827 TCCATCCATC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.44, G:0.00, T:0.06
Consensus pattern (2 bp):
CA
Found at i:38095494 original size:25 final size:25
Alignment explanation
Indices: 38095460--38095561 Score: 204
Period size: 25 Copynumber: 4.1 Consensus size: 25
38095450 ATCACAGTTG
38095460 ATCTCACCTGGTCATGGATGACATT
1 ATCTCACCTGGTCATGGATGACATT
38095485 ATCTCACCTGGTCATGGATGACATT
1 ATCTCACCTGGTCATGGATGACATT
38095510 ATCTCACCTGGTCATGGATGACATT
1 ATCTCACCTGGTCATGGATGACATT
38095535 ATCTCACCTGGTCATGGATGACATT
1 ATCTCACCTGGTCATGGATGACATT
38095560 AT
1 AT
38095562 TGTTATCCTA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 77 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.32
Consensus pattern (25 bp):
ATCTCACCTGGTCATGGATGACATT
Found at i:38096237 original size:10 final size:11
Alignment explanation
Indices: 38096217--38096241 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
38096207 TTCTTTCATC
38096217 AAAAATAAAAA
1 AAAAATAAAAA
38096228 AAAAATAAAAA
1 AAAAATAAAAA
38096239 AAA
1 AAA
38096242 TGAAGAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAATAAAAA
Found at i:38100161 original size:19 final size:20
Alignment explanation
Indices: 38100124--38100164 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
38100114 TACAACGCAA
*
38100124 TTCAATTTCATATTGAATAT
1 TTCAATTTCATATTCAATAT
*
38100144 TTCAATTT-TTATTCAATAT
1 TTCAATTTCATATTCAATAT
38100163 TT
1 TT
38100165 GCCTAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (20 bp):
TTCAATTTCATATTCAATAT
Found at i:38106789 original size:19 final size:20
Alignment explanation
Indices: 38106752--38106792 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
38106742 CACAACACAA
*
38106752 TTCAATTTCATATTGAATAT
1 TTCAATTTCATATTCAATAT
*
38106772 TTCAATTT-TTATTCAATAT
1 TTCAATTTCATATTCAATAT
38106791 TT
1 TT
38106793 GCCTAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (20 bp):
TTCAATTTCATATTCAATAT
Found at i:38109902 original size:16 final size:15
Alignment explanation
Indices: 38109871--38109910 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
38109861 AATATCAACC
*
38109871 AATTTTTTT-GATAT
1 AATTTTTTTATATAT
38109885 AATTTTCTTTATATAT
1 AATTTT-TTTATATAT
38109901 AATTTTTTTA
1 AATTTTTTTA
38109911 CAAATAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 6 0.26
15 7 0.30
16 10 0.43
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (15 bp):
AATTTTTTTATATAT
Found at i:38111864 original size:20 final size:21
Alignment explanation
Indices: 38111820--38111864 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
38111810 GAGATCATGC
38111820 AGATGTTTTGTTACTTCAATT
1 AGATGTTTTGTTACTTCAATT
*
38111841 AGATGTTTTGTTACTT-AGTT
1 AGATGTTTTGTTACTTCAATT
38111861 AGAT
1 AGAT
38111865 ATGAACTAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.24, C:0.07, G:0.18, T:0.51
Consensus pattern (21 bp):
AGATGTTTTGTTACTTCAATT
Found at i:38113062 original size:35 final size:35
Alignment explanation
Indices: 38113022--38113092 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
38113012 GAAGATATCC
*
38113022 ACCTTGCTCACATTGTAGAAGGCTTAGCGATCCAG
1 ACCTTGCTCACATTGTAGAAGACTTAGCGATCCAG
38113057 ACCTTGCTCACATTGTAGAAGACTTAGCGATCCAG
1 ACCTTGCTCACATTGTAGAAGACTTAGCGATCCAG
38113092 A
1 A
38113093 GGCAAATTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (35 bp):
ACCTTGCTCACATTGTAGAAGACTTAGCGATCCAG
Found at i:38114227 original size:21 final size:21
Alignment explanation
Indices: 38114201--38114250 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
38114191 AAGAATAGAA
38114201 GCTTGATGGATATGGCCAGAT
1 GCTTGATGGATATGGCCAGAT
*
38114222 GCTTGATGGATATGGCTAGAT
1 GCTTGATGGATATGGCCAGAT
*
38114243 GCTAGATG
1 GCTTGATG
38114251 TTTGAGAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.24, C:0.12, G:0.34, T:0.30
Consensus pattern (21 bp):
GCTTGATGGATATGGCCAGAT
Found at i:38118384 original size:13 final size:13
Alignment explanation
Indices: 38118366--38118408 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
38118356 CACAATTTTA
38118366 TTTTATTTTATTT
1 TTTTATTTTATTT
*
38118379 TTTTATATTTATAT
1 TTTTAT-TTTATTT
*
38118393 TTATATTTTATATT
1 TTTTATTTTAT-TT
38118407 TT
1 TT
38118409 CTTTATTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 11 0.44
14 14 0.56
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTATTTTATTT
Found at i:38118389 original size:6 final size:5
Alignment explanation
Indices: 38118360--38118417 Score: 57
Period size: 5 Copynumber: 11.0 Consensus size: 5
38118350 AGGCAACACA
38118360 ATTTT ATTTT ATTTT ATTTT -TTTAT ATTTAT ATTTAT ATTTT ATATTT
1 ATTTT ATTTT ATTTT ATTTT ATTT-T ATTT-T ATTT-T ATTTT AT-TTT
38118408 -TCTTT ATTTT
1 AT-TTT ATTTT
38118418 CTTACATATT
Statistics
Matches: 48, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
4 3 0.06
5 26 0.54
6 19 0.40
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (5 bp):
ATTTT
Found at i:38118401 original size:19 final size:19
Alignment explanation
Indices: 38118360--38118407 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
38118350 AGGCAACACA
38118360 ATTTTAT-TTTATTTTATT
1 ATTTTATATTTATTTTATT
*
38118378 TTTTTATATTTATATTTA-T
1 ATTTTATATTTAT-TTTATT
38118397 ATTTTATATTT
1 ATTTTATATTT
38118408 TCTTTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 6 0.23
19 16 0.62
20 4 0.15
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (19 bp):
ATTTTATATTTATTTTATT
Found at i:38120806 original size:20 final size:21
Alignment explanation
Indices: 38120771--38120809 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
38120761 CTTATCTTTA
*
38120771 CAATTTTAATTTCAATTAACG
1 CAATTTCAATTTCAATTAACG
38120792 CAATTTCAA-TTCAATTAA
1 CAATTTCAATTTCAATTAA
38120810 ACTTTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (21 bp):
CAATTTCAATTTCAATTAACG
Found at i:38121874 original size:24 final size:24
Alignment explanation
Indices: 38121847--38121897 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
38121837 GAAGATCTAT
38121847 GTTGAACAACCTGAAGGTTTCAAA
1 GTTGAACAACCTGAAGGTTTCAAA
38121871 GTTGAACAACCTGAAGGTTTCAAA
1 GTTGAACAACCTGAAGGTTTCAAA
38121895 GTT
1 GTT
38121898 CCTGGTGAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (24 bp):
GTTGAACAACCTGAAGGTTTCAAA
Found at i:38128055 original size:32 final size:32
Alignment explanation
Indices: 38127967--38128056 Score: 78
Period size: 32 Copynumber: 2.8 Consensus size: 32
38127957 ACAGCAATTT
*
38127967 TAGCAGAATTTATCCATTTAAAAAT-GATTAA
1 TAGCAGAATTTATCCAATTAAAAATGGATTAA
** * * *
38127998 TTTCTATAACTTA--CAAATAAGAAATGGATTAA
1 TAGC-AGAATTTATCCAATTAA-AAATGGATTAA
*
38128030 TAGCAGAATTTATCCACTTAAAAATGG
1 TAGCAGAATTTATCCAATTAAAAATGG
38128057 TTTATTTCGA
Statistics
Matches: 42, Mismatches: 12, Indels: 9
0.67 0.19 0.14
Matches are distributed among these distances:
30 5 0.12
31 12 0.29
32 20 0.48
33 5 0.12
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (32 bp):
TAGCAGAATTTATCCAATTAAAAATGGATTAA
Found at i:38132940 original size:19 final size:17
Alignment explanation
Indices: 38132916--38132959 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
38132906 CAATGCATCT
*
38132916 AATAATTATACATATTGCC
1 AATAATAATACA-ATT-CC
*
38132935 AATAATAATTCAATTCC
1 AATAATAATACAATTCC
38132952 AATAATAA
1 AATAATAA
38132960 AATACATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 10 0.43
18 3 0.13
19 10 0.43
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.34
Consensus pattern (17 bp):
AATAATAATACAATTCC
Found at i:38136981 original size:37 final size:37
Alignment explanation
Indices: 38136921--38137017 Score: 135
Period size: 37 Copynumber: 2.6 Consensus size: 37
38136911 GAGCTTCTGT
38136921 TCAGCTCTTATGAG-TTTTCGTTGGTGTGTTCAGGTGGA
1 TCAGCTC-TATGAGCTTTT-GTTGGTGTGTTCAGGTGGA
* *
38136959 TCAGCTCTATGAGCTTCTGTTGGTGTGTTCGGGTGGA
1 TCAGCTCTATGAGCTTTTGTTGGTGTGTTCAGGTGGA
38136996 -CTAGCTCTATGAGCTTTTGTTG
1 TC-AGCTCTATGAGCTTTTGTTG
38137018 ATGATGTACT
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
36 1 0.02
37 43 0.80
38 10 0.19
ACGTcount: A:0.12, C:0.15, G:0.31, T:0.41
Consensus pattern (37 bp):
TCAGCTCTATGAGCTTTTGTTGGTGTGTTCAGGTGGA
Found at i:38139068 original size:75 final size:75
Alignment explanation
Indices: 38138969--38139114 Score: 220
Period size: 75 Copynumber: 1.9 Consensus size: 75
38138959 TGGGTACACA
* * ** *
38138969 ATCGTCGGTTTATCCGACTAGCGCTGGGTGCAAACACCGTTGGTTCATCCAACTAGAGCTGGGCT
1 ATCGTCGGTATATCCGACTAGCGCTAGGCACAAACACCATTGGTTCATCCAACTAGAGCTGGGCT
38139034 CACTTTTATT
66 CACTTTTATT
** *
38139044 ATCGTCGGTATATCCGACTAGCGCTAGGCACAAACATTATTGGTTTATCCAACTAGAGCTGGGCT
1 ATCGTCGGTATATCCGACTAGCGCTAGGCACAAACACCATTGGTTCATCCAACTAGAGCTGGGCT
38139109 CACTTT
66 CACTTT
38139115 CAATATTTCC
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 63 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (75 bp):
ATCGTCGGTATATCCGACTAGCGCTAGGCACAAACACCATTGGTTCATCCAACTAGAGCTGGGCT
CACTTTTATT
Found at i:38139153 original size:75 final size:75
Alignment explanation
Indices: 38138969--38139153 Score: 203
Period size: 75 Copynumber: 2.5 Consensus size: 75
38138959 TGGGTACACA
* * * *
38138969 ATCGTCGGTTTATCCGACTAGCGCTGGGTGCAAACACCGTTGGTTCATCCAACTAGAGCTGGGCT
1 ATCGTCGGTATACCCGACTAGCGCTGGGCGCAAACACCATTGGTTCATCCAACTAGAGCTGGGCT
* *
38139034 CACTTTTATT
66 CACTTTCAAT
* * * ** *
38139044 ATCGTCGGTATATCCGACTAGCGCTAGGCACAAACATTATTGGTTTATCCAACTAGAGCTGGGCT
1 ATCGTCGGTATACCCGACTAGCGCTGGGCGCAAACACCATTGGTTCATCCAACTAGAGCTGGGCT
38139109 CACTTTCAAT
66 CACTTTCAAT
* * *
38139119 AT-TTCCAGT-TAACCCGACTAGCGTTGGGCGCAAAC
1 ATCGT-CGGTAT-ACCCGACTAGCGCTGGGCGCAAAC
38139154 TTCTCTGCAG
Statistics
Matches: 92, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
74 2 0.02
75 90 0.98
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (75 bp):
ATCGTCGGTATACCCGACTAGCGCTGGGCGCAAACACCATTGGTTCATCCAACTAGAGCTGGGCT
CACTTTCAAT
Found at i:38142763 original size:20 final size:20
Alignment explanation
Indices: 38142738--38142784 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
38142728 ATTATGTATT
38142738 TCCTCAT-ATATTTGGATACA
1 TCCTCATCAT-TTTGGATACA
**
38142758 TCCTCATCATTTTTTATACA
1 TCCTCATCATTTTGGATACA
38142778 TCCTCAT
1 TCCTCAT
38142785 TTTTTTTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 22 0.92
21 2 0.08
ACGTcount: A:0.26, C:0.26, G:0.04, T:0.45
Consensus pattern (20 bp):
TCCTCATCATTTTGGATACA
Found at i:38142790 original size:20 final size:20
Alignment explanation
Indices: 38142753--38142794 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
38142743 ATATATTTGG
38142753 ATACATCCTCATCATTTTTT
1 ATACATCCTCATCATTTTTT
*
38142773 ATACATCCTCAT-TTTTTTT
1 ATACATCCTCATCATTTTTT
38142792 ATA
1 ATA
38142795 TTTACTCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.52
Consensus pattern (20 bp):
ATACATCCTCATCATTTTTT
Found at i:38143155 original size:20 final size:20
Alignment explanation
Indices: 38143130--38143380 Score: 107
Period size: 20 Copynumber: 12.8 Consensus size: 20
38143120 TTTGATATTC
38143130 CCTCATAATTTTTTGTACTT
1 CCTCATAATTTTTTGTACTT
* *
38143150 CCTCAT-ATGTTTTGGTACAT
1 CCTCATAAT-TTTTTGTACTT
* * * *
38143170 CATCAT-TTTTTTTTTATTTTT
1 CCTCATAATTTTTTGTA--CTT
*
38143191 CCTCA-AATTTTATAGTA-TT
1 CCTCATAATTTT-TTGTACTT
*
38143210 CTCTCATAA-TTTTGGTACTT
1 C-CTCATAATTTTTTGTACTT
38143230 CCTCAT-ATTTTTTAGTA-TT
1 CCTCATAATTTTTT-GTACTT
*
38143249 CTCTCATAATTTTTTTGTACAT
1 C-CTCATAA-TTTTTTGTACTT
* * * *
38143271 CTTCATAATTTTTGGTGCAT
1 CCTCATAATTTTTTGTACTT
* * *
38143291 CCACAT--TTTTTGGTAATT
1 CCTCATAATTTTTTGTACTT
* *
38143309 CCT--T-TTTTTTTGTA-TC
1 CCTCATAATTTTTTGTACTT
* * *
38143325 CCTCGTAATTTTTAGTATTT
1 CCTCATAATTTTTTGTACTT
* *
38143345 GCTCATAATTTTTGGTACTT
1 CCTCATAATTTTTTGTACTT
* *
38143365 ACTCAT-TTTTTTTGTA
1 CCTCATAATTTTTTGTA
38143381 TTTTGTTGTA
Statistics
Matches: 176, Mismatches: 36, Indels: 39
0.70 0.14 0.16
Matches are distributed among these distances:
16 5 0.03
17 8 0.05
18 13 0.07
19 43 0.24
20 75 0.43
21 21 0.12
22 11 0.06
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.55
Consensus pattern (20 bp):
CCTCATAATTTTTTGTACTT
Found at i:38143236 original size:19 final size:19
Alignment explanation
Indices: 38143203--38143261 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
38143193 TCAAATTTTA
38143203 TAGTATTCTCTCATAATTT
1 TAGTATTCTCTCATAATTT
* *
38143222 TGGTACTTC-CTCATATTTTT
1 TAGTA-TTCTCTCATA-ATTT
38143242 TAGTATTCTCTCATAATTT
1 TAGTATTCTCTCATAATTT
38143261 T
1 T
38143262 TTTGTACATC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.22, C:0.17, G:0.07, T:0.54
Consensus pattern (19 bp):
TAGTATTCTCTCATAATTT
Found at i:38143283 original size:41 final size:39
Alignment explanation
Indices: 38143190--38143283 Score: 118
Period size: 39 Copynumber: 2.4 Consensus size: 39
38143180 TTTTTATTTT
*
38143190 TCCTCA-AATTTTATAGTATTCTCTCATAATTTTGGTACT
1 TCCTCATAATTTT-TAGTATTCTCTCATAATTTTGGTACA
* *
38143229 TCCTCATATTTTTTAGTATTCTCTCATAATTTTTTTGTACA
1 TCCTCATAATTTTTAGTATTCTCTCATAA--TTTTGGTACA
*
38143270 TCTTCATAATTTTT
1 TCCTCATAATTTTT
38143284 GGTGCATCCA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 22 0.47
40 5 0.11
41 20 0.43
ACGTcount: A:0.23, C:0.17, G:0.05, T:0.54
Consensus pattern (39 bp):
TCCTCATAATTTTTAGTATTCTCTCATAATTTTGGTACA
Found at i:38143430 original size:20 final size:20
Alignment explanation
Indices: 38143405--38143532 Score: 69
Period size: 20 Copynumber: 6.4 Consensus size: 20
38143395 TTTATACATC
38143405 TTTTGGTACTTCCTCATAAT
1 TTTTGGTACTTCCTCATAAT
* * ** **
38143425 TTTTGGTAATTCATTGTGTT
1 TTTTGGTACTTCCTCATAAT
* *
38143445 TTTTGGTATTTCCTCATAAA
1 TTTTGGTACTTCCTCATAAT
* * *
38143465 TTTTGATTCATT-CTCATAAG
1 TTTTGGTAC-TTCCTCATAAT
* * * * *
38143485 TTTTGGCAGTTCTTTATAAA
1 TTTTGGTACTTCCTCATAAT
* *
38143505 TTTTGGTACTTTCTTATAAT
1 TTTTGGTACTTCCTCATAAT
*
38143525 TCTTGGTA
1 TTTTGGTA
38143533 TCCTATCATA
Statistics
Matches: 76, Mismatches: 30, Indels: 4
0.69 0.27 0.04
Matches are distributed among these distances:
19 2 0.03
20 72 0.95
21 2 0.03
ACGTcount: A:0.21, C:0.12, G:0.13, T:0.53
Consensus pattern (20 bp):
TTTTGGTACTTCCTCATAAT
Found at i:38144321 original size:20 final size:20
Alignment explanation
Indices: 38144202--38144320 Score: 80
Period size: 20 Copynumber: 5.8 Consensus size: 20
38144192 AATTTTATTT
* *
38144202 TGAAAGCATACCAAAAATTA
1 TGAAAGAATAACAAAAATTA
*
38144222 TGAAA-AAAATACTAAAAATTA
1 TGAAAGAATA-AC-AAAAATTA
* * * *
38144243 TGAGAGATTACCAATAATTA
1 TGAAAGAATAACAAAAATTA
* * *
38144263 TGAAAGTATATCCAAAATTA
1 TGAAAGAATAACAAAAATTA
* *
38144283 TAAAAAAAAATAACAAAAATTA
1 T--GAAAGAATAACAAAAATTA
38144305 TGAAAGAATAA-AAAAA
1 TGAAAGAATAACAAAAA
38144321 AAAGGAATTT
Statistics
Matches: 73, Mismatches: 21, Indels: 11
0.70 0.20 0.10
Matches are distributed among these distances:
19 7 0.10
20 36 0.49
21 13 0.18
22 17 0.23
ACGTcount: A:0.61, C:0.08, G:0.08, T:0.23
Consensus pattern (20 bp):
TGAAAGAATAACAAAAATTA
Found at i:38149597 original size:22 final size:22
Alignment explanation
Indices: 38149563--38149605 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
38149553 TATACAAATA
*
38149563 ATATTACTCGAATAGTTATGAG
1 ATATTACTCGAATAATTATGAG
* *
38149585 ATATTAGTTGAATAATTATGA
1 ATATTACTCGAATAATTATGA
38149606 CCTCTATTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.05, G:0.16, T:0.40
Consensus pattern (22 bp):
ATATTACTCGAATAATTATGAG
Found at i:38156105 original size:6 final size:6
Alignment explanation
Indices: 38156096--38156185 Score: 53
Period size: 6 Copynumber: 15.3 Consensus size: 6
38156086 TAAGTTTAAG
* * * * *
38156096 AAAATA AAAA-A AAGCAATT AAAACA AAATTA AAAATA AAGATA AATATA
1 AAAATA AAAATA AA--AATA AAAATA AAAATA AAAATA AAAATA AAAATA
** * *
38156145 AAAAT- AAAATA AAACGA AAAA-A AATA-A AAAATA ATAATA AA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AA
38156186 CTCAATGATA
Statistics
Matches: 63, Mismatches: 16, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
5 16 0.25
6 43 0.68
7 2 0.03
8 2 0.03
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:38172623 original size:2 final size:2
Alignment explanation
Indices: 38172616--38172647 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
38172606 GGGGGAGGTT
*
38172616 TA TA TA TA GA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
38172648 GCGATAGAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:38172729 original size:2 final size:2
Alignment explanation
Indices: 38172716--38172746 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
38172706 GGGAGGTTTA
*
38172716 AT AT AG 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 A
38172747 GCGATAGAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:38172747 original size:99 final size:98
Alignment explanation
Indices: 38172608--38172804 Score: 369
Period size: 99 Copynumber: 2.0 Consensus size: 98
38172598 GCAGAAAAGG
38172608 GGGAGGTTTATATATAGATATATATATATATATATATATAGCGATAGAGGGAGTTCATATAAAAG
1 GGGAGGTTTATATATAGATATATATATATATATATATATAGCGATAGAGGGAGTTCATATAAAAG
38172673 AGAGATGGATGTTGATTAGGGTTATGAAGTGTT
66 AGAGATGGATGTTGATTAGGGTTATGAAGTGTT
38172706 GGGAGGTTTA-ATATAGATATATATATATATATATATATATAGCGATAGAGGGAGTTCATATAAA
1 GGGAGGTTTATATATAG--ATATATATATATATATATATATAGCGATAGAGGGAGTTCATATAAA
38172770 AGAGAGATGGATGTTGATTAGGGTTATGAAGTGTT
64 AGAGAGATGGATGTTGATTAGGGTTATGAAGTGTT
38172805 ATCAGTAAAC
Statistics
Matches: 97, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
97 6 0.06
98 10 0.10
99 81 0.84
ACGTcount: A:0.37, C:0.02, G:0.26, T:0.35
Consensus pattern (98 bp):
GGGAGGTTTATATATAGATATATATATATATATATATATAGCGATAGAGGGAGTTCATATAAAAG
AGAGATGGATGTTGATTAGGGTTATGAAGTGTT
Found at i:38175853 original size:20 final size:21
Alignment explanation
Indices: 38175816--38175856 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
38175806 TATGTAATCA
38175816 TTATTTTCATAATCTATATAT
1 TTATTTTCATAATCTATATAT
38175837 TTATTTT-ATAA-CTTATATAT
1 TTATTTTCATAATC-TATATAT
38175857 GTACATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.05
20 11 0.58
21 7 0.37
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (21 bp):
TTATTTTCATAATCTATATAT
Found at i:38177330 original size:30 final size:28
Alignment explanation
Indices: 38177249--38177368 Score: 89
Period size: 31 Copynumber: 4.0 Consensus size: 28
38177239 TTATTTAAAT
* *
38177249 ATATATAATTAAATCAAAATTAAAATTCA
1 ATATACAATTACATC-AAATTAAAATTCA
* *
38177278 AGTATACATTTGA-ACCACAATTAAAATTTCA
1 A-TATACAATT-ACATCA-AATTAAAA-TTCA
*
38177309 CATATATAATTACATCAAATTAAAATTCA
1 -ATATACAATTACATCAAATTAAAATTCA
* *
38177338 TATATACAAGTACACATTAAATTAAAATTCA
1 -ATATACAA-T-TACATCAAATTAAAATTCA
38177369 TGTATAATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 14
0.75 0.10 0.14
Matches are distributed among these distances:
29 13 0.18
30 27 0.37
31 32 0.44
32 1 0.01
ACGTcount: A:0.52, C:0.12, G:0.03, T:0.33
Consensus pattern (28 bp):
ATATACAATTACATCAAATTAAAATTCA
Found at i:38184046 original size:1 final size:1
Alignment explanation
Indices: 38184026--38184086 Score: 95
Period size: 1 Copynumber: 61.0 Consensus size: 1
38184016 TATTTGTCTC
* * *
38184026 TTTTTCTTTTCTTTTCTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
38184087 GTGGGGAAGG
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.00, C:0.05, G:0.00, T:0.95
Consensus pattern (1 bp):
T
Found at i:38193796 original size:27 final size:27
Alignment explanation
Indices: 38193753--38193816 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
38193743 TTTAGAAAAA
38193753 ATTAAATAATTTAAAAAT-ATGAAAGTC
1 ATTAAA-AATTTAAAAATGATGAAAGTC
* *
38193780 ATTAAAAATTTAAAAAATGATTAAAGTT
1 ATTAAAAATTT-AAAAATGATGAAAGTC
38193808 A-TAAAAATT
1 ATTAAAAATT
38193817 ATAATAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 5 0.15
27 20 0.61
28 8 0.24
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.34
Consensus pattern (27 bp):
ATTAAAAATTTAAAAATGATGAAAGTC
Found at i:38194066 original size:26 final size:27
Alignment explanation
Indices: 38194031--38194083 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
38194021 AAACGTATAA
*
38194031 AAATTATTAT-ACTTTTTAC-ATTTTTT
1 AAATTATTATGA-TTTTCACAATTTTTT
*
38194057 AAATTCTTATGATTTTCACAATTTTTT
1 AAATTATTATGATTTTCACAATTTTTT
38194084 TATATAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.58
Consensus pattern (27 bp):
AAATTATTATGATTTTCACAATTTTTT
Found at i:38194159 original size:15 final size:16
Alignment explanation
Indices: 38194139--38194168 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
38194129 TTTTCAAAAA
38194139 ATTTTAC-ATTTTTAT
1 ATTTTACAATTTTTAT
38194154 ATTTTACAATTTTTA
1 ATTTTACAATTTTTA
38194169 ATAATTTTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTTTACAATTTTTAT
Found at i:38194769 original size:15 final size:16
Alignment explanation
Indices: 38194749--38194778 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38194739 AAGTATAATA
38194749 AAATAT-TTAAAAAAT
1 AAATATCTTAAAAAAT
38194764 AAATATCTTAAAAAA
1 AAATATCTTAAAAAA
38194779 ATAGACACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATATCTTAAAAAAT
Found at i:38194997 original size:15 final size:16
Alignment explanation
Indices: 38194977--38195006 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38194967 AAGTATAATA
38194977 AAATAT-TTAAAAAAT
1 AAATATCTTAAAAAAT
38194992 AAATATCTTAAAAAA
1 AAATATCTTAAAAAA
38195007 ATAGACACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (16 bp):
AAATATCTTAAAAAAT
Found at i:38195110 original size:228 final size:229
Alignment explanation
Indices: 38194702--38195158 Score: 907
Period size: 228 Copynumber: 2.0 Consensus size: 229
38194692 TTTTAGACTT
38194702 CACAAGTAGCATTAGAGAGTTTACAAGTGTCCTATAAAAGTATAATAAAATATTTAAAAAATAAA
1 CACAAGTAGCATTAGAGAGTTTACAAGTGTCCTATAAAAGTATAATAAAATATTTAAAAAATAAA
38194767 TATCTTAAAAAAATAGACACATGTCAATTTTTAAAACTGTTATGGAATAAAAAAAATACATTGTA
66 TATCTTAAAAAAATAGACACATGTCAATTTTTAAAACTGTTATGGAATAAAAAAAATACATTGTA
38194832 AGTATACCAAATACTACCCTATACATATAAGATATTCCACAAGTATAGATTAAATGATGATAAAC
131 AGTATACCAAATACTACCCTATACATATAAGATATTCCACAAGTATAGATTAAATGATGATAAAC
38194897 TTCCATTAGCTTATATTTAAAATTTTACAAGTAA
196 TTCCATTAGCTTATATTTAAAATTTTACAAGTAA
38194931 CACAAGTAGC-TTAGAGAGTTTACAAGTGTCCTATAAAAGTATAATAAAATATTTAAAAAATAAA
1 CACAAGTAGCATTAGAGAGTTTACAAGTGTCCTATAAAAGTATAATAAAATATTTAAAAAATAAA
38194995 TATCTTAAAAAAATAGACACATGTCAATTTTTAAAACTGTTATGGAATAAAAAAAATACATTGTA
66 TATCTTAAAAAAATAGACACATGTCAATTTTTAAAACTGTTATGGAATAAAAAAAATACATTGTA
38195060 AGTATACCAAATACTACCCTATACATATAAGATATTCCACAAGTATAGATTAAATGATGATAAAC
131 AGTATACCAAATACTACCCTATACATATAAGATATTCCACAAGTATAGATTAAATGATGATAAAC
38195125 TTCCATTAGCTTATATTTAAAATTTTACAAGTAA
196 TTCCATTAGCTTATATTTAAAATTTTACAAGTAA
38195159 ATGATGGTCA
Statistics
Matches: 228, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
228 218 0.96
229 10 0.04
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.32
Consensus pattern (229 bp):
CACAAGTAGCATTAGAGAGTTTACAAGTGTCCTATAAAAGTATAATAAAATATTTAAAAAATAAA
TATCTTAAAAAAATAGACACATGTCAATTTTTAAAACTGTTATGGAATAAAAAAAATACATTGTA
AGTATACCAAATACTACCCTATACATATAAGATATTCCACAAGTATAGATTAAATGATGATAAAC
TTCCATTAGCTTATATTTAAAATTTTACAAGTAA
Found at i:38200999 original size:22 final size:21
Alignment explanation
Indices: 38200973--38201050 Score: 75
Period size: 22 Copynumber: 3.6 Consensus size: 21
38200963 ATATCTAAAC
*
38200973 AATAACAACAAAATAGTAGCA
1 AATAACAACAAAATAGTAACA
* *
38200994 ATATAATAGCAAAATAGTAACAA
1 A-ATAACAACAAAATAGTAAC-A
* * * *
38201017 AATATCATCAAAATGGCAACA
1 AATAACAACAAAATAGTAACA
38201038 AATAACAACAAAA
1 AATAACAACAAAA
38201051 CAACAGTAAC
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
21 13 0.29
22 30 0.67
23 2 0.04
ACGTcount: A:0.62, C:0.14, G:0.08, T:0.17
Consensus pattern (21 bp):
AATAACAACAAAATAGTAACA
Found at i:38201495 original size:13 final size:13
Alignment explanation
Indices: 38201456--38201508 Score: 72
Period size: 13 Copynumber: 4.1 Consensus size: 13
38201446 AGTTCTTCAT
38201456 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
38201469 TGC-TGTGTAAAAG
1 TGCTTTTG-AAAAG
*
38201482 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
38201495 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
38201508 T
1 T
38201509 TTGGTTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
12 3 0.09
13 28 0.82
14 3 0.09
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:38206118 original size:20 final size:20
Alignment explanation
Indices: 38206093--38206132 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
38206083 CAACCAATTA
38206093 TTTT-AAATTAAATATTTAAT
1 TTTTAAAATTAAA-ATTTAAT
38206113 TTTTAAAATTAAAATTTAAT
1 TTTTAAAATTAAAATTTAAT
38206133 CGAAACTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTTAAAATTAAAATTTAAT
Found at i:38207838 original size:32 final size:31
Alignment explanation
Indices: 38207798--38207899 Score: 134
Period size: 32 Copynumber: 3.2 Consensus size: 31
38207788 GTTAAATTTT
* *
38207798 TAATCAATCCTAATTTCTTCAAGGGTTTGTAT
1 TAATCAATCCCAATTT-TTCAAGGGTTTGTAC
*
38207830 TAATCAATCCCAATTTTTTCAAGGATTTGTAC
1 TAATCAATCCCAA-TTTTTCAAGGGTTTGTAC
*
38207862 TAATCAATCCCAATATTTTCAA-GGATTGTAC
1 TAATCAATCCCAAT-TTTTCAAGGGTTTGTAC
38207893 TAATCAA
1 TAATCAA
38207900 CATCTAAAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
31 15 0.24
32 45 0.71
33 3 0.05
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.39
Consensus pattern (31 bp):
TAATCAATCCCAATTTTTCAAGGGTTTGTAC
Found at i:38208643 original size:68 final size:68
Alignment explanation
Indices: 38208534--38208671 Score: 186
Period size: 68 Copynumber: 2.0 Consensus size: 68
38208524 TTTTGCTACT
* **** * *
38208534 TTAAAATTGAAATCAACTGCATGAGAAAGTTGCGATCTTAAATTGGCAACTGCAAGATTTTGGAA
1 TTAAAATTGAAATCAACTGCATGAGAAAATTGCGATCTTAAACCAACAACTGCAAGATTCTAGAA
38208599 ATC
66 ATC
* * *
38208602 TTAAAGTTGAAATCAATTGCATGAGAAAATTGTGATCTTAAACCAACAACTGCAAGATTCTAGAA
1 TTAAAATTGAAATCAACTGCATGAGAAAATTGCGATCTTAAACCAACAACTGCAAGATTCTAGAA
38208667 ATC
66 ATC
38208670 TT
1 TT
38208672 GTAAGTATAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
68 60 1.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.30
Consensus pattern (68 bp):
TTAAAATTGAAATCAACTGCATGAGAAAATTGCGATCTTAAACCAACAACTGCAAGATTCTAGAA
ATC
Found at i:38208711 original size:54 final size:54
Alignment explanation
Indices: 38208653--38209596 Score: 803
Period size: 54 Copynumber: 17.5 Consensus size: 54
38208643 ACCAACAACT
* * * **
38208653 GCAAGATTCTAGAAATCTTGTAAGTATAAGGCTGAGATCTTAAATCGATGAGCC
1 GCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCGGCGAGCC
** * * ** * ***
38208707 GCAAGATTCAAAAAATCTTGTAAGTATAAGATTGTGGTCTTAAATATGCAAATT
1 GCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCGGCGAGCC
** * ** * *
38208761 GCAAGATTCGGAAAATCCTACAAGTATAAGGCTGCGATCTTAAATTGGTGAGCC
1 GCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCGGCGAGCC
* * * * * * * *
38208815 GCAAGATTTAGAAAATATTGTAAGTATAAGGTTGCGATATTAAATTGGCCAACC
1 GCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCGGCGAGCC
* * * *
38208869 GCAAGATTCAGAAAATCTTATAAGTATAAGGTTGCGATCTTAAATCGGCGAGCT
1 GCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCGGCGAGCC
* * * * * * *
38208923 GCAAGATTCAAAAAGTCTTGTAAGTATAAGGTTGCAATCTTAAATCGACAAACT
1 GCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCGGCGAGCC
** * * * ** * * **
38208977 GCAAGATTTGAAAAATCCTATAAGTATAAGGGTTTGATCCTAAATCGGCAAGTT
1 GCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCGGCGAGCC
** * * * * *
38209031 GCAAGATTCAAAAAATCTTGTAAGTATAAGTTTGAGATCCTAAATTGGCCAACC
1 GCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCGGCGAGCC
* * * *
38209085 ACAAGATTCAAAAAATCTTATAAGTATAAGGCTGCAATATTAAATCGGCGAGCC
1 GCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCGGCGAGCC
** ** * *
38209139 ATAAGATTTGAAAAATCTTGTAAGTATAAGACTGCAATCTTAAATCGGCGAGCC
1 GCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCGGCGAGCC
* * *
38209193 GCAAGATTCGAAAAATCTTGTAAGTATAAGGCTGCGATTTTAAATCGACGAGCC
1 GCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCGGCGAGCC
* * * * * **
38209247 -CTAAGATTCAAAAAATCGTGTAAGTACAA-GCATGTGATCTAAAATCGGTGAGTT
1 GC-AAGATTCAAAAAATCTTGTAAGTATAAGGC-TGCGATCTTAAATCGGCGAGCC
* * * * ** * *
38209301 GCAAGAGTCGAAAAATCCTGTAAGTATAAGGCTGCGATATTAAATTAGTGAGTC
1 GCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCGGCGAGCC
* * * * * * *
38209355 GCAAGATTCGAAAAATCTTGTAAGTATAAGGTTGCGATTTTAAATCGACCAACT
1 GCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCGGCGAGCC
* * * *
38209409 GCAACATTCAAAAAATCTTATAAGTATAAGGCTGTGATCTTAAATCGGTGAGCC
1 GCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCGGCGAGCC
* * * * * * * * *
38209463 ACAAGATTCGAAAAATCTTGTAAGTACAAGGTTGTGATATTAAATTGACGAGCT
1 GCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCGGCGAGCC
* * *** * * *
38209517 GCAAGATTCGAAAAATCTTGTAAGTATAAGGTTATAATCTTAAATCGGCAAACT
1 GCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCGGCGAGCC
* *
38209571 GCAAGATTCGAAAAATCCTGTAAGTA
1 GCAAGATTCAAAAAATCTTGTAAGTA
38209597 GTAAATTGAG
Statistics
Matches: 716, Mismatches: 170, Indels: 8
0.80 0.19 0.01
Matches are distributed among these distances:
53 3 0.00
54 710 0.99
55 3 0.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (54 bp):
GCAAGATTCAAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCGGCGAGCC
Found at i:38208800 original size:108 final size:107
Alignment explanation
Indices: 38208648--38209596 Score: 885
Period size: 108 Copynumber: 8.8 Consensus size: 107
38208638 CTTAAACCAA
* * * * **
38208648 CAACTGCAAGATTCTAGAAATCTTGTAAGTATAAGGCTGAGATCTTAAATCGATGAGCCGCAAGA
1 CAACTGCAAGATTCGAAAAATCTTATAAGTATAAGGCTGCGATCTTAAATCGGCGAGCCGCAAGA
* * *
38208713 TTCAAAAAATCTTGTAAGTATAAGATTGTGGTCTTAAATATGC
66 TTCAAAAAATCTTGTAAGTATAAGGTTGCGATCTTAAAT-TGC
* * * * * * *
38208756 AAATTGCAAGATTCGGAAAATCCTACAAGTATAAGGCTGCGATCTTAAATTGGTGAGCCGCAAGA
1 CAACTGCAAGATTCGAAAAATCTTATAAGTATAAGGCTGCGATCTTAAATCGGCGAGCCGCAAGA
* * * *
38208821 TTTAGAAAATATTGTAAGTATAAGGTTGCGATATTAAATTGGC
66 TTCAAAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATT-GC
* * *
38208864 CAACCGCAAGATTC-AGAAAATCTTATAAGTATAAGGTTGCGATCTTAAATCGGCGAGCTGCAAG
1 CAACTGCAAGATTCGA-AAAATCTTATAAGTATAAGGCTGCGATCTTAAATCGGCGAGCCGCAAG
* * *
38208928 ATTCAAAAAGTCTTGTAAGTATAAGGTTGCAATCTTAAATCGAC
65 ATTCAAAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATTG-C
* * * * ** * * **
38208972 AAACTGCAAGATTTGAAAAATCCTATAAGTATAAGGGTTTGATCCTAAATCGGCAAGTTGCAAGA
1 CAACTGCAAGATTCGAAAAATCTTATAAGTATAAGGCTGCGATCTTAAATCGGCGAGCCGCAAGA
* * *
38209037 TTCAAAAAATCTTGTAAGTATAAGTTTGAGATCCTAAATTGGC
66 TTCAAAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATT-GC
** * * * **
38209080 CAACCACAAGATTCAAAAAATCTTATAAGTATAAGGCTGCAATATTAAATCGGCGAGCCATAAGA
1 CAACTGCAAGATTCGAAAAATCTTATAAGTATAAGGCTGCGATCTTAAATCGGCGAGCCGCAAGA
** ** * *
38209145 TTTGAAAAATCTTGTAAGTATAAGACTGCAATCTTAAATCGGC
66 TTCAAAAAATCTTGTAAGTATAAGGTTGCGATCTTAAAT-TGC
* * * * * *
38209188 GAGCCGCAAGATTCGAAAAATCTTGTAAGTATAAGGCTGCGATTTTAAATCGACGAGCC-CTAAG
1 CAACTGCAAGATTCGAAAAATCTTATAAGTATAAGGCTGCGATCTTAAATCGGCGAGCCGC-AAG
* * ** * * * *
38209252 ATTCAAAAAATCGTGTAAGTACAAGCATGTGATCTAAAATCGGT
65 ATTCAAAAAATCTTGTAAGTATAAGGTTGCGATCTTAAAT-TGC
* ** * * * * ** * *
38209296 GAGTTGCAAGAGTCGAAAAATCCTGTAAGTATAAGGCTGCGATATTAAATTAGTGAGTCGCAAGA
1 CAACTGCAAGATTCGAAAAATCTTATAAGTATAAGGCTGCGATCTTAAATCGGCGAGCCGCAAGA
* * *
38209361 TTCGAAAAATCTTGTAAGTATAAGGTTGCGATTTTAAATCGAC
66 TTCAAAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATTG-C
* * * * *
38209404 CAACTGCAACATTCAAAAAATCTTATAAGTATAAGGCTGTGATCTTAAATCGGTGAGCCACAAGA
1 CAACTGCAAGATTCGAAAAATCTTATAAGTATAAGGCTGCGATCTTAAATCGGCGAGCCGCAAGA
* * * *
38209469 TTCGAAAAATCTTGTAAGTACAAGGTTGTGATATTAAATTGAC
66 TTCAAAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATTG-C
* * * * *** * * *
38209512 GAGCTGCAAGATTCGAAAAATCTTGTAAGTATAAGGTTATAATCTTAAATCGGCAAACTGCAAGA
1 CAACTGCAAGATTCGAAAAATCTTATAAGTATAAGGCTGCGATCTTAAATCGGCGAGCCGCAAGA
* *
38209577 TTCGAAAAATCCTGTAAGTA
66 TTCAAAAAATCTTGTAAGTA
38209597 GTAAATTGAG
Statistics
Matches: 685, Mismatches: 147, Indels: 18
0.81 0.17 0.02
Matches are distributed among these distances:
107 3 0.00
108 679 0.99
109 3 0.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (107 bp):
CAACTGCAAGATTCGAAAAATCTTATAAGTATAAGGCTGCGATCTTAAATCGGCGAGCCGCAAGA
TTCAAAAAATCTTGTAAGTATAAGGTTGCGATCTTAAATTGC
Found at i:38211462 original size:16 final size:16
Alignment explanation
Indices: 38211441--38211482 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
38211431 GAGTTGGGGA
38211441 AGTGGCGAGCAAGAGG
1 AGTGGCGAGCAAGAGG
* *
38211457 AGTGGCGAGCTAGCGG
1 AGTGGCGAGCAAGAGG
*
38211473 AGTAGCGAGC
1 AGTGGCGAGC
38211483 CAGATGATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.48, T:0.10
Consensus pattern (16 bp):
AGTGGCGAGCAAGAGG
Found at i:38212764 original size:24 final size:26
Alignment explanation
Indices: 38212720--38212769 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
38212710 ATAATAGATC
38212720 CAAATATTGAAAATGCATGAA-AATAA
1 CAAATATT-AAAATGCATGAACAATAA
*
38212746 CAAATATT-AAATGCTTGAACAATA
1 CAAATATTAAAATGCATGAACAATA
38212770 TTGCAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 10 0.45
25 4 0.18
26 8 0.36
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.26
Consensus pattern (26 bp):
CAAATATTAAAATGCATGAACAATAA
Found at i:38212815 original size:16 final size:16
Alignment explanation
Indices: 38212788--38212828 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 16
38212778 ATAATGGTTA
38212788 AAATAAATAAGA-GAAT
1 AAATAAA-AAGACGAAT
38212804 CAAATAAAAAGACGAAT
1 -AAATAAAAAGACGAAT
38212821 AAATAAAA
1 AAATAAAA
38212829 CCTATGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.71, C:0.05, G:0.10, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGACGAAT
Found at i:38214515 original size:44 final size:44
Alignment explanation
Indices: 38214416--38214505 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
38214406 CACATCTTTG
* *
38214416 ATCTGCTCCACTACTGCTTAGGGGAATAGAATCGGCAATCTTCA
1 ATCTACTCCACTACTGCTTAGGGGAATAGAATCGACAATCTTCA
* * * *
38214460 ATCTACTCCACTACTGCTTAGGGGGATAGGATCTATAATCTTCA
1 ATCTACTCCACTACTGCTTAGGGGAATAGAATCGACAATCTTCA
38214504 AT
1 AT
38214506 TCATTCCACT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (44 bp):
ATCTACTCCACTACTGCTTAGGGGAATAGAATCGACAATCTTCA
Found at i:38214825 original size:88 final size:88
Alignment explanation
Indices: 38214722--38215030 Score: 429
Period size: 88 Copynumber: 3.5 Consensus size: 88
38214712 ACTAGCTTCA
* * * * *
38214722 ATCTGCTCCGATGTCAATGCGGGAAGGTAAGATCTGTTATCTTCAACCAGCTCCACTACAACCGA
1 ATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCGA
38214787 GAGAGGCAAGGTTTGTGTCTTTG
66 GAGAGGCAAGGTTTGTGTCTTTG
* * * * **
38214810 ATCTGCTTCGCTGTCAAGGCATGAAGGTAAGATCTATTGTCTTTGACCAGCTCCACTACAACCGA
1 ATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCGA
* * *
38214875 GAAAGGTAAGGTTTGTGTCTTCG
66 GAGAGGCAAGGTTTGTGTCTTTG
* *
38214898 ATCTGCTTCGCTGTCAATGCAGGAAGGCAATATCTGTTGTCTTCAACCAGCTCCACTACAACAGA
1 ATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCGA
*
38214963 GAGAGGCAAGGTTTGTGTTTTTG
66 GAGAGGCAAGGTTTGTGTCTTTG
* * * *
38214986 ATTTGCTTCCCTGTCAATGTATGAAGGCAAGATCTGTTGTCTTCA
1 ATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCA
38215031 TTGATCTGTT
Statistics
Matches: 192, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
88 192 1.00
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.30
Consensus pattern (88 bp):
ATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCGA
GAGAGGCAAGGTTTGTGTCTTTG
Found at i:38216293 original size:14 final size:14
Alignment explanation
Indices: 38216274--38216306 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
38216264 AGCCTCTCCA
*
38216274 TTTTTCATTTTCAT
1 TTTTTCACTTTCAT
38216288 TTTTTCACTTTCAT
1 TTTTTCACTTTCAT
38216302 TTTTT
1 TTTTT
38216307 TGACTCAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.73
Consensus pattern (14 bp):
TTTTTCACTTTCAT
Found at i:38217229 original size:17 final size:18
Alignment explanation
Indices: 38217177--38217240 Score: 60
Period size: 18 Copynumber: 3.4 Consensus size: 18
38217167 TTTCTCCTCT
*
38217177 TTTTTATTTTTATTTTT-A
1 TTTTT-TTTTGATTTTTGA
38217195 TTTTTTGACTTTGA-TTTTGA
1 TTTTTT---TTTGATTTTTGA
*
38217215 TTTTTTTTTGCTTTTTGA
1 TTTTTTTTTGATTTTTGA
38217233 TTTTTTTT
1 TTTTTTTT
38217241 GTTGAATCTG
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
17 5 0.13
18 19 0.49
19 4 0.10
20 11 0.28
ACGTcount: A:0.11, C:0.03, G:0.08, T:0.78
Consensus pattern (18 bp):
TTTTTTTTTGATTTTTGA
Found at i:38218040 original size:25 final size:24
Alignment explanation
Indices: 38217990--38218055 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 24
38217980 AAGAAAATCC
*
38217990 AAAAGAATGAAAGAAAAATTATTCA
1 AAAAGAATGAAAG-AAAATTACTCA
* *
38218015 AAAAGAATGAAAGAATATTGGCTCA
1 AAAAGAATGAAAGAAAATT-ACTCA
38218040 AAAATGAATGCAAAGA
1 AAAA-GAATG-AAAGA
38218056 TGTATTTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.14
25 20 0.57
26 5 0.14
27 5 0.14
ACGTcount: A:0.59, C:0.06, G:0.17, T:0.18
Consensus pattern (24 bp):
AAAAGAATGAAAGAAAATTACTCA
Found at i:38221458 original size:24 final size:26
Alignment explanation
Indices: 38221414--38221463 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
38221404 ATAATAGATC
38221414 CAAATATTGAAAATGCATGAA-AATAA
1 CAAATATT-AAAATGCATGAACAATAA
*
38221440 CAAATATT-AAATGCTTGAACAATA
1 CAAATATTAAAATGCATGAACAATA
38221464 TTGCAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 10 0.45
25 4 0.18
26 8 0.36
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.26
Consensus pattern (26 bp):
CAAATATTAAAATGCATGAACAATAA
Found at i:38221509 original size:16 final size:16
Alignment explanation
Indices: 38221482--38221522 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 16
38221472 ATAATGGTTA
38221482 AAATAAATAAGA-GAAT
1 AAATAAA-AAGATGAAT
38221498 CAAATAAAAAGATGAAT
1 -AAATAAAAAGATGAAT
38221515 AAATAAAA
1 AAATAAAA
38221523 CCTATGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.17
Consensus pattern (16 bp):
AAATAAAAAGATGAAT
Found at i:38231851 original size:24 final size:26
Alignment explanation
Indices: 38231807--38231856 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 26
38231797 ATAATAGATC
38231807 CAAATATTGAAAATGCATGAA-AATAA
1 CAAATATT-AAAATGCATGAACAATAA
*
38231833 CAAATATT-AAATGCTTGAACAATA
1 CAAATATTAAAATGCATGAACAATA
38231857 TTGCAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 10 0.45
25 4 0.18
26 8 0.36
ACGTcount: A:0.54, C:0.10, G:0.10, T:0.26
Consensus pattern (26 bp):
CAAATATTAAAATGCATGAACAATAA
Found at i:38231902 original size:16 final size:16
Alignment explanation
Indices: 38231875--38231915 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 16
38231865 ATAATGGTTA
38231875 AAATAAATAAGA-GAAT
1 AAATAAA-AAGACGAAT
38231891 CAAATAAAAAGACGAAT
1 -AAATAAAAAGACGAAT
38231908 AAATAAAA
1 AAATAAAA
38231916 CCTATGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.71, C:0.05, G:0.10, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGACGAAT
Found at i:38232761 original size:9 final size:9
Alignment explanation
Indices: 38232749--38232774 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
38232739 TTTAATATAC
38232749 AAAATAAAT
1 AAAATAAAT
38232758 AAAATAAAT
1 AAAATAAAT
38232767 AAAATAAA
1 AAAATAAA
38232775 AAGGAAATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAAATAAAT
Found at i:38239930 original size:12 final size:12
Alignment explanation
Indices: 38239899--38239935 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
38239889 TGTGTGGAAT
*
38239899 AATAGTAATCAA
1 AATAGTTATCAA
38239911 AATA-TTATCAA
1 AATAGTTATCAA
38239922 AATAGTTAT-AA
1 AATAGTTATCAA
38239933 AAT
1 AAT
38239936 TGAGTTGCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 15 0.65
12 8 0.35
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.32
Consensus pattern (12 bp):
AATAGTTATCAA
Found at i:38243612 original size:25 final size:25
Alignment explanation
Indices: 38243584--38243633 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
38243574 AACTTTTTAT
* * * *
38243584 ATATATATTTTTAATTTTTTTTAAA
1 ATATAAATTTTGAAATTTTTATAAA
38243609 ATATAAATTTTGAAATTTTTATAAA
1 ATATAAATTTTGAAATTTTTATAAA
38243634 TATTTTAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (25 bp):
ATATAAATTTTGAAATTTTTATAAA
Found at i:38257939 original size:40 final size:40
Alignment explanation
Indices: 38257895--38258051 Score: 118
Period size: 42 Copynumber: 3.9 Consensus size: 40
38257885 TGTTAGGGTT
* *
38257895 TGAATCAAGTT-AAAAAACAAAGAATTGATTCAAACAATAA
1 TGAATCAA-TTCAAAAAACAAACAATCGATTCAAACAATAA
* * *
38257935 TGAATCAATTCAAACAATAAACAATCGATTCAAACAACAAA
1 TGAATCAATTCAAAAAACAAACAATCGATTCAAACAA-TAA
* * * ** * *
38257976 AGAATCGAGTCAATTAACGAAACAATTGATTCAAAGAAGTAA
1 TGAATCAATTCAAAAAAC-AAACAATCGATTCAAACAA-TAA
* ** * *
38258018 AGAATTGATTTAAACAACAAACAATCGATTCAAA
1 TGAATCAATTCAAAAAACAAACAATCGATTCAAA
38258052 GTGGCTACAA
Statistics
Matches: 93, Mismatches: 21, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
39 2 0.02
40 30 0.32
41 29 0.31
42 32 0.34
ACGTcount: A:0.54, C:0.14, G:0.10, T:0.22
Consensus pattern (40 bp):
TGAATCAATTCAAAAAACAAACAATCGATTCAAACAATAA
Found at i:38257983 original size:21 final size:21
Alignment explanation
Indices: 38257913--38258051 Score: 113
Period size: 20 Copynumber: 6.8 Consensus size: 21
38257903 GTTAAAAAAC
*
38257913 AAAGAATTGATTCAAACAA-T
1 AAAGAATCGATTCAAACAACT
* *
38257933 AATGAATCAATTCAAACAA-T
1 AAAGAATCGATTCAAACAACT
* *
38257953 AAACAATCGATTCAAACAACA
1 AAAGAATCGATTCAAACAACT
* ** *
38257974 AAAGAATCGAGTCAATTAACG
1 AAAGAATCGATTCAAACAACT
* * * *
38257995 AAACAATTGATTCAAAGAAGT
1 AAAGAATCGATTCAAACAACT
* *
38258016 AAAGAATTGATTTAAACAAC-
1 AAAGAATCGATTCAAACAACT
*
38258036 AAACAATCGATTCAAA
1 AAAGAATCGATTCAAA
38258052 GTGGCTACAA
Statistics
Matches: 92, Mismatches: 26, Indels: 2
0.77 0.22 0.02
Matches are distributed among these distances:
20 46 0.50
21 46 0.50
ACGTcount: A:0.54, C:0.14, G:0.10, T:0.22
Consensus pattern (21 bp):
AAAGAATCGATTCAAACAACT
Found at i:38262081 original size:20 final size:20
Alignment explanation
Indices: 38262058--38262106 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
38262048 CAAAGAATTA
** *
38262058 ATTCAAACAATAATGACTCG
1 ATTCAAACAATAAACAATCG
38262078 ATTCAAACAATAAACAATCG
1 ATTCAAACAATAAACAATCG
38262098 ATTCAAACA
1 ATTCAAACA
38262107 GCAAAGGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.51, C:0.20, G:0.06, T:0.22
Consensus pattern (20 bp):
ATTCAAACAATAAACAATCG
Found at i:38270988 original size:16 final size:16
Alignment explanation
Indices: 38270951--38270989 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
38270941 TTATATATGT
* *
38270951 TATACATATATGTGTA
1 TATAAATATATGTGAA
*
38270967 TTTAAATATATGTGAA
1 TATAAATATATGTGAA
38270983 TATAAAT
1 TATAAAT
38270990 TTGCATGATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.44
Consensus pattern (16 bp):
TATAAATATATGTGAA
Found at i:38271670 original size:344 final size:346
Alignment explanation
Indices: 38271039--38271729 Score: 1298
Period size: 344 Copynumber: 2.0 Consensus size: 346
38271029 ACACAAATAC
38271039 ACCTTTTTCTTTTGTACATTTTTTTTATTTTCACATATATATATATGCATGTGTTTTATTAGTTT
1 ACCTTTTTCTTTTGTACA-TTTTTTTATTTTCACA-ATATATATATGCATGTGTTTTATTAGTTT
*
38271104 TGATTGATACACTCCATTCCATTTTTTTTATCCTTGTATGTGCGTATTAAATATATGTGTACACA
64 TGATTGATACACTCCATTCCATTTTTTTTATCCTTGTATGTGCATATTAAATATATGTGTACACA
*
38271169 TATTTGCAAGTTACTTGTATAGTGTATTTGTATGTATATATTTACAAATATTTATTTATGCCGTA
129 TATTTGCAAGTTACTTGAATAGTGTATTTGTATGTATATATTTACAAATATTTATTTATGCCGTA
38271234 AATTAGAGGATTCGTATCATATTACATATTAACCTTTTAACATACTCTTTCGAAAATATACTTTG
194 AATTAGAGGATTCGTATCATATTACATATTAACCTTTTAACATACTCTTTCGAAAATATACTTTG
38271299 GTTTTAATCATTCATCAAAGTTATTATTTTATTTAAAGGTTTTTGAATAAAAGCATTATTGGAAG
259 GTTTTAATCATTCATCAAAGTTATTATTTTATTTAAAGGTTTTTGAATAAAAGCATTATTGGAAG
38271364 TTTGGGATTCTCGAGGGAAATTT
324 TTTGGGATTCTCGAGGGAAATTT
38271387 ACCTTTTTCTTTTGTACA-TTTTTTATTTTCAC-ATATATATATGCATGTGTTTTATTAGTTTTG
1 ACCTTTTTCTTTTGTACATTTTTTTATTTTCACAATATATATATGCATGTGTTTTATTAGTTTTG
38271450 ATTGATACACTCCATTCCATTTTTTTTATCCTTGTATAG-GCATATTAAATATATGTGTACACAT
66 ATTGATACACTCCATTCCATTTTTTTTATCCTTGTAT-GTGCATATTAAATATATGTGTACACAT
*
38271514 ATTTGCAAGTTACTTGAATAGTGTATTTGTATGTATATATTTGCAAATATTTATTTATGCCGTAA
130 ATTTGCAAGTTACTTGAATAGTGTATTTGTATGTATATATTTACAAATATTTATTTATGCCGTAA
*
38271579 ATTAGAGGATTCGTATCATATTACATATTAACCTTTTAACATACTCTTTTGAAAATATACTTTGG
195 ATTAGAGGATTCGTATCATATTACATATTAACCTTTTAACATACTCTTTCGAAAATATACTTTGG
38271644 TTTTAATCATTCATCAAAGTTATTATTTTATTTAAAGGTTTTTGAATAAAAGCATTATTGGAAGT
260 TTTTAATCATTCATCAAAGTTATTATTTTATTTAAAGGTTTTTGAATAAAAGCATTATTGGAAGT
38271709 TTGGGATTCTCGAGGGAAATT
325 TTGGGATTCTCGAGGGAAATT
38271730 GAGCCCTAAC
Statistics
Matches: 338, Mismatches: 4, Indels: 6
0.97 0.01 0.02
Matches are distributed among these distances:
344 305 0.90
345 1 0.00
346 14 0.04
348 18 0.05
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (346 bp):
ACCTTTTTCTTTTGTACATTTTTTTATTTTCACAATATATATATGCATGTGTTTTATTAGTTTTG
ATTGATACACTCCATTCCATTTTTTTTATCCTTGTATGTGCATATTAAATATATGTGTACACATA
TTTGCAAGTTACTTGAATAGTGTATTTGTATGTATATATTTACAAATATTTATTTATGCCGTAAA
TTAGAGGATTCGTATCATATTACATATTAACCTTTTAACATACTCTTTCGAAAATATACTTTGGT
TTTAATCATTCATCAAAGTTATTATTTTATTTAAAGGTTTTTGAATAAAAGCATTATTGGAAGTT
TGGGATTCTCGAGGGAAATTT
Found at i:38289001 original size:3 final size:3
Alignment explanation
Indices: 38288947--38288982 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
38288937 TGATCATTTC
38288947 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
38288983 TTGGAATATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:38289006 original size:15 final size:15
Alignment explanation
Indices: 38288947--38289020 Score: 71
Period size: 15 Copynumber: 4.8 Consensus size: 15
38288937 TGATCATTTC
*
38288947 ATTATTATTATTATT
1 ATTATTATTAATATT
*
38288962 ATTATTATTATTATT
1 ATTATTATTAATATT
38288977 ATTATT-TTGGAATATT
1 ATTATTATT--AATATT
38288993 -TTATTATTAGATATT
1 ATTATTATTA-ATATT
*
38289008 TTTATTAATTAAT
1 ATTATT-ATTAAT
38289021 TAATGGACAA
Statistics
Matches: 52, Mismatches: 1, Indels: 11
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.06
15 31 0.60
16 14 0.27
17 4 0.08
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (15 bp):
ATTATTATTAATATT
Found at i:38298828 original size:7 final size:7
Alignment explanation
Indices: 38298816--38298846 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
38298806 TGCCTGTACT
38298816 TTTAGGG
1 TTTAGGG
38298823 TTTAGGG
1 TTTAGGG
38298830 TTTAGGG
1 TTTAGGG
38298837 TTTTAGGG
1 -TTTAGGG
38298845 TT
1 TT
38298847 AAGAATTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.13, C:0.00, G:0.39, T:0.48
Consensus pattern (7 bp):
TTTAGGG
Found at i:38298835 original size:14 final size:15
Alignment explanation
Indices: 38298816--38298846 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
38298806 TGCCTGTACT
38298816 TTTAGGG-TTTAGGG
1 TTTAGGGTTTTAGGG
38298830 TTTAGGGTTTTAGGG
1 TTTAGGGTTTTAGGG
38298845 TT
1 TT
38298847 AAGAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.13, C:0.00, G:0.39, T:0.48
Consensus pattern (15 bp):
TTTAGGGTTTTAGGG
Found at i:38299578 original size:22 final size:23
Alignment explanation
Indices: 38299535--38299583 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
38299525 AGCCCAGGTT
* *
38299535 ATTAAAATTATATTTTTATTAAA
1 ATTAAAACTATATTATTATTAAA
38299558 ATTAAAACTA-ATTATTATTAAA
1 ATTAAAACTATATTATTATTAAA
38299580 ATTA
1 ATTA
38299584 TATCAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
ATTAAAACTATATTATTATTAAA
Found at i:38299592 original size:22 final size:22
Alignment explanation
Indices: 38299550--38299594 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
38299540 AATTATATTT
*
38299550 TTATTAAAATTAAAACTAATTA
1 TTATTAAAATTAAAACAAATTA
* *
38299572 TTATTAAAATTATATCAAATTA
1 TTATTAAAATTAAAACAAATTA
38299594 T
1 T
38299595 ATTTTTTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
TTATTAAAATTAAAACAAATTA
Found at i:38299662 original size:19 final size:19
Alignment explanation
Indices: 38299638--38299688 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 19
38299628 ATCTAACATT
38299638 TTGTTAGTAAAATTATTAA
1 TTGTTAGTAAAATTATTAA
*
38299657 TTG-T--T-AATTGTATTAA
1 TTGTTAGTAAAAT-TATTAA
38299673 TTGTTAGTAAAATTAT
1 TTGTTAGTAAAATTAT
38299689 GAAATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 10
0.68 0.05 0.27
Matches are distributed among these distances:
15 3 0.12
16 10 0.40
17 1 0.04
18 1 0.04
19 7 0.28
20 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (19 bp):
TTGTTAGTAAAATTATTAA
Found at i:38299769 original size:6 final size:6
Alignment explanation
Indices: 38299758--38299810 Score: 54
Period size: 6 Copynumber: 8.3 Consensus size: 6
38299748 TTTTAAGTTA
*
38299758 AGGGTT AGGGTT AGGGTTTTT A-AGTT AAGGGTT AGGGTT AGGGTT AGGGTT
1 AGGGTT AGGGTT AGGG---TT AGGGTT -AGGGTT AGGGTT AGGGTT AGGGTT
38299809 AG
1 AG
38299811 AGTTTTTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
5 2 0.05
6 31 0.77
7 3 0.08
8 1 0.03
9 3 0.08
ACGTcount: A:0.21, C:0.00, G:0.43, T:0.36
Consensus pattern (6 bp):
AGGGTT
Found at i:38299776 original size:27 final size:27
Alignment explanation
Indices: 38299705--38299802 Score: 121
Period size: 27 Copynumber: 3.7 Consensus size: 27
38299695 ATATCAGATT
38299705 AGGGTTAGGGTTAGGGTTTTT--GTT-
1 AGGGTTAGGGTTAGGGTTTTTAAGTTA
** * *
38299729 AGCATTAGAGTTTTGGTGTTTTTAAGTTA
1 AGGGTTAG-GGTTAGG-GTTTTTAAGTTA
38299758 AGGGTTAGGGTTAGGGTTTTTAAGTTA
1 AGGGTTAGGGTTAGGGTTTTTAAGTTA
38299785 AGGGTTAGGGTTAGGGTT
1 AGGGTTAGGGTTAGGGTT
38299803 AGGGTTAGAG
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
24 6 0.10
25 5 0.08
26 6 0.10
27 30 0.49
28 8 0.13
29 6 0.10
ACGTcount: A:0.19, C:0.01, G:0.37, T:0.43
Consensus pattern (27 bp):
AGGGTTAGGGTTAGGGTTTTTAAGTTA
Found at i:38300100 original size:6 final size:6
Alignment explanation
Indices: 38300089--38300118 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
38300079 TTTTAAGCTA
38300089 AGGGTT AGGGTT AGGGTT AGGGTT AGGGTT
1 AGGGTT AGGGTT AGGGTT AGGGTT AGGGTT
38300119 TTTGTTAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (6 bp):
AGGGTT
Found at i:38300125 original size:12 final size:12
Alignment explanation
Indices: 38300110--38300158 Score: 62
Period size: 12 Copynumber: 3.8 Consensus size: 12
38300100 TAGGGTTAGG
38300110 GTTAGGGTTTTT
1 GTTAGGGTTTTT
*
38300122 GTTAGGGTTTGTAGG
1 GTTAGGGTTT-T--T
38300137 GTTAGGGTTTTT
1 GTTAGGGTTTTT
38300149 GTTAGGGTTT
1 GTTAGGGTTT
38300159 GTCAATTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
12 20 0.62
13 1 0.03
14 1 0.03
15 10 0.31
ACGTcount: A:0.10, C:0.00, G:0.39, T:0.51
Consensus pattern (12 bp):
GTTAGGGTTTTT
Found at i:38300125 original size:18 final size:18
Alignment explanation
Indices: 38300025--38300130 Score: 59
Period size: 18 Copynumber: 5.4 Consensus size: 18
38300015 AGGGTTAGGT
38300025 TTAGGGTTAGGGTTTTTG
1 TTAGGGTTAGGGTTTTTG
* * **
38300043 TTAAGATTAAAGTTTTGGTG
1 TTAGGGTTAGGGTTTT--TG
*
38300063 ATTAGGGTTTTGGTGTTTTTAAG
1 -TTAGGG-TTAGG-GTTTTT--G
* ***
38300086 CTAAGGGTTAGGGTTAGGG
1 -TTAGGGTTAGGGTTTTTG
38300105 TTAGGGTTAGGGTTTTTG
1 TTAGGGTTAGGGTTTTTG
38300123 TTAGGGTT
1 TTAGGGTT
38300131 TGTAGGGTTA
Statistics
Matches: 62, Mismatches: 19, Indels: 14
0.65 0.20 0.15
Matches are distributed among these distances:
18 34 0.55
19 1 0.02
20 2 0.03
21 8 0.13
22 6 0.10
23 11 0.18
ACGTcount: A:0.18, C:0.01, G:0.36, T:0.45
Consensus pattern (18 bp):
TTAGGGTTAGGGTTTTTG
Found at i:38300142 original size:27 final size:27
Alignment explanation
Indices: 38300106--38300160 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
38300096 GGGTTAGGGT
38300106 TAGGGTTAGGGTTTTTGTTAGGGTTTG
1 TAGGGTTAGGGTTTTTGTTAGGGTTTG
38300133 TAGGGTTAGGGTTTTTGTTAGGGTTTG
1 TAGGGTTAGGGTTTTTGTTAGGGTTTG
38300160 T
1 T
38300161 CAATTAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.11, C:0.00, G:0.40, T:0.49
Consensus pattern (27 bp):
TAGGGTTAGGGTTTTTGTTAGGGTTTG
Found at i:38300177 original size:7 final size:7
Alignment explanation
Indices: 38300165--38300204 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
38300155 GTTTGTCAAT
38300165 TAAATTA
1 TAAATTA
38300172 TAAATT-
1 TAAATTA
38300178 T-AATTA
1 TAAATTA
38300184 TAAATTA
1 TAAATTA
38300191 TAAATTTA
1 TAAA-TTA
38300199 TAAATT
1 TAAATT
38300205 TTTAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.13
6 2 0.07
7 17 0.57
8 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATTA
Found at i:38300177 original size:12 final size:12
Alignment explanation
Indices: 38300162--38300204 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
38300152 AGGGTTTGTC
38300162 AATTAAATTATA
1 AATTAAATTATA
*
38300174 AATTTAATTATA
1 AATTAAATTATA
38300186 AATTATAAATTTATA
1 AA-T-TAAA-TTATA
38300201 AATT
1 AATT
38300205 TTTAATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 13 0.50
13 2 0.08
14 4 0.15
15 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AATTAAATTATA
Found at i:38300455 original size:294 final size:294
Alignment explanation
Indices: 38300133--38300684 Score: 883
Period size: 294 Copynumber: 1.9 Consensus size: 294
38300123 TTAGGGTTTG
* *
38300133 TAGGGTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATTTAATTATAAATTATAAATTT
1 TAGGGTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATTAAATTATAAATTATAAAATT
*
38300198 ATAAA-TTTTTAATAAATTAGTTTAGGGTTTTAAAGTAATAACTCAAATAAAAT-TTTATTTTAT
66 ATAAATTTTTTAATAAA-TAGTTTAGGGTTTTAAAGTAATAACTCAAAT-AAATCTATATTTTAT
* * * *
38300261 TACATCAAATAATATTAAAATATTCAAAATGTTTGTACAAATATATTAAAATACAAACCAATCTC
129 TACATCAAATAATATCAAAATATTCAAAATATTTGTACAAATATATTAAAATAAAAACCAACCTC
* * * * ** * *
38300326 TATGCCAGCCGGATTCAGTGCCATATGGCGGCCATCGACGGTTATGCGCTGGATTCCTCCTTTGT
194 CATGCCAGCCAGATTCAGTGCCACATAGCAACCATCGACGGTTACGCACTGGATTCCTCCTTTGT
38300391 CCAGCTTCCGGGGGTTTTTAAGTTAAAGGTTAGGGT
259 CCAGCTTCCGGGGGTTTTTAAGTTAAAGGTTAGGGT
38300427 TAGGGTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATTAAATTATAAATTATAAAATT
1 TAGGGTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATTAAATTATAAATTATAAAATT
*
38300492 ATAAATTTTTTAATAAATAGTTTAGGGTTTTTAAGTAATAACTCAAATAAATCTATATTTTATTA
66 ATAAATTTTTTAATAAATAGTTTAGGGTTTTAAAGTAATAACTCAAATAAATCTATATTTTATTA
* * *
38300557 CATCAAATAATATCAAAATATTCAAAATATTTGTACAAATATATTAAAGTAAAAATCAACCTCCG
131 CATCAAATAATATCAAAATATTCAAAATATTTGTACAAATATATTAAAATAAAAACCAACCTCCA
* *
38300622 TGCCCGCCAGATTCAGTGCCACATAGCAACCGTCGACGGTTACGCACTGGATTCCTCCTTTGT
196 TGCCAGCCAGATTCAGTGCCACATAGCAACCATCGACGGTTACGCACTGGATTCCTCCTTTGT
38300685 TAAGCTTTCG
Statistics
Matches: 235, Mismatches: 21, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
293 4 0.02
294 220 0.94
295 11 0.05
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (294 bp):
TAGGGTTAGGGTTTTTGTTAGGGTTTGTCAATTAAATTATAAATTAAATTATAAATTATAAAATT
ATAAATTTTTTAATAAATAGTTTAGGGTTTTAAAGTAATAACTCAAATAAATCTATATTTTATTA
CATCAAATAATATCAAAATATTCAAAATATTTGTACAAATATATTAAAATAAAAACCAACCTCCA
TGCCAGCCAGATTCAGTGCCACATAGCAACCATCGACGGTTACGCACTGGATTCCTCCTTTGTCC
AGCTTCCGGGGGTTTTTAAGTTAAAGGTTAGGGT
Found at i:38300471 original size:7 final size:7
Alignment explanation
Indices: 38300459--38300498 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
38300449 GTTTGTCAAT
38300459 TAAATTA
1 TAAATTA
38300466 TAAA-T-
1 TAAATTA
38300471 TAAATTA
1 TAAATTA
38300478 TAAATTA
1 TAAATTA
38300485 TAAAATTA
1 T-AAATTA
38300493 TAAATT
1 TAAATT
38300499 TTTTAATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.13
6 2 0.07
7 17 0.57
8 7 0.23
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
TAAATTA
Found at i:38300471 original size:12 final size:12
Alignment explanation
Indices: 38300456--38300498 Score: 59
Period size: 12 Copynumber: 3.3 Consensus size: 12
38300446 AGGGTTTGTC
38300456 AATTAAATTATA
1 AATTAAATTATA
38300468 AATTAAATTATA
1 AATTAAATTATA
38300480 AATTATAAAATTATA
1 AA-T-T-AAATTATA
38300495 AATT
1 AATT
38300499 TTTTAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 14 0.50
13 2 0.07
14 2 0.07
15 10 0.36
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
AATTAAATTATA
Found at i:38300717 original size:21 final size:21
Alignment explanation
Indices: 38300693--38300737 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
38300683 GTTAAGCTTT
* * *
38300693 CGGCGGGGGTTTTGGTTGCTC
1 CGGCGGGGATTCTGGTTCCTC
38300714 CGGCGGGGATTCTGGTTCCTC
1 CGGCGGGGATTCTGGTTCCTC
38300735 CGG
1 CGG
38300738 TAGGGTGTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.24, G:0.44, T:0.29
Consensus pattern (21 bp):
CGGCGGGGATTCTGGTTCCTC
Found at i:38300877 original size:27 final size:29
Alignment explanation
Indices: 38300840--38300923 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 29
38300830 AAGGTTTTGG
*
38300840 TGTTTTCAAGTTAAGGGTTAGGGTTA-GT
1 TGTTTTTAAGTTAAGGGTTAGGGTTAGGT
*
38300868 T-TTTTTAAGTTAAGGGTTAAGGTTATGGT
1 TGTTTTTAAGTTAAGGGTTAGGGTTA-GGT
38300897 TAGGGTTTTTAAGTTAAGGGTTAGGGT
1 T---GTTTTTAAGTTAAGGGTTAGGGT
38300924 AAAGGCTAGG
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
27 22 0.47
28 1 0.02
29 3 0.06
33 21 0.45
ACGTcount: A:0.23, C:0.01, G:0.32, T:0.44
Consensus pattern (29 bp):
TGTTTTTAAGTTAAGGGTTAGGGTTAGGT
Found at i:38300892 original size:33 final size:34
Alignment explanation
Indices: 38300849--38300998 Score: 125
Period size: 33 Copynumber: 4.5 Consensus size: 34
38300839 GTGTTTTCAA
**
38300849 GTTAAGGGTTAGGGTTAGTTTTTTTAAGTTAAGG
1 GTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAAGG
*
38300883 GTTAA-GGTTATGGTTAGGGTTTTTAAGTTAAGG
1 GTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAAGG
* * *
38300916 GTT-AGGGTAAAGGCTAGGGTTTTT--GTT-AGG
1 GTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAAGG
* **
38300946 GTTTTGATGTTTTTA-GGTTAAGGGTTTTTAAGTTAAGG
1 G--TT-AAG-GGTTAGGGTT-AGGGTTTTTAAGTTAAGG
38300984 GTT-AGGGTTAGGGTT
1 GTTAAGGGTTAGGGTT
38300999 TTTAAGTTAA
Statistics
Matches: 91, Mismatches: 14, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
30 4 0.04
31 3 0.03
32 3 0.03
33 47 0.52
34 14 0.15
35 11 0.12
36 2 0.02
37 3 0.03
38 4 0.04
ACGTcount: A:0.21, C:0.01, G:0.35, T:0.43
Consensus pattern (34 bp):
GTTAAGGGTTAGGGTTAGGGTTTTTAAGTTAAGG
Done.