Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 ID=Chr01-JGI_221_v2.0
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: 55868233
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 983842 characters in sequence are not A, C, G, or T
File 125 of 187
Found at i:37928216 original size:21 final size:22
Alignment explanation
Indices: 37928186--37928228 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
37928176 TCTTGTTCAA
37928186 TCTCAATCTCGTTT-TTCTTTT
1 TCTCAATCTCGTTTATTCTTTT
* *
37928207 TCTCACTCTCTTTTATTCTTTT
1 TCTCAATCTCGTTTATTCTTTT
37928229 CTCGAGTTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.09, C:0.26, G:0.02, T:0.63
Consensus pattern (22 bp):
TCTCAATCTCGTTTATTCTTTT
Found at i:37928299 original size:15 final size:16
Alignment explanation
Indices: 37928279--37928308 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
37928269 ATCTCTGGTC
37928279 TTTA-TTTTCTTTTTA
1 TTTATTTTTCTTTTTA
37928294 TTTATTTTTCTTTTT
1 TTTATTTTTCTTTTT
37928309 GCCTCGTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTATTTTTCTTTTTA
Found at i:37930322 original size:22 final size:20
Alignment explanation
Indices: 37930285--37930325 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
37930275 CTAGTTCATA
37930285 TAACATCAAGAAAAATTAAT
1 TAACATCAAGAAAAATTAAT
*
37930305 TAACATACTAAGATAAATTAA
1 TAACAT-C-AAGAAAAATTAA
37930326 AAACAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 1 0.06
22 11 0.61
ACGTcount: A:0.59, C:0.10, G:0.05, T:0.27
Consensus pattern (20 bp):
TAACATCAAGAAAAATTAAT
Found at i:37938196 original size:20 final size:18
Alignment explanation
Indices: 37938149--37938247 Score: 64
Period size: 19 Copynumber: 5.3 Consensus size: 18
37938139 AAAGATAAAC
37938149 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
37938166 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
* *
37938186 ATTAAATTAATAAATTACT
1 ATTAAATTAAT-ATTTAAT
37938205 ATTAAGA-TAAGTATTTAAT
1 ATTAA-ATTAA-TATTTAAT
*
37938224 -TT-AATTCAATATTAAACT
1 ATTAAATT-AATATTTAA-T
37938242 ATTAAA
1 ATTAAA
37938248 AGGATATTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 21
0.70 0.07 0.23
Matches are distributed among these distances:
16 1 0.02
17 16 0.25
18 6 0.09
19 21 0.33
20 20 0.31
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:37941413 original size:41 final size:40
Alignment explanation
Indices: 37941367--37941640 Score: 217
Period size: 41 Copynumber: 6.6 Consensus size: 40
37941357 CTTTGAATAT
* *
37941367 AAAGGGTTGCTAAGTGCAGATTCCCCGA-ATCATTGATCAAA
1 AAAGGGTTGCTAAGTGCTGATTCCCC-ATATCATTGAT-TAA
* *
37941408 AAAGGGTTGCTATGTGCTGATTCCCCATATCATTGATTAT
1 AAAGGGTTGCTAAGTGCTGATTCCCCATATCATTGATTAA
* * * *
37941448 AAGGTGGTTGCTAAGTGTTGATTCCACCATATCCTTGATTGTGA
1 AAAG-GGTTGCTAAGTGCTGATTCC-CCATATCATTGA-T-TAA
* * * **
37941492 AAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTCT
1 AAAGGGTTGCTAAGTGCTGATTCCCCATATCATTGATTAA
* * * *
37941532 AAGGTGGTTGCTAAGTGCTGATTCCACCTTATCCTTGATTGTGA
1 AAAG-GGTTGCTAAGTGCTGATTCC-CCATATCATTGA-T-TAA
* * * * *
37941576 AAGGGGTTGCTATGTGTTGATTCCCCGTATCATTGATTAT
1 AAAGGGTTGCTAAGTGCTGATTCCCCATATCATTGATTAA
** *
37941616 ATGGTGGTTACTAAGTGCTGATTCC
1 AAAG-GGTTGCTAAGTGCTGATTCC
37941641 ACCGGGATCC
Statistics
Matches: 192, Mismatches: 31, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
40 14 0.07
41 89 0.46
42 41 0.21
43 38 0.20
44 10 0.05
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (40 bp):
AAAGGGTTGCTAAGTGCTGATTCCCCATATCATTGATTAA
Found at i:37941512 original size:84 final size:84
Alignment explanation
Indices: 37941411--37941643 Score: 403
Period size: 84 Copynumber: 2.8 Consensus size: 84
37941401 GATCAAAAAA
* *
37941411 GGGTTGCTATGTGCTGATTCCCCATATCATTGATTATAAGGTGGTTGCTAAGTGTTGATTCCACC
1 GGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACC
37941476 ATATCCTTGATTGTGAAAG
66 ATATCCTTGATTGTGAAAG
*
37941495 GGGTTGCTATGTGCTGATTCCCCGTATCATTGATTCTAAGGTGGTTGCTAAGTGCTGATTCCACC
1 GGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACC
*
37941560 TTATCCTTGATTGTGAAAG
66 ATATCCTTGATTGTGAAAG
* * *
37941579 GGGTTGCTATGTGTTGATTCCCCGTATCATTGATTATATGGTGGTTACTAAGTGCTGATTCCACC
1 GGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACC
37941644 GGGATCCTTT
Statistics
Matches: 141, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 141 1.00
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (84 bp):
GGGTTGCTATGTGCTGATTCCCCGTATCATTGATTATAAGGTGGTTGCTAAGTGCTGATTCCACC
ATATCCTTGATTGTGAAAG
Found at i:37941634 original size:125 final size:125
Alignment explanation
Indices: 37941359--37941687 Score: 348
Period size: 125 Copynumber: 2.6 Consensus size: 125
37941349 CCGGGATTCT
* * * * *
37941359 TTGAATATAAA-GGGTTGCTAAGTGCAGATTCCCCGAATCATTGATCAAAAAAG-GGTTGCTATG
1 TTGATTATAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGATC-ATAAGGTGGTTGCTAAG
*
37941422 TGCTGATTCC-CCATATCATTGATTATAAGGTGGTTGCTAAGTGTTGATTCCACCATATCC
65 TGCTGATTCCACCATATCATTGATTATAAGGTGGTTGCTAAGTGTTGATTCCACCATATCA
* * *
37941482 TTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTC-TAAGGTGGTTGCTAA
1 TTGATTAT-AAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGA-TCATAAGGTGGTTGCTAA
* * * * *
37941546 GTGCTGATTCCACCTTATCCTTGATTGTGAAAGG-GGTTGCTATGTGTTGATTCC-CCGTATCA
64 GTGCTGATTCCACCATATCATTGATTAT--AAGGTGGTTGCTAAGTGTTGATTCCACCATATCA
* * * * * *
37941608 TTGATTAT-ATGGTGGTTACTAAGTGCTGATTCCACCGGGATCCTTTGAACATGAGGTGGTTGCT
1 TTGATTATAAAGG-GGTTGCTAAGTGCTGATTCC-CC-GAAT-CATTGATCATAAGGTGGTTGCT
37941672 AAGTGCTGATTCCACC
62 AAGTGCTGATTCCACC
37941688 GTGTAACGGT
Statistics
Matches: 172, Mismatches: 22, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
123 6 0.03
124 9 0.05
125 67 0.39
126 30 0.17
127 23 0.13
128 37 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (125 bp):
TTGATTATAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGATCATAAGGTGGTTGCTAAGT
GCTGATTCCACCATATCATTGATTATAAGGTGGTTGCTAAGTGTTGATTCCACCATATCA
Found at i:37943692 original size:16 final size:16
Alignment explanation
Indices: 37943659--37943704 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
37943649 AATTATGAAT
*
37943659 ATTAATTCTTAA-TATA
1 ATTAATT-TTAATTTTA
37943675 ATTAATTTTAATTTTA
1 ATTAATTTTAATTTTA
37943691 ATTCAA-TTTAATTT
1 ATT-AATTTTAATTT
37943705 GGGTTAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 4 0.15
16 21 0.78
17 2 0.07
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTAATTTTAATTTTA
Found at i:37945093 original size:16 final size:16
Alignment explanation
Indices: 37945072--37945107 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
37945062 TTTTACTTAG
37945072 TTAAAAATCTTAGCTT
1 TTAAAAATCTTAGCTT
37945088 TTAAAAATCTTAGCTT
1 TTAAAAATCTTAGCTT
37945104 TTAA
1 TTAA
37945108 TCACCTCCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.44
Consensus pattern (16 bp):
TTAAAAATCTTAGCTT
Found at i:37954091 original size:13 final size:13
Alignment explanation
Indices: 37954073--37954099 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
37954063 AGGTATCTAT
37954073 ATTTGGGATTTAA
1 ATTTGGGATTTAA
37954086 ATTTGGGATTTAA
1 ATTTGGGATTTAA
37954099 A
1 A
37954100 ATGTGCAGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (13 bp):
ATTTGGGATTTAA
Found at i:37963750 original size:8 final size:8
Alignment explanation
Indices: 37963737--37963761 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
37963727 TTAGGGTAGA
37963737 CCCATGAT
1 CCCATGAT
37963745 CCCATGAT
1 CCCATGAT
37963753 CCCATGAT
1 CCCATGAT
37963761 C
1 C
37963762 TTTTTCCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.40, G:0.12, T:0.24
Consensus pattern (8 bp):
CCCATGAT
Found at i:37968138 original size:25 final size:25
Alignment explanation
Indices: 37968104--37968158 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
37968094 TCAGTTTGTA
37968104 TGAGCAGACCATTTTACAGCTCGTG
1 TGAGCAGACCATTTTACAGCTCGTG
37968129 TGAGCAGACCATTTTACAGCTCGTG
1 TGAGCAGACCATTTTACAGCTCGTG
37968154 TGAGC
1 TGAGC
37968159 TACGATGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (25 bp):
TGAGCAGACCATTTTACAGCTCGTG
Found at i:37970357 original size:43 final size:43
Alignment explanation
Indices: 37970282--37970455 Score: 194
Period size: 43 Copynumber: 4.1 Consensus size: 43
37970272 AAACATATAT
* * * *
37970282 ATCACATA-CAATGCCA-TATCCCAGATATGGTCTTACATGTT
1 ATCACATATCGATGCCACTGTCCCAGACATGGTCTTACATGTA
* *
37970323 ATCACATATCGATGCCTCTGTCCCAGACAGGGTCTTACATG-A
1 ATCACATATCGATGCCACTGTCCCAGACATGGTCTTACATGTA
* * * * *
37970365 ATCATATA-CGGTGCCACTGTTCCAAACATGGTCTTACACGTA
1 ATCACATATCGATGCCACTGTCCCAGACATGGTCTTACATGTA
* * *
37970407 ATCTCATATCGATGCCAATGTCCCAGACATGGTCTTACATGAA
1 ATCACATATCGATGCCACTGTCCCAGACATGGTCTTACATGTA
37970450 ATCACA
1 ATCACA
37970456 CCTCGAAAGT
Statistics
Matches: 107, Mismatches: 22, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
41 34 0.32
42 20 0.19
43 53 0.50
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (43 bp):
ATCACATATCGATGCCACTGTCCCAGACATGGTCTTACATGTA
Found at i:37972408 original size:97 final size:97
Alignment explanation
Indices: 37972285--37972473 Score: 360
Period size: 97 Copynumber: 1.9 Consensus size: 97
37972275 TCGTTATTAA
* *
37972285 AATGAATTAAAAACAAAACTAAAGGCCAAATTTTGTTCATCTTCAATCCCTTGGCCAAAACTTGC
1 AATGAATTAAAAACAAAACTAAAGGCCAAATTTTGTCCATCTTCAACCCCTTGGCCAAAACTTGC
37972350 ATGGAGAAACCATGGCTAGGGTTTTTCAAGTT
66 ATGGAGAAACCATGGCTAGGGTTTTTCAAGTT
37972382 AATGAATTAAAAACAAAACTAAAGGCCAAATTTTGTCCATCTTCAACCCCTTGGCCAAAACTTGC
1 AATGAATTAAAAACAAAACTAAAGGCCAAATTTTGTCCATCTTCAACCCCTTGGCCAAAACTTGC
37972447 ATGGAGAAACCATGGCTAGGGTTTTTC
66 ATGGAGAAACCATGGCTAGGGTTTTTC
37972474 CAGCTTCCAA
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 90 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (97 bp):
AATGAATTAAAAACAAAACTAAAGGCCAAATTTTGTCCATCTTCAACCCCTTGGCCAAAACTTGC
ATGGAGAAACCATGGCTAGGGTTTTTCAAGTT
Found at i:37977754 original size:47 final size:47
Alignment explanation
Indices: 37977702--37977796 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
37977692 CATGACGGAT
37977702 ATGCAGATTGAAAAGTTTAGGATTTTAGATATCTGATCCGATGACAG
1 ATGCAGATTGAAAAGTTTAGGATTTTAGATATCTGATCCGATGACAG
*
37977749 ATGCAGATTGGAAAGTTTAGGATTTTAGATATCTGATCCGATGACAG
1 ATGCAGATTGAAAAGTTTAGGATTTTAGATATCTGATCCGATGACAG
37977796 A
1 A
37977797 GTGTTTCTGG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (47 bp):
ATGCAGATTGAAAAGTTTAGGATTTTAGATATCTGATCCGATGACAG
Found at i:37984293 original size:43 final size:44
Alignment explanation
Indices: 37984235--37984321 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 44
37984225 ATTACAAGAA
* * * *
37984235 TCATATACGGTGCCAATGACCCATACATGGTCTTACACGTAATC
1 TCATATACGATGCCAATGACCCAGACAAGGTCTTACACGAAATC
* *
37984279 TCATAT-CGATGCCAATGTCCCAGACAAGGTCTTGCACGAAATC
1 TCATATACGATGCCAATGACCCAGACAAGGTCTTACACGAAATC
37984322 ACACCTTGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 31 0.84
44 6 0.16
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (44 bp):
TCATATACGATGCCAATGACCCAGACAAGGTCTTACACGAAATC
Found at i:37987074 original size:35 final size:37
Alignment explanation
Indices: 37986997--37987075 Score: 90
Period size: 38 Copynumber: 2.2 Consensus size: 37
37986987 TTTAGTTATT
* * * **
37986997 ATTTAAAAGAGTTTTAGATAATTAATAATTATATTATT
1 ATTTAAAAAAGTTTTAGATAAATAATAA-TATAATAGA
37987035 ATTTAAAAAAGTTTTAGATAAATAATAA-A-AATAGA
1 ATTTAAAAAAGTTTTAGATAAATAATAATATAATAGA
37987070 ATTTAA
1 ATTTAA
37987076 TTATTATTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
35 9 0.25
36 1 0.03
38 26 0.72
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.41
Consensus pattern (37 bp):
ATTTAAAAAAGTTTTAGATAAATAATAATATAATAGA
Found at i:37987079 original size:46 final size:48
Alignment explanation
Indices: 37987023--37987143 Score: 165
Period size: 48 Copynumber: 2.6 Consensus size: 48
37987013 GATAATTAAT
* * *
37987023 AATTATATTATTATTTAAAAAAGTTTTAGAT-AAATAATA-AAAATAG
1 AATTAAATTATTATTTAAAAGAGTTTTAAATAAAATAATATAAAATAG
* * *
37987069 AATTTAATTATTATTTAAAAGAGTTTTAAATAAAATATTATTAAATAG
1 AATTAAATTATTATTTAAAAGAGTTTTAAATAAAATAATATAAAATAG
*
37987117 AATTAAAATATTATTTAAAAGAGTTTT
1 AATTAAATTATTATTTAAAAGAGTTTT
37987144 TAAAATTCAA
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
46 27 0.42
47 7 0.11
48 31 0.48
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (48 bp):
AATTAAATTATTATTTAAAAGAGTTTTAAATAAAATAATATAAAATAG
Found at i:38010828 original size:697 final size:697
Alignment explanation
Indices: 38009493--38010883 Score: 2239
Period size: 697 Copynumber: 2.0 Consensus size: 697
38009483 GCTAATGCAT
* *
38009493 GGCCTGAGACATGACCGTGTGAGATTAATTCGAGTGATACATGACCCAAGAACACATGCATGTGA
1 GGCCTGAGACATGACCGTGTGAGATTAATTCGAGTGATACAAGACCCAAGAACACAGGCATGTGA
* * * *
38009558 AATAGCAGACGTGTGTGTAGGATAGTCACACGCCCATGTTAAGAGCCACACGGTCTAGCACACGG
66 AATAGCACACGTGCGTGTAGGATAGTCACACGCCCATGTTAAGAACCACACGGCCTAGCACACGG
* * *
38009623 TCGACGACACGACCATGTGTCCCAAGTCAGTGAGTTTCACGAGCAGAGACACAAGCTGGGACACG
131 CCGACAACACGACCATGTGACCCAAGTCAGTGAGTTTCACGAGCAGAGACACAAGCTGGGACACG
* *
38009688 ATCATGTGTCCCAACTTTGTAATTCACATGGTTTCGGACATTCCACACGGCCTGGCCAAAGAGTC
196 ATCATGTGTCCCAACTTTGAAATTCACATGGTTTCGGACATTCCACACGGCCTGGCCAAACAGTC
* *
38009753 GTGTGTCCCCTGTTTCTAAGTATTTTTGAGATTGCCTTAAAACTTTCAAAATTGTTCCATATTAG
261 GTATGTCCCCTGTTTCTAAGTATTTTTGAGATTACCTTAAAACTTTCAAAATTGTTCCATATTAG
* * * *
38009818 TCCCTATTTGTTCTTAGGCTATTTCTAAGAATCTGTAGACTCGTATTAAGGACTGTAAGAGTATT
326 TCCCTATTTGTTCATAGGCTATTTCTAAGAATCTGCAGACTCATATTAAGAACTGTAAGAGTATT
* *
38009883 TTTATTTTGATTTGGAATGAAATAGCAAACCTAAGTTAGGTGAAGTAGGTCATTCTTCTAATATC
391 TTTATTTTGAGTTGGAATGAAATAGCAAACCTAAGTTAGGTGAAGTAGGTCATTCTACTAATATC
*
38009948 ATCGAAGGTAGTAATAGTCAGAGTATGGTTCAATACTCTGATGCTAATAATTGGAATAATCTTGT
456 ATCGAAGGTAGTAATAGCCAGAGTATGGTTCAATACTCTGATGCTAATAATTGGAATAATCTTGT
* *
38010013 TATGTATCCAACTTCTAGCTTTCAAGAGGGGATAAATAGTGATAAGAGTGTAGACAGTGGAAGAC
521 TATGTATCCAACTTCTAGCTTTCAAGAGGGGATAAATAGTGATAAGAGTGTAGACAATGGAAAAC
38010078 CAAGTTTAGCATTTCATAACATGAGTCATTATTCAATTGTATAAGACACTAATATGAAAATATTA
586 CAAGTTTAGCATTTCATAACATGAGTCATTATTCAATTGTATAAGACACTAATATGAAAATATTA
*
38010143 AATTAGCATATATTTCCCCTGTATAATGTGATGCTAATAGTTAGTAC
651 AATTAGCATATATTGCCCCTGTATAATGTGATGCTAATAGTTAGTAC
* * * *
38010190 GGCCTGAGACATGGCCGTGTGAGATTAATTCTAGTGATACACAG-CCCAAGCACACGGGCATGTG
1 GGCCTGAGACATGACCGTGTGAGATTAATTCGAGTGATACA-AGACCCAAGAACACAGGCATGTG
* *
38010254 AAATAGCACACGTGCGTGTAGGATAGTCACACGCCCATGTTAAGAACCATATGGCCT-GACACAC
65 AAATAGCACACGTGCGTGTAGGATAGTCACACGCCCATGTTAAGAACCACACGGCCTAG-CACAC
* * * * * * *
38010318 GGCCGACAACATGGCCATGTGACCCAAGTTAGTGAGTTTCATGGGTAGAGACACAAGTTGGGACA
129 GGCCGACAACACGACCATGTGACCCAAGTCAGTGAGTTTCACGAGCAGAGACACAAGCTGGGACA
* * * *
38010383 C-AGTCATGTGTCCCAACTTTGAAATTCATATGGTTTGGGGCGTTCCACACGGCCTGGCCAAACA
194 CGA-TCATGTGTCCCAACTTTGAAATTCACATGGTTTCGGACATTCCACACGGCCTGGCCAAACA
* * * *
38010447 GTCGTATGTCCCCTGTTTCTAGGTATTTTTTAGATTACCTTAAAATTTTCAAAATTGTTTCATAT
258 GTCGTATGTCCCCTGTTTCTAAGTATTTTTGAGATTACCTTAAAACTTTCAAAATTGTTCCATAT
* *
38010512 TAGTCCTTATTTGTTCATAGGCTATTTCTAAGGATCTGCAGACTCATATTAAGAACTGTAAGAGT
323 TAGTCCCTATTTGTTCATAGGCTATTTCTAAGAATCTGCAGACTCATATTAAGAACTGTAAGAGT
38010577 ATTTTTATTTTGAGTTGGAATGAAATAGCAAACCTAAGTTAGGTGAAGTAGGTCATTCTACTAAT
388 ATTTTTATTTTGAGTTGGAATGAAATAGCAAACCTAAGTTAGGTGAAGTAGGTCATTCTACTAAT
*
38010642 ATCATCGAAGGTAGTAATAGCCGGAGTATGGTTCAATACTCTGATGCTAATAATTGGAATAATCT
453 ATCATCGAAGGTAGTAATAGCCAGAGTATGGTTCAATACTCTGATGCTAATAATTGGAATAATCT
*
38010707 TGTTATGTATCCAAGTTCTAGCTTTCAAGAGGGGATAAATAGTGATAAGAGTGTAGACAATGGAA
518 TGTTATGTATCCAACTTCTAGCTTTCAAGAGGGGATAAATAGTGATAAGAGTGTAGACAATGGAA
* * *
38010772 AACCAAGTTTAGCATTTCATAGCATGAGTCATTATTCGATTGTATAAGACACTAATATGGAAATA
583 AACCAAGTTTAGCATTTCATAACATGAGTCATTATTCAATTGTATAAGACACTAATATGAAAATA
* * * *
38010837 TTAAATTAGCATTTATTGCCTCTGTATGATGTGATGTTAATAGTTAG
648 TTAAATTAGCATATATTGCCCCTGTATAATGTGATGCTAATAGTTAG
38010884 CGTGCACCAT
Statistics
Matches: 636, Mismatches: 55, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
696 2 0.00
697 633 1.00
698 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (697 bp):
GGCCTGAGACATGACCGTGTGAGATTAATTCGAGTGATACAAGACCCAAGAACACAGGCATGTGA
AATAGCACACGTGCGTGTAGGATAGTCACACGCCCATGTTAAGAACCACACGGCCTAGCACACGG
CCGACAACACGACCATGTGACCCAAGTCAGTGAGTTTCACGAGCAGAGACACAAGCTGGGACACG
ATCATGTGTCCCAACTTTGAAATTCACATGGTTTCGGACATTCCACACGGCCTGGCCAAACAGTC
GTATGTCCCCTGTTTCTAAGTATTTTTGAGATTACCTTAAAACTTTCAAAATTGTTCCATATTAG
TCCCTATTTGTTCATAGGCTATTTCTAAGAATCTGCAGACTCATATTAAGAACTGTAAGAGTATT
TTTATTTTGAGTTGGAATGAAATAGCAAACCTAAGTTAGGTGAAGTAGGTCATTCTACTAATATC
ATCGAAGGTAGTAATAGCCAGAGTATGGTTCAATACTCTGATGCTAATAATTGGAATAATCTTGT
TATGTATCCAACTTCTAGCTTTCAAGAGGGGATAAATAGTGATAAGAGTGTAGACAATGGAAAAC
CAAGTTTAGCATTTCATAACATGAGTCATTATTCAATTGTATAAGACACTAATATGAAAATATTA
AATTAGCATATATTGCCCCTGTATAATGTGATGCTAATAGTTAGTAC
Found at i:38011992 original size:24 final size:24
Alignment explanation
Indices: 38011965--38012025 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
38011955 AACACCTTTA
38011965 TGGCGTATTCTGTAAATGCCCTAT-
1 TGGCGTATTCTGTAAATG-CCTATG
* * *
38011989 TGGCGTATTATGCAAATGCCTTTG
1 TGGCGTATTCTGTAAATGCCTATG
38012013 TGGCGTATTCTGT
1 TGGCGTATTCTGT
38012026 GTTACCTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 4 0.13
24 27 0.87
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.39
Consensus pattern (24 bp):
TGGCGTATTCTGTAAATGCCTATG
Found at i:38015663 original size:47 final size:47
Alignment explanation
Indices: 38015609--38015704 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
38015599 ACTATAACGG
*
38015609 GCCTTTCACAACTATCTGGTGGCACCGTCCCTTCTACAGGAGCGAGA
1 GCCTTTCACAACTATCTAGTGGCACCGTCCCTTCTACAGGAGCGAGA
* *
38015656 GCCTTTCACTACTATCTAGTGGCACCGTCCCTTCTACGGGAGCGAGA
1 GCCTTTCACAACTATCTAGTGGCACCGTCCCTTCTACAGGAGCGAGA
38015703 GC
1 GC
38015705 ATTACTTTCT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.20, C:0.32, G:0.24, T:0.24
Consensus pattern (47 bp):
GCCTTTCACAACTATCTAGTGGCACCGTCCCTTCTACAGGAGCGAGA
Found at i:38021967 original size:41 final size:41
Alignment explanation
Indices: 38021860--38022002 Score: 160
Period size: 41 Copynumber: 3.5 Consensus size: 41
38021850 TCAGGTTCTG
* * * * **
38021860 TGCCTAGCAGGCTTTATACCGGTGAATTATATCAGGCTTTA
1 TGCCTAGCAGGCTTCATGCCAGTGTACCATATCAGGCTTTA
* *
38021901 TACCTAGCAGGCTTCATGCCGGTGTACCATATCAGGCTTTA
1 TGCCTAGCAGGCTTCATGCCAGTGTACCATATCAGGCTTTA
* * * *
38021942 TGCCTAGCAGGCTTCGTGCCAGTGTATCATATCTGGCTTTG
1 TGCCTAGCAGGCTTCATGCCAGTGTACCATATCAGGCTTTA
* *
38021983 TGCCTAGAAGGCTTTATGCC
1 TGCCTAGCAGGCTTCATGCC
38022003 TATGTGGTAT
Statistics
Matches: 87, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 87 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (41 bp):
TGCCTAGCAGGCTTCATGCCAGTGTACCATATCAGGCTTTA
Found at i:38027178 original size:20 final size:20
Alignment explanation
Indices: 38027134--38027172 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
38027124 AAAATTAAAC
*
38027134 ACGAGCTCGATTGAGCTGAA
1 ACGAGCTCGATGGAGCTGAA
38027154 ACGAGCTC-ATGGAGCTGAA
1 ACGAGCTCGATGGAGCTGAA
38027173 TTCGAGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.31, C:0.21, G:0.31, T:0.18
Consensus pattern (20 bp):
ACGAGCTCGATGGAGCTGAA
Found at i:38029795 original size:39 final size:39
Alignment explanation
Indices: 38029741--38029818 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
38029731 AAAAGAAAGT
38029741 TTCTTTCTTTCTTTTCTCTTCATACGTTGGATGCATGGG
1 TTCTTTCTTTCTTTTCTCTTCATACGTTGGATGCATGGG
38029780 TTCTTTCTTTCTTTTCTCTTCATACGTTGGATGCATGGG
1 TTCTTTCTTTCTTTTCTCTTCATACGTTGGATGCATGGG
38029819 AAGAAGATGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.10, C:0.21, G:0.18, T:0.51
Consensus pattern (39 bp):
TTCTTTCTTTCTTTTCTCTTCATACGTTGGATGCATGGG
Found at i:38030401 original size:23 final size:23
Alignment explanation
Indices: 38030370--38030420 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
38030360 ACCTACTTTC
*
38030370 TTACTGTAGTAATTTTCAGGG-TA
1 TTACAGTAGTAATTTTC-GGGATA
38030393 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
38030416 TTACA
1 TTACA
38030421 ATTTCAATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:38030772 original size:20 final size:20
Alignment explanation
Indices: 38030747--38030785 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
38030737 TACCTTCTTC
38030747 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
38030767 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
38030786 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:38033885 original size:20 final size:20
Alignment explanation
Indices: 38033860--38033910 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
38033850 AAATCATCAT
38033860 TTTCATGAACATAGATATAC
1 TTTCATGAACATAGATATAC
38033880 TTTCATGAACATAGATATAC
1 TTTCATGAACATAGATATAC
*
38033900 TTTCATTAACA
1 TTTCATGAACA
38033911 CTTCCTTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (20 bp):
TTTCATGAACATAGATATAC
Found at i:38037012 original size:40 final size:41
Alignment explanation
Indices: 38036889--38037025 Score: 165
Period size: 40 Copynumber: 3.4 Consensus size: 41
38036879 CGTTTGGATA
* *
38036889 AAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTTCA-
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTTTAG
* *
38036929 AAAAATGCCGCTAAAGATCGAGCATTAGCGGCGCTTTTT-G
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTTTAG
* *
38036969 AAAAACGCCGCTAAAAAT-GAGCATTAACGACG-TTTCTTAG
1 AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTT-TTAG
* *
38037009 AAAAGCGCCGCAAAAAA
1 AAAAACGCCGCTAAAAA
38037026 CCTAAGCCCA
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
38 3 0.04
39 14 0.17
40 67 0.80
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.20
Consensus pattern (41 bp):
AAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTTTTAG
Found at i:38037119 original size:41 final size:40
Alignment explanation
Indices: 38037062--38037214 Score: 191
Period size: 41 Copynumber: 3.7 Consensus size: 40
38037052 ACCTTTCGGG
38037062 GCTTTAGCCGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGA
1 GCTTTAG-CGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGA
* *
38037103 GCTTTAGCGACGTTTTTGGAAAAGCGCTGCTAATGCTCAGA
1 GCTTTAGCG-CGTTTTTGAAAAAGCGCCGCTAATGCTCAGA
* * *
38037144 GCTTTAGCGGCGTTTTTTAGAAAAGCGTCGCTAATGCTC-GG
1 GCTTTAGC-GCGTTTTTGA-AAAAGCGCCGCTAATGCTCAGA
* *
38037185 GATTTAGCTGCGTTTTTAAAAAAGCGCCGC
1 GCTTTAGC-GCGTTTTTGAAAAAGCGCCGC
38037215 AAAAACATTT
Statistics
Matches: 98, Mismatches: 11, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
40 12 0.12
41 68 0.69
42 18 0.18
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (40 bp):
GCTTTAGCGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGA
Found at i:38037530 original size:14 final size:14
Alignment explanation
Indices: 38037513--38037549 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
38037503 GGGTTTAATA
*
38037513 TATATGTTTTAGGG
1 TATATGGTTTAGGG
38037527 TATATGGTTTAGGG
1 TATATGGTTTAGGG
38037541 TATATGGTT
1 TATATGGTT
38037550 AATTTAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.49
Consensus pattern (14 bp):
TATATGGTTTAGGG
Found at i:38037626 original size:14 final size:15
Alignment explanation
Indices: 38037598--38037630 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
38037588 AAGGTTTATA
38037598 GATTATGGAATTAGG
1 GATTATGGAATTAGG
38037613 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
38037627 GATT
1 GATT
38037631 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:38037735 original size:7 final size:7
Alignment explanation
Indices: 38037723--38037747 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
38037713 CGATGTCAGG
38037723 TTAGGGT
1 TTAGGGT
38037730 TTAGGGT
1 TTAGGGT
38037737 TTAGGGT
1 TTAGGGT
38037744 TTAG
1 TTAG
38037748 ATTAATTAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.40, T:0.44
Consensus pattern (7 bp):
TTAGGGT
Found at i:38037796 original size:7 final size:7
Alignment explanation
Indices: 38037784--38037871 Score: 61
Period size: 7 Copynumber: 12.4 Consensus size: 7
38037774 TAAATAATGT
38037784 TTAGGGG
1 TTAGGGG
38037791 TTAGGGG
1 TTAGGGG
*
38037798 TTTGGGGG
1 -TTAGGGG
**
38037806 TTAGTAG
1 TTAGGGG
38037813 TTAGGGG
1 TTAGGGG
*
38037820 TTTGGGG
1 TTAGGGG
*
38037827 TTTGGGG
1 TTAGGGG
*
38037834 TTTGGGG
1 TTAGGGG
*
38037841 TTTA-GGA
1 -TTAGGGG
38037848 TTAGGGG
1 TTAGGGG
**
38037855 TTAAAGG
1 TTAGGGG
*
38037862 TTAGAGG
1 TTAGGGG
38037869 TTA
1 TTA
38037872 AGAGTTAGTA
Statistics
Matches: 65, Mismatches: 13, Indels: 6
0.77 0.15 0.07
Matches are distributed among these distances:
6 3 0.05
7 54 0.83
8 8 0.12
ACGTcount: A:0.16, C:0.00, G:0.48, T:0.36
Consensus pattern (7 bp):
TTAGGGG
Found at i:38037833 original size:14 final size:15
Alignment explanation
Indices: 38037782--38037856 Score: 75
Period size: 14 Copynumber: 5.2 Consensus size: 15
38037772 ATTAAATAAT
38037782 GTTTAGGGGTTAGGG
1 GTTTAGGGGTTAGGG
* **
38037797 GTTTGGGGGTTAGTA
1 GTTTAGGGGTTAGGG
*
38037812 G-TTAGGGGTTTGGG
1 GTTTAGGGGTTAGGG
*
38037826 GTTT-GGGGTTTGGG
1 GTTTAGGGGTTAGGG
*
38037840 GTTTA-GGATTAGGG
1 GTTTAGGGGTTAGGG
38037854 GTT
1 GTT
38037857 AAAGGTTAGA
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
14 34 0.69
15 15 0.31
ACGTcount: A:0.11, C:0.00, G:0.51, T:0.39
Consensus pattern (15 bp):
GTTTAGGGGTTAGGG
Found at i:38037845 original size:29 final size:30
Alignment explanation
Indices: 38037782--38037856 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 30
38037772 ATTAAATAAT
*
38037782 GTTTAGGGGTTAGGGGTTTGGGGGTTAGTA
1 GTTTAGGGGTTAGGGGTTTGGGGGTTAGGA
* * *
38037812 G-TTAGGGGTTTGGGGTTT-GGGGTTTGGG
1 GTTTAGGGGTTAGGGGTTTGGGGGTTAGGA
*
38037840 GTTTA-GGATTAGGGGTT
1 GTTTAGGGGTTAGGGGTT
38037857 AAAGGTTAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
28 18 0.47
29 19 0.50
30 1 0.03
ACGTcount: A:0.11, C:0.00, G:0.51, T:0.39
Consensus pattern (30 bp):
GTTTAGGGGTTAGGGGTTTGGGGGTTAGGA
Found at i:38038027 original size:7 final size:7
Alignment explanation
Indices: 38037984--38038023 Score: 62
Period size: 7 Copynumber: 5.6 Consensus size: 7
38037974 ATTGTAAAAG
38037984 AGGGGTT
1 AGGGGTT
38037991 AGGGGTT
1 AGGGGTT
*
38037998 AGAGGTT
1 AGGGGTT
38038005 AGGGGTT
1 AGGGGTT
38038012 AGGGGTTT
1 AGGGG-TT
38038020 AGGG
1 AGGG
38038024 TTTATGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
7 24 0.80
8 6 0.20
ACGTcount: A:0.17, C:0.00, G:0.55, T:0.28
Consensus pattern (7 bp):
AGGGGTT
Found at i:38038781 original size:122 final size:126
Alignment explanation
Indices: 38038527--38038828 Score: 434
Period size: 122 Copynumber: 2.4 Consensus size: 126
38038517 AAAATTTAGC
* *
38038527 ATAGCAAAACAGTGTCGTTTTATTCCAAATGAATTAATTTTTTGCGACGTTTTAGTAAGCAATAG
1 ATAGCAAAACAGTGTCGTTTTATTCCAAATGAAATAATTTTTTGCGGCG--TTAGTAAGCAATAG
* * *
38038592 CGGCGTTTTATAAAAAAAACGCCACAAAAAATAATTTTACTTTAAAAAAATAGCGCCATTTTAT
64 CGACATTTTATAAAAAAAACGCCACAAAAAATAAATTTA-TTTAAAAAAATAGCGCCATTTTAT
* *
38038656 ATAGCAAAATAGTGTC-TTTTAATCCAAATGAAATAA-TTTTTGCGGCGTTAGGTAAGCAATAGC
1 ATAGCAAAACAGTGTCGTTTTATTCCAAATGAAATAATTTTTTGCGGCGTTA-GTAAGCAATAGC
* *
38038719 GACATTTT-TATAAAAAATGCCAC-AAAAATAAATTT-TTTAAAAAAATAGCGCCATTTTAT
65 GACATTTTATAAAAAAAACGCCACAAAAAATAAATTTATTTAAAAAAATAGCGCCATTTTAT
* *
38038778 ATAGCAAAACAGTGTCGTTTTATTCCAAATGCAATAATTTTTTGTGGCGTT
1 ATAGCAAAACAGTGTCGTTTTATTCCAAATGAAATAATTTTTTGCGGCGTT
38038829 TTTTATAAAA
Statistics
Matches: 157, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
122 39 0.25
123 18 0.11
124 23 0.15
125 16 0.10
126 18 0.11
127 10 0.06
128 18 0.11
129 15 0.10
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (126 bp):
ATAGCAAAACAGTGTCGTTTTATTCCAAATGAAATAATTTTTTGCGGCGTTAGTAAGCAATAGCG
ACATTTTATAAAAAAAACGCCACAAAAAATAAATTTATTTAAAAAAATAGCGCCATTTTAT
Found at i:38039584 original size:6 final size:6
Alignment explanation
Indices: 38039568--38039600 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
38039558 TGTGGTTTGA
38039568 TTTTA- TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
38039601 TTGAAGGGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:38041002 original size:18 final size:18
Alignment explanation
Indices: 38040979--38041014 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
38040969 TATTTTTCAT
*
38040979 TTGCTTCAATTTCTATGC
1 TTGCTTCAATTTCCATGC
38040997 TTGCTTCAATTTCCATGC
1 TTGCTTCAATTTCCATGC
38041015 CTTACAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.25, G:0.11, T:0.47
Consensus pattern (18 bp):
TTGCTTCAATTTCCATGC
Found at i:38041931 original size:43 final size:43
Alignment explanation
Indices: 38041842--38042037 Score: 188
Period size: 43 Copynumber: 4.6 Consensus size: 43
38041832 TAATTTGTTT
* * *
38041842 TAAAAGTCATGT-TTTTAGCGGCGTTTGT-GAAAAAGCGTCGC
1 TAAAGGTCATGTCTTTTAGTGGCGTTTGTGGAAAAAGCGCCGC
* *
38041883 TAAAGGTCAT-TCTTTATAGTGGCGTTTGTGGTAGAAGCGCCGC
1 TAAAGGTCATGTCTTT-TAGTGGCGTTTGTGGAAAAAGCGCCGC
* *
38041926 AAAAGGTCATGATC-TTTAGTGGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCATG-TCTTTTAGTGGCGTTTGTGGAAAAAGCGCCGC
* * * *
38041969 TAAAGGTCATGACTTTTAGCGGCGTTT-T-TATAAAAGTGCCGC
1 TAAAGGTCATGTCTTTTAGTGGCGTTTGTGGA-AAAAGCGCCGC
* * * *
38042011 TAAAAGTCATGGCCTTTAGCGGCGTTT
1 TAAAGGTCATGTCTTTTAGTGGCGTTT
38042038 ATTTCTAAAA
Statistics
Matches: 131, Mismatches: 17, Indels: 13
0.81 0.11 0.08
Matches are distributed among these distances:
40 1 0.01
41 12 0.09
42 48 0.37
43 66 0.50
44 2 0.02
45 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.31
Consensus pattern (43 bp):
TAAAGGTCATGTCTTTTAGTGGCGTTTGTGGAAAAAGCGCCGC
Found at i:38042028 original size:85 final size:85
Alignment explanation
Indices: 38041842--38042037 Score: 229
Period size: 85 Copynumber: 2.3 Consensus size: 85
38041832 TAATTTGTTT
* * * *
38041842 TAAAAGTCAT-GTTTTTAGCGGCGTTTGTGAAAAAGCGTCGCTAAAGGTCATTCTTTATAGTGGC
1 TAAAAGTCATGGTCTTTAGCGGCGTTTGTGAAAAAGCGCCGCTAAAGGTCATACTTTATAGCGGC
* *
38041906 GTTTGTGGTAGAAGCGCCGC
66 GTTTGTGATAAAAGCGCCGC
* * *
38041926 -AAAAGGTCATGATCTTTAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACTTT-TAGC
1 TAAAA-GTCATGGTCTTTAGCGGCGTTTGT-GAAAAAGCGCCGCTAAAGGTCAT-ACTTTATAGC
* *
38041989 GGCGTTT-TTATAAAAGTGCCGC
63 GGCGTTTGTGATAAAAGCGCCGC
*
38042011 TAAAAGTCATGGCCTTTAGCGGCGTTT
1 TAAAAGTCATGGTCTTTAGCGGCGTTT
38042038 ATTTCTAAAA
Statistics
Matches: 93, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
83 4 0.04
84 5 0.05
85 45 0.48
86 35 0.38
87 4 0.04
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.31
Consensus pattern (85 bp):
TAAAAGTCATGGTCTTTAGCGGCGTTTGTGAAAAAGCGCCGCTAAAGGTCATACTTTATAGCGGC
GTTTGTGATAAAAGCGCCGC
Found at i:38043302 original size:13 final size:13
Alignment explanation
Indices: 38043284--38043311 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
38043274 GTTATTCATA
38043284 ATTAATATGAATT
1 ATTAATATGAATT
38043297 ATTAATATGAATT
1 ATTAATATGAATT
38043310 AT
1 AT
38043312 AGACTCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
ATTAATATGAATT
Found at i:38043455 original size:12 final size:12
Alignment explanation
Indices: 38043430--38043477 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
38043420 AATGTATACA
* *
38043430 AAAAATAGAAAT
1 AAAAATATATAT
38043442 AAAAATATATAT
1 AAAAATATATAT
* *
38043454 AATAATATATAA
1 AAAAATATATAT
38043466 AAATAATATATA
1 AAA-AATATATA
38043478 AATATAAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
12 22 0.73
13 8 0.27
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (12 bp):
AAAAATATATAT
Found at i:38043457 original size:21 final size:20
Alignment explanation
Indices: 38043440--38043490 Score: 77
Period size: 19 Copynumber: 2.5 Consensus size: 20
38043430 AAAAATAGAA
38043440 ATAAAAATATATATAATAATAT
1 ATAAAAATA-ATATAATAA-AT
38043462 ATAAAAATAATAT-ATAAAT
1 ATAAAAATAATATAATAAAT
38043481 ATAAAAATAA
1 ATAAAAATAA
38043491 CTAAAATAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.41
20 4 0.14
21 4 0.14
22 9 0.31
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAAAAATAATATAATAAAT
Found at i:38043472 original size:13 final size:13
Alignment explanation
Indices: 38043445--38043484 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
38043435 TAGAAATAAA
*
38043445 AATATAT-ATAAT
1 AATATATAAAAAT
38043457 AATATATAAAAAT
1 AATATATAAAAAT
*
38043470 AATATATAAATAT
1 AATATATAAAAAT
38043483 AA
1 AA
38043485 AAATAACTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 7 0.28
13 18 0.72
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
AATATATAAAAAT
Found at i:38043498 original size:25 final size:25
Alignment explanation
Indices: 38043443--38043541 Score: 78
Period size: 25 Copynumber: 4.0 Consensus size: 25
38043433 AATAGAAATA
* * *
38043443 AAAATATATATAATA-ATATATAAA
1 AAAATATATAGAATATATAAATAAT
*
38043467 AATAATATATA-AATATAAAAATAACT
1 AA-AATATATAGAATATATAAATAA-T
* *
38043493 AAAATAGT-TAGAATATATATAGAAT
1 AAAATA-TATAGAATATATAAATAAT
* *
38043518 AAAATAGATATAATATATAAATAA
1 AAAATATATAGAATATATAAATAA
38043542 ATTGAATAGA
Statistics
Matches: 59, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
24 6 0.10
25 40 0.68
26 13 0.22
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (25 bp):
AAAATATATAGAATATATAAATAAT
Found at i:38043543 original size:21 final size:22
Alignment explanation
Indices: 38043507--38043569 Score: 60
Period size: 21 Copynumber: 2.9 Consensus size: 22
38043497 TAGTTAGAAT
*
38043507 ATATATAGAATAAAATAG-ATATA
1 ATATATA-AAT-AAATAGAATAGA
*
38043530 ATATATAAATAAATTGAATAGA
1 ATATATAAATAAATAGAATAGA
*
38043552 ATAT-TAAATATATA-AATA
1 ATATATAAATAAATAGAATA
38043570 AATTAAACCA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 4 0.11
21 13 0.37
22 11 0.31
23 7 0.20
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.33
Consensus pattern (22 bp):
ATATATAAATAAATAGAATAGA
Found at i:38043554 original size:22 final size:22
Alignment explanation
Indices: 38043487--38043561 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
38043477 AAATATAAAA
* *
38043487 ATAACTAAAATAGTTAGAATATAT
1 ATAAATAAAATAGATAG-A-ATAT
*
38043511 ATAGAATAAAATAGATATAATAT
1 ATA-AATAAAATAGATAGAATAT
*
38043534 ATAAAT-AAATTGAATAGAATAT
1 ATAAATAAAATAG-ATAGAATAT
38043556 -TAAATA
1 ATAAATA
38043562 TATAAATAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
21 10 0.23
22 11 0.26
23 7 0.16
24 4 0.09
25 11 0.26
ACGTcount: A:0.59, C:0.01, G:0.08, T:0.32
Consensus pattern (22 bp):
ATAAATAAAATAGATAGAATAT
Found at i:38043978 original size:90 final size:90
Alignment explanation
Indices: 38043825--38044005 Score: 317
Period size: 90 Copynumber: 2.0 Consensus size: 90
38043815 AAAACCACAA
* * * *
38043825 ACATATTGGTTAAAATTATTAACATAATTGCATGCTTTACTGTGCATTTGAGCTTGAATTCCATC
1 ACATATTGGTCAAAATTATTAACATAATTGCATGCATTACTGTACATTTGAGCTTGAATTCCATA
38043890 TATTAACTCCCATTATACCTATTAT
66 TATTAACTCCCATTATACCTATTAT
38043915 ACATATTGGTCAAAATTATTAACATAATTGCATGCATTACTGTACATTTGAGCTTGAATTCCATA
1 ACATATTGGTCAAAATTATTAACATAATTGCATGCATTACTGTACATTTGAGCTTGAATTCCATA
*
38043980 TATTAACTCCCATTATACCTGTTAT
66 TATTAACTCCCATTATACCTATTAT
38044005 A
1 A
38044006 GCTTAAATTT
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 86 1.00
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.40
Consensus pattern (90 bp):
ACATATTGGTCAAAATTATTAACATAATTGCATGCATTACTGTACATTTGAGCTTGAATTCCATA
TATTAACTCCCATTATACCTATTAT
Found at i:38044250 original size:16 final size:16
Alignment explanation
Indices: 38044229--38044299 Score: 90
Period size: 16 Copynumber: 4.4 Consensus size: 16
38044219 GTTTGGTTCA
38044229 CTGTAATGAAATAGAG
1 CTGTAATGAAATAGAG
*
38044245 CTGTAATTAAATAGAG
1 CTGTAATGAAATAGAG
*
38044261 TTGTAATTG-AATAGAG
1 CTGTAA-TGAAATAGAG
*
38044277 CTGTAATGTAATAGAG
1 CTGTAATGAAATAGAG
*
38044293 TTGTAAT
1 CTGTAAT
38044300 CAGTAATCCA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
15 2 0.04
16 45 0.94
17 1 0.02
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.34
Consensus pattern (16 bp):
CTGTAATGAAATAGAG
Found at i:38044274 original size:32 final size:33
Alignment explanation
Indices: 38044230--38044299 Score: 110
Period size: 32 Copynumber: 2.2 Consensus size: 33
38044220 TTTGGTTCAC
38044230 TGTAA-TGAAATAGAGCTGTAAT-TAAATAGAGT
1 TGTAATTGAAATAGAGCTGTAATGT-AATAGAGT
38044262 TGTAATTG-AATAGAGCTGTAATGTAATAGAGT
1 TGTAATTGAAATAGAGCTGTAATGTAATAGAGT
38044294 TGTAAT
1 TGTAAT
38044300 CAGTAATCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
32 33 0.92
33 3 0.08
ACGTcount: A:0.40, C:0.03, G:0.23, T:0.34
Consensus pattern (33 bp):
TGTAATTGAAATAGAGCTGTAATGTAATAGAGT
Found at i:38044593 original size:58 final size:58
Alignment explanation
Indices: 38044463--38044599 Score: 154
Period size: 58 Copynumber: 2.4 Consensus size: 58
38044453 TATTGTTATT
* *
38044463 AAATTTTAATA-AGATTTTTATTAAAAATAATTTAATAAAAATAATGAATAATATAACC
1 AAATTTTAATATA-ATTATTATTAAAAATAATTTAATAAAAATAATGAATAATATAACA
* * * * * *
38044521 ATATTTTAACATAATTATTATTAAATATAATTTAAT-AAAATAAT-ATTTAATTTAATA
1 AAATTTTAATATAATTATTATTAAAAATAATTTAATAAAAATAATGA-ATAATATAACA
38044578 AAATTCTTAATATAATTATTAT
1 AAATT-TTAATATAATTATTAT
38044600 ATGAATTAAA
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
56 1 0.02
57 19 0.29
58 45 0.68
59 1 0.02
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (58 bp):
AAATTTTAATATAATTATTATTAAAAATAATTTAATAAAAATAATGAATAATATAACA
Found at i:38050031 original size:3 final size:3
Alignment explanation
Indices: 38050023--38050071 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
38050013 TAATATTTCC
38050023 ATT ATT ATT ATT 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 ATT ATT ATT ATT
38050071 A
1 A
38050072 GCTTTTTATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:38054207 original size:14 final size:14
Alignment explanation
Indices: 38054190--38054217 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
38054180 AAAGAATTTT
38054190 GTTTTCTAAATGAA
1 GTTTTCTAAATGAA
38054204 GTTTTCTAAATGAA
1 GTTTTCTAAATGAA
38054218 ATTGAATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (14 bp):
GTTTTCTAAATGAA
Found at i:38069020 original size:24 final size:25
Alignment explanation
Indices: 38068993--38069046 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
38068983 ACATGTTTAT
*
38068993 TTTTTAAAAT-TTTTAAATAATATA
1 TTTTTAAAATATTTTAAAAAATATA
*
38069017 TTTTT-ATATATTTTAAAAAATATA
1 TTTTTAAAATATTTTAAAAAATATA
*
38069041 TATTTA
1 TTTTTA
38069047 CTAATTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TTTTTAAAATATTTTAAAAAATATA
Found at i:38073657 original size:18 final size:18
Alignment explanation
Indices: 38073615--38073657 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
38073605 ATTTATCTCC
38073615 TGTCATTTCCCCTCTTTTA
1 TGTCA-TTCCCCTCTTTTA
38073634 TG-CATTCCCCTCTTTGT-
1 TGTCATTCCCCTCTTT-TA
38073651 TGTCATT
1 TGTCATT
38073658 GTTCTTATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 13 0.59
18 7 0.32
19 2 0.09
ACGTcount: A:0.09, C:0.30, G:0.09, T:0.51
Consensus pattern (18 bp):
TGTCATTCCCCTCTTTTA
Found at i:38074638 original size:18 final size:18
Alignment explanation
Indices: 38074611--38074662 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
38074601 AAAGGAAATA
*
38074611 AAAAAGAAAGAAATAAAG
1 AAAAAGAAAGAAAAAAAG
* *
38074629 AAAAATAAAGAAAAAAAT
1 AAAAAGAAAGAAAAAAAG
*
38074647 AAAAA-AGAGAAAAAAA
1 AAAAAGAAAGAAAAAAA
38074663 AATCTAGTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 10 0.33
18 20 0.67
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.06
Consensus pattern (18 bp):
AAAAAGAAAGAAAAAAAG
Found at i:38074663 original size:18 final size:18
Alignment explanation
Indices: 38074606--38074663 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
38074596 AAAGAAAAGG
38074606 AAATAAAAAAGA-AAGAAA
1 AAATAAAAAAGAGAA-AAA
* *
38074624 TAAAGAAAAATAAAG-AAAA
1 -AAATAAAAA-AGAGAAAAA
38074643 AAATAAAAAAGAGAAAAA
1 AAATAAAAAAGAGAAAAA
38074661 AAA
1 AAA
38074664 ATCTAGTGAC
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
17 3 0.09
18 15 0.47
19 11 0.34
20 3 0.09
ACGTcount: A:0.83, C:0.00, G:0.10, T:0.07
Consensus pattern (18 bp):
AAATAAAAAAGAGAAAAA
Found at i:38075628 original size:26 final size:25
Alignment explanation
Indices: 38075591--38075644 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
38075581 AACACACCAA
* * *
38075591 TATCGCAGCAAAGCTGCTAGTAACAG
1 TATCGCAACAAAGCTACCAGT-ACAG
38075617 TATCGCAACAAAGCTACCAGTACAG
1 TATCGCAACAAAGCTACCAGTACAG
38075642 TAT
1 TAT
38075645 ACTTCCTCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (25 bp):
TATCGCAACAAAGCTACCAGTACAG
Found at i:38081378 original size:6 final size:6
Alignment explanation
Indices: 38081315--38081384 Score: 63
Period size: 6 Copynumber: 11.5 Consensus size: 6
38081305 GTTTTATTTG
* * *
38081315 TTTTAT TTTTAAT TTTCT-T TTTTAT GTTTAT GTTTAT TTCTAT TTTTAGT
1 TTTTAT TTTT-AT TTT-TAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTA-T
*
38081365 TGTT-T TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTT
38081385 ATTGTACTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
5 5 0.09
6 38 0.72
7 9 0.17
8 1 0.02
ACGTcount: A:0.14, C:0.03, G:0.06, T:0.77
Consensus pattern (6 bp):
TTTTAT
Found at i:38091587 original size:21 final size:22
Alignment explanation
Indices: 38091550--38091613 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 22
38091540 AAATATAAAA
*
38091550 AATATATATAATAAAATAG-ATGT
1 AATATATA-AAT-AAATAGAATAT
*
38091573 AATATATAAATAAATTGAATAT
1 AATATATAAATAAATAGAATAT
*
38091595 AATAT-TAAATATATA-AATA
1 AATATATAAATAAATAGAATA
38091614 AATTAAACCA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 4 0.11
21 13 0.36
22 11 0.31
23 8 0.22
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (22 bp):
AATATATAAATAAATAGAATAT
Found at i:38091618 original size:17 final size:17
Alignment explanation
Indices: 38091573--38091620 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 17
38091563 AAATAGATGT
38091573 AATATATAAATAAATT-
1 AATATATAAATAAATTA
*
38091589 GA-ATAT-AAT--ATTA
1 AATATATAAATAAATTA
38091602 AATATATAAATAAATTA
1 AATATATAAATAAATTA
38091619 AA
1 AA
38091621 CCAAAAGAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 9
0.69 0.06 0.25
Matches are distributed among these distances:
12 3 0.12
13 1 0.04
14 7 0.28
15 7 0.28
16 1 0.04
17 6 0.24
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (17 bp):
AATATATAAATAAATTA
Found at i:38093497 original size:25 final size:25
Alignment explanation
Indices: 38093469--38093538 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
38093459 GTTACAGATT
*
38093469 TCAGCTCTTATGAGCTTACCGATAC
1 TCAGCTCGTATGAGCTTACCGATAC
* *
38093494 TCAGCTCGTATGAGCTTACCGTTAT
1 TCAGCTCGTATGAGCTTACCGATAC
* * *
38093519 TCAGCTTGGAGGAGCTTACC
1 TCAGCTCGTATGAGCTTACC
38093539 ATTATTCAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (25 bp):
TCAGCTCGTATGAGCTTACCGATAC
Found at i:38093543 original size:25 final size:25
Alignment explanation
Indices: 38093505--38093574 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
38093495 CAGCTCGTAT
*
38093505 GAGCTTACCGTTATTCAGCTTGGAG
1 GAGCTTACCATTATTCAGCTTGGAG
* *
38093530 GAGCTTACCATTATTCAACTCGGAG
1 GAGCTTACCATTATTCAGCTTGGAG
*
38093555 GAGCTTACCATT-TACAGCTT
1 GAGCTTACCATTATTCAGCTT
38093575 TTATGAGTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
24 5 0.13
25 34 0.87
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.31
Consensus pattern (25 bp):
GAGCTTACCATTATTCAGCTTGGAG
Found at i:38096075 original size:5 final size:5
Alignment explanation
Indices: 38096065--38096089 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
38096055 AATCAAAACA
38096065 CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT
38096090 TCTATGCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:38096161 original size:24 final size:23
Alignment explanation
Indices: 38096119--38096237 Score: 57
Period size: 24 Copynumber: 4.9 Consensus size: 23
38096109 CAAAACTTGA
**
38096119 TTTCTTTTCTTTTGAATTTTCTTCT
1 TTTC-TTTCTTTTTCATTTTCTT-T
38096144 TTTCTTTCTTTTTCATTTT-TTT
1 TTTCTTTCTTTTTCATTTTCTTT
* *
38096166 CAGTTTTTTTATTTTT-ATTTT-TATT
1 ---TTTCTTTCTTTTTCATTTTCT-TT
*
38096191 TTTTTTTCATTTTTTCATTTTCATTT
1 TTTCTTTC--TTTTTCATTTTC-TTT
* *
38096217 CTTCTTT-TTCTCTCATTTTCT
1 TTTCTTTCTT-TTTCATTTTCT
38096238 CCATAGATCG
Statistics
Matches: 76, Mismatches: 8, Indels: 22
0.72 0.08 0.21
Matches are distributed among these distances:
22 8 0.11
23 5 0.07
24 33 0.43
25 22 0.29
26 7 0.09
27 1 0.01
ACGTcount: A:0.09, C:0.14, G:0.02, T:0.75
Consensus pattern (23 bp):
TTTCTTTCTTTTTCATTTTCTTT
Found at i:38096163 original size:8 final size:8
Alignment explanation
Indices: 38096152--38096211 Score: 52
Period size: 9 Copynumber: 7.4 Consensus size: 8
38096142 CTTTTCTTTC
38096152 TTTTTCATT
1 TTTTTCA-T
38096161 TTTTTCAGT
1 TTTTTCA-T
*
38096170 TTTTTTA-
1 TTTTTCAT
38096177 TTTTT-AT
1 TTTTTCAT
**
38096184 TTTTATTTT
1 TTTT-TCAT
38096193 TTTTTCAT
1 TTTTTCAT
38096201 TTTTTCAT
1 TTTTTCAT
38096209 TTT
1 TTT
38096212 CATTTCTTCT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
6 1 0.02
7 9 0.21
8 14 0.33
9 19 0.44
ACGTcount: A:0.12, C:0.07, G:0.02, T:0.80
Consensus pattern (8 bp):
TTTTTCAT
Found at i:38096175 original size:11 final size:11
Alignment explanation
Indices: 38096143--38096205 Score: 55
Period size: 10 Copynumber: 6.1 Consensus size: 11
38096133 AATTTTCTTC
*
38096143 TTTTC-TTTCT
1 TTTTCATTTTT
38096153 TTTTCA--TTT
1 TTTTCATTTTT
*
38096162 TTTTCA-GTTT
1 TTTTCATTTTT
38096172 TTTT-ATTTTT
1 TTTTCATTTTT
*
38096182 ATTTTTATTTTT
1 -TTTTCATTTTT
38096194 TTTTCATTTTT
1 TTTTCATTTTT
38096205 T
1 T
38096206 CATTTTCATT
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
9 9 0.20
10 15 0.33
11 15 0.33
12 6 0.13
ACGTcount: A:0.10, C:0.08, G:0.02, T:0.81
Consensus pattern (11 bp):
TTTTCATTTTT
Found at i:38096180 original size:6 final size:6
Alignment explanation
Indices: 38096171--38096204 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
38096161 TTTTTCAGTT
*
38096171 TTTTTA TTTTTA TTTTTA TTTTT- TTTTCA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
38096205 TCATTTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:38096186 original size:12 final size:11
Alignment explanation
Indices: 38096169--38096205 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
38096159 TTTTTTTCAG
38096169 TTTTTTTATTT
1 TTTTTTTATTT
38096180 TTATTTTTATTT
1 TT-TTTTTATTT
*
38096192 TTTTTTCATTT
1 TTTTTTTATTT
38096203 TTT
1 TTT
38096206 CATTTTCATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 13 0.54
12 11 0.46
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTTTATTT
Found at i:38096194 original size:31 final size:32
Alignment explanation
Indices: 38096134--38096235 Score: 93
Period size: 32 Copynumber: 3.2 Consensus size: 32
38096124 TTTCTTTTGA
*
38096134 ATTTTCTTC-TTTTC-TTTCTTTTTCATTTTTTTC
1 ATTTT-TTCATTTTCATTTCTTATT--TTTTTTTC
* *
38096167 AGTTTTTTTATTTTTATTT-TTATTTTTTTTTC
1 A-TTTTTTCATTTTCATTTCTTATTTTTTTTTC
* * *
38096199 ATTTTTTCATTTTCATTTCTTCTTTTTCTCTC
1 ATTTTTTCATTTTCATTTCTTATTTTTTTTTC
38096231 ATTTT
1 ATTTT
38096236 CTCCATAGAT
Statistics
Matches: 57, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
31 15 0.26
32 24 0.42
33 3 0.05
34 12 0.21
35 3 0.05
ACGTcount: A:0.10, C:0.14, G:0.01, T:0.75
Consensus pattern (32 bp):
ATTTTTTCATTTTCATTTCTTATTTTTTTTTC
Found at i:38098662 original size:724 final size:723
Alignment explanation
Indices: 38097276--38098723 Score: 2556
Period size: 724 Copynumber: 2.0 Consensus size: 723
38097266 ACACTTCTCG
* *
38097276 TCCCTTGGGAAAGATTTTAGAGCTTTTGGAAAAGCTCTCGATGTTAATATGAAGGAATGAACCTC
1 TCCCTTGGGAAAGATTTTAGAGCTTTTGGAAAAGCTCTCGATGGTAATACGAAGGAATGAACCTC
*
38097341 TGACGCATTACAACCTTCATCTCAGCCCAAGTGTTGGTAGAACGCTTGCCATTCTGCCTCCGGCT
66 TGACACATTACAACCTTCATCTCAGCCCAAGTGTTGGTAGAACGCTTGCCATTCTGCCTCCGGCT
* *
38097406 CGCAGTGAGTTGGTCCCACCAAATCATGGCATAATCTAAAAATTCTATAGCAGCCAACTTGACCT
131 CGCAGTGAGTTGATCCCACCAAATCATGGCATAATCTAAAAATTCTATAGCAACCAACTTGACCT
38097471 TCTTGGCCTCGGAGTAATTGTGACATTCAAACATGAGTTCCATTTTCTTCTCCTACTCGAGATAG
196 TCTTGGCCTCGGAGTAATTGTGACATTCAAACATGAGTTCCATTTTCTTCTCCTACTCGAGATAG
* * *
38097536 GCTTCTGAATCTGAATGGCCCTAGAAAGGAGGGATGGTTAGCTTAATAATTTTGAGATTGTCATT
261 GCTTCTGAATCTGAACGGCCCTAGAAAGGAGGAATGGTTAGCTTAATAATTTTGAGATCGTCATT
*
38097601 GTACCTTTCTTGATCTCGTTGACCACAGTGATGTTGGTTTCTCCTCCGGTCACTTATATTCGAGC
326 GTACCTTTCTTGATCTCGTTGACCACAGTGATGTTGGTCTCTCCTCCGGTCACTTATATTCGAGC
* * *
38097666 CTTGGTCGCTCTCGGCCTCACTTGGTTCGGATAATTCATCGTCTTGGATTTATCGTCGACAATAA
391 CTTGGTCGCTCTCGGCCTCACTCGGTTCGGATAATTCATCATCTTGGATTTATCGTCGACAACAA
* **
38097731 TTTCTTGGTGGACTTGGAGGAGTCCTTTCTAGTCTGGCTCTTCCTTCCACATGGTCAAGTCTATC
456 TTTCTTGGTGGACTTGGAGGAATCCTTTCTAGTCCAGCTCTTCCTTCCACATGGTCAAGTCTATC
*
38097796 TTGAATCGACTCCAGTTTTCGGTCAAACAAGCTTTCAACCTCGCGTAATAAGGCTTGCATGTTCA
521 TTGAATCGACTCCAGTTTTCGGTCAAACAAGCTTTCAACCTCGCGCAATAAGGCTTGCATGTTCA
* * * *
38097861 AATCTGGCACATTCTGAATATGTTGTCCTTCCGCCATATTTCTTTCAGGGCTTCTAGACATAGGG
586 AATCTGGCACATTCTGAATAGGTTATCCTTCCGCCATATTTCTTTCAGGGCTTCTAGACATAAGA
38097926 ATGGTAATACCTCACTTACAAAAACTCACAATTCCACTCAGAAAGAAAATAATTATTTTCACTCA
651 ATGGTAATACCTCACTTACAAAAACTCACAATTCCACTCAGAAA-AAAATAATTATTTTCACTCA
38097991 CTCTCGTGT
715 CTCTCGTGT
38098000 TCCCTTGGGAAAGATTTTAGAGCTTTTGGAAAAGCTCTCGATGGTAATACGAAGGAATGAACCTC
1 TCCCTTGGGAAAGATTTTAGAGCTTTTGGAAAAGCTCTCGATGGTAATACGAAGGAATGAACCTC
** * *
38098065 TGACACATTACAACCTTCATCTTGGCGCAAGTGTTGGTAGAACAG-TTGCCATTCTGCCTCTGGC
66 TGACACATTACAACCTTCATCTCAGCCCAAGTGTTGGTAGAAC-GCTTGCCATTCTGCCTCCGGC
* *
38098129 TCGTAGTGAGTTGATCCCACCAAATCATGGCATAATCTAAAAATTCTATAGGAACCAACTTGACC
130 TCGCAGTGAGTTGATCCCACCAAATCATGGCATAATCTAAAAATTCTATAGCAACCAACTTGACC
38098194 TTCTTGGCCTCGGAGTAATTGTGACATTCAAACATGAGTTCCATTTTCTTCTCCTACTCGAGATA
195 TTCTTGGCCTCGGAGTAATTGTGACATTCAAACATGAGTTCCATTTTCTTCTCCTACTCGAGATA
* **
38098259 GGCTTCTGAATCTGAACGGCCCTGGAAAGGAGGAATGGTTAGCTTAATGCTTTTGAGATCGTCAT
260 GGCTTCTGAATCTGAACGGCCCTAGAAAGGAGGAATGGTTAGCTTAATAATTTTGAGATCGTCAT
38098324 TGTACCTTTCTTGATCTCGTTGACCACAGTGATGTTGGTCTCTCCTCCGGTCACTTATATTCGAG
325 TGTACCTTTCTTGATCTCGTTGACCACAGTGATGTTGGTCTCTCCTCCGGTCACTTATATTCGAG
* *
38098389 CCTTGGTCGCTCTCGGCCTCACTCGGTTCGGATAATTCATCATCTTGGATTTATCGTCGGCCACA
390 CCTTGGTCGCTCTCGGCCTCACTCGGTTCGGATAATTCATCATCTTGGATTTATCGTCGACAACA
*
38098454 ATTTCTTGGTGGACTTGGAGGAATCCTTTCTGGTCCAGCTCTTCCTTCCACATGGTCAAGTCTAT
455 ATTTCTTGGTGGACTTGGAGGAATCCTTTCTAGTCCAGCTCTTCCTTCCACATGGTCAAGTCTAT
38098519 CTTGAATCGACTCCAGTTTTCGGTCAAACAAGCTTTCAACCTCGCGCAATAAGGCTTGCATGTTC
520 CTTGAATCGACTCCAGTTTTCGGTCAAACAAGCTTTCAACCTCGCGCAATAAGGCTTGCATGTTC
* * *
38098584 AAATCTGGCACATTCTGAATAGGTTATCTTTCCGCCATATTTCTTTCGGGGCTTCTAGACTTAAG
585 AAATCTGGCACATTCTGAATAGGTTATCCTTCCGCCATATTTCTTTCAGGGCTTCTAGACATAAG
38098649 AATGGTAATACCTCACTTACAAAAACTCACAATTCCACTCAGAAAAAAATAATTATTTTCACTCA
650 AATGGTAATACCTCACTTACAAAAACTCACAATTCCACTCAGAAAAAAATAATTATTTTCACTCA
38098714 CTCTCGTGT
715 CTCTCGTGT
38098723 T
1 T
38098724 TGTACTCATT
Statistics
Matches: 688, Mismatches: 35, Indels: 3
0.95 0.05 0.00
Matches are distributed among these distances:
723 30 0.04
724 657 0.95
725 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (723 bp):
TCCCTTGGGAAAGATTTTAGAGCTTTTGGAAAAGCTCTCGATGGTAATACGAAGGAATGAACCTC
TGACACATTACAACCTTCATCTCAGCCCAAGTGTTGGTAGAACGCTTGCCATTCTGCCTCCGGCT
CGCAGTGAGTTGATCCCACCAAATCATGGCATAATCTAAAAATTCTATAGCAACCAACTTGACCT
TCTTGGCCTCGGAGTAATTGTGACATTCAAACATGAGTTCCATTTTCTTCTCCTACTCGAGATAG
GCTTCTGAATCTGAACGGCCCTAGAAAGGAGGAATGGTTAGCTTAATAATTTTGAGATCGTCATT
GTACCTTTCTTGATCTCGTTGACCACAGTGATGTTGGTCTCTCCTCCGGTCACTTATATTCGAGC
CTTGGTCGCTCTCGGCCTCACTCGGTTCGGATAATTCATCATCTTGGATTTATCGTCGACAACAA
TTTCTTGGTGGACTTGGAGGAATCCTTTCTAGTCCAGCTCTTCCTTCCACATGGTCAAGTCTATC
TTGAATCGACTCCAGTTTTCGGTCAAACAAGCTTTCAACCTCGCGCAATAAGGCTTGCATGTTCA
AATCTGGCACATTCTGAATAGGTTATCCTTCCGCCATATTTCTTTCAGGGCTTCTAGACATAAGA
ATGGTAATACCTCACTTACAAAAACTCACAATTCCACTCAGAAAAAAATAATTATTTTCACTCAC
TCTCGTGT
Found at i:38099070 original size:17 final size:18
Alignment explanation
Indices: 38099041--38099075 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
38099031 TACTCAAAAT
*
38099041 TTTTTTTACTTCATATAC
1 TTTTTTTACTTCAAATAC
38099059 TTTTTTTA-TTCAAATAC
1 TTTTTTTACTTCAAATAC
38099076 AATTGAACAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.26, C:0.14, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTTTTACTTCAAATAC
Found at i:38101446 original size:32 final size:32
Alignment explanation
Indices: 38101365--38101534 Score: 209
Period size: 32 Copynumber: 5.4 Consensus size: 32
38101355 AAATGGCTAC
* *
38101365 AAGCCATAAGT-ACAGTAATATGATTGGCAC-
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
38101395 AAGCCATCAATAACGGTAATATGATCGACACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* * *
38101427 AAGCCATTAGTAACTGTAATATGATCGGTACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* **
38101459 AAGCCATCAGTAACGGTAATACAATCGGCACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
* *
38101491 AAGCCATCAGTAACAGTAATATGACCGGTACA
1 AAGCCATCAGTAACAGTAATATGATCGGCACA
38101523 AAGCCATCAGTA
1 AAGCCATCAGTA
38101535 GCATCGCAGC
Statistics
Matches: 118, Mismatches: 20, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
30 9 0.08
31 16 0.14
32 93 0.79
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.21
Consensus pattern (32 bp):
AAGCCATCAGTAACAGTAATATGATCGGCACA
Found at i:38101473 original size:64 final size:64
Alignment explanation
Indices: 38101365--38101534 Score: 236
Period size: 64 Copynumber: 2.7 Consensus size: 64
38101355 AAATGGCTAC
* * * **
38101365 AAGCCATAAGT-ACAGTAATATGATTGGCAC-AAGCCATCAATAACGGTAATATGATCGACACA
1 AAGCCATAAGTAACAGTAATATGATCGGTACAAAGCCATCAGTAACGGTAATACAATCGACACA
* * *
38101427 AAGCCATTAGTAACTGTAATATGATCGGTACAAAGCCATCAGTAACGGTAATACAATCGGCACA
1 AAGCCATAAGTAACAGTAATATGATCGGTACAAAGCCATCAGTAACGGTAATACAATCGACACA
* *
38101491 AAGCCATCAGTAACAGTAATATGACCGGTACAAAGCCATCAGTA
1 AAGCCATAAGTAACAGTAATATGATCGGTACAAAGCCATCAGTA
38101535 GCATCGCAGC
Statistics
Matches: 95, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
62 10 0.11
63 16 0.17
64 69 0.73
ACGTcount: A:0.41, C:0.21, G:0.18, T:0.21
Consensus pattern (64 bp):
AAGCCATAAGTAACAGTAATATGATCGGTACAAAGCCATCAGTAACGGTAATACAATCGACACA
Found at i:38101737 original size:24 final size:24
Alignment explanation
Indices: 38101710--38101763 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
38101700 GCTCAGAATT
38101710 AGTCATACAAATCACAGACAAATC
1 AGTCATACAAATCACAGACAAATC
* *
38101734 AGTCATACCAATCGCAGACAAATC
1 AGTCATACAAATCACAGACAAATC
38101758 AGTCAT
1 AGTCAT
38101764 TTACATGTCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.44, C:0.26, G:0.11, T:0.19
Consensus pattern (24 bp):
AGTCATACAAATCACAGACAAATC
Found at i:38101843 original size:27 final size:27
Alignment explanation
Indices: 38101809--38101901 Score: 152
Period size: 27 Copynumber: 3.5 Consensus size: 27
38101799 GGACAAAATA
*
38101809 GTCA-TTTACCCTACAAGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
38101835 GTCATTTTACCCTACAGGGGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
*
38101862 GTCATTTTACCTTACAGGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
38101889 GTCATTTTACCCT
1 GTCATTTTACCCT
38101902 TTAAAGGTAT
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
26 4 0.07
27 57 0.93
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:38101976 original size:54 final size:54
Alignment explanation
Indices: 38101807--38102034 Score: 183
Period size: 54 Copynumber: 4.2 Consensus size: 54
38101797 AGGGACAAAA
* * * * * * *
38101807 TAGTCA-TTTACCCTACAAGGGCATTACGGTCATTTTACCCTACAGGGGCATTA
1 TAGTCATTTTACCTTACAGGGGTATTTCAGTCATTTTACCCTATAGGGGCATTT
* * * * * ** *
38101860 CAGTCATTTTACCTTACAGGGGCATTACGGTCATTTTACCCTTTAAAGGTA-TT
1 TAGTCATTTTACCTTACAGGGGTATTTCAGTCATTTTACCCTATAGGGGCATTT
* * * * * * *
38101913 TCGACCATTTTACCATT-CGGGGGTATTTTAGTCATTTTATCCTTTGGGGGCATTT
1 TAG-TCATTTTACC-TTACAGGGGTATTTCAGTCATTTTACCCTATAGGGGCATTT
* *
38101968 TAGTCATTTTACCTTATAGGGGTATTTCAGTCATTTTACCCTATAGGGGTATTT
1 TAGTCATTTTACCTTACAGGGGTATTTCAGTCATTTTACCCTATAGGGGCATTT
* *
38102022 TGGTCATTCTACC
1 TAGTCATTTTACC
38102035 CTATCAAGGT
Statistics
Matches: 137, Mismatches: 33, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
53 9 0.07
54 122 0.89
55 6 0.04
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (54 bp):
TAGTCATTTTACCTTACAGGGGTATTTCAGTCATTTTACCCTATAGGGGCATTT
Found at i:38102035 original size:27 final size:27
Alignment explanation
Indices: 38101835--38102038 Score: 151
Period size: 27 Copynumber: 7.6 Consensus size: 27
38101825 GGGCATTACG
* * **
38101835 GTCATTTTACCCTACAGGGGCATTACA
1 GTCATTTTACCCTATAGGGGTATTTTA
* * * ***
38101862 GTCATTTTACCTTACAGGGGCATTACG
1 GTCATTTTACCCTATAGGGGTATTTTA
* ** *
38101889 GTCATTTTACCCTTTAAAGGTA-TTTC
1 GTCATTTTACCCTATAGGGGTATTTTA
* * *
38101915 GACCATTTTACCAT-TCGGGGGTATTTTA
1 G-TCATTTTACCCTAT-AGGGGTATTTTA
* * * *
38101943 GTCATTTTATCCTTTGGGGGCATTTTA
1 GTCATTTTACCCTATAGGGGTATTTTA
* *
38101970 GTCATTTTACCTTATAGGGGTATTTCA
1 GTCATTTTACCCTATAGGGGTATTTTA
*
38101997 GTCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTTA
*
38102024 GTCATTCTACCCTAT
1 GTCATTTTACCCTAT
38102039 CAAGGTATTT
Statistics
Matches: 142, Mismatches: 31, Indels: 8
0.78 0.17 0.04
Matches are distributed among these distances:
26 3 0.02
27 134 0.94
28 5 0.04
ACGTcount: A:0.21, C:0.20, G:0.19, T:0.41
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTTA
Found at i:38102045 original size:27 final size:27
Alignment explanation
Indices: 38101970--38102053 Score: 89
Period size: 27 Copynumber: 3.1 Consensus size: 27
38101960 GGGCATTTTA
* * * *
38101970 GTCATTTTACCTTATAGGGGTATTTCA
1 GTCATTCTACCCTATAGAGGTATTTCG
* * *
38101997 GTCATTTTACCCTATAGGGGTATTTTG
1 GTCATTCTACCCTATAGAGGTATTTCG
38102024 GTCATTCTACCCTATCA-AGGTATTTCG
1 GTCATTCTACCCTAT-AGAGGTATTTCG
38102051 GTC
1 GTC
38102054 CAGATATCGA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
27 49 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.42
Consensus pattern (27 bp):
GTCATTCTACCCTATAGAGGTATTTCG
Found at i:38102749 original size:29 final size:31
Alignment explanation
Indices: 38102715--38102782 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
38102705 TCTCCAAATA
38102715 TCCAAATACC-A-ATTCTCTCCTCAAAACTC
1 TCCAAATACCAATATTCTCTCCTCAAAACTC
38102744 TCCAAATACCAATATTCTCTCCTCAAAACTC
1 TCCAAATACCAATATTCTCTCCTCAAAACTC
38102775 TCCAAATA
1 TCCAAATA
38102783 TCCCTCCTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
29 10 0.27
30 1 0.03
31 26 0.70
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.28
Consensus pattern (31 bp):
TCCAAATACCAATATTCTCTCCTCAAAACTC
Found at i:38112441 original size:27 final size:27
Alignment explanation
Indices: 38112382--38112443 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
38112372 CCCAAACTGA
* *
38112382 TATAAAGTGACTATTATGCCCCCACGT
1 TATAAAATGACTATTATGCCCCCACAT
** * *
38112409 GGTAAAATGACTATTATGCCCCTATAT
1 TATAAAATGACTATTATGCCCCCACAT
38112436 TATAAAAT
1 TATAAAAT
38112444 AATTGTATGC
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (27 bp):
TATAAAATGACTATTATGCCCCCACAT
Found at i:38112771 original size:34 final size:32
Alignment explanation
Indices: 38112733--38112797 Score: 103
Period size: 34 Copynumber: 2.0 Consensus size: 32
38112723 TGTTACTGTC
*
38112733 ACTGTAATGGGCTAAGGCCCACACTGATACTGAT
1 ACTGTAATGGGCAAAGGCCCA-ACTGA-ACTGAT
38112767 ACTGTAATGGGCAAAGGCCCAACTGAACTGA
1 ACTGTAATGGGCAAAGGCCCAACTGAACTGA
38112798 ACTATACTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 5 0.17
33 5 0.17
34 20 0.67
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (32 bp):
ACTGTAATGGGCAAAGGCCCAACTGAACTGAT
Found at i:38118379 original size:8 final size:8
Alignment explanation
Indices: 38118366--38118390 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
38118356 AAATGTTGAT
38118366 AATTTTGG
1 AATTTTGG
38118374 AATTTTGG
1 AATTTTGG
38118382 AATTTTGG
1 AATTTTGG
38118390 A
1 A
38118391 TTTAGGAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (8 bp):
AATTTTGG
Found at i:38118398 original size:15 final size:16
Alignment explanation
Indices: 38118366--38118398 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
38118356 AAATGTTGAT
*
38118366 AATTTTGGAATTTTGG
1 AATTTTGGAATTTAGG
38118382 AATTTTGG-ATTTAGG
1 AATTTTGGAATTTAGG
38118397 AA
1 AA
38118399 CTAAATTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
AATTTTGGAATTTAGG
Found at i:38125552 original size:357 final size:355
Alignment explanation
Indices: 38124874--38125584 Score: 1271
Period size: 357 Copynumber: 2.0 Consensus size: 355
38124864 TTGCAATCAC
* * *
38124874 TGACACTGGAAGGTGTAGTGACAGTTTCAGCCAACAAGCATTACAACAGAAGTTGAGTGAGGATT
1 TGACACTGGAAAGTGCAGTGACAGTTTCAGCCAACAAGCATTACAACAGAAGTTGAGTGAGGAAT
*
38124939 AGAGGAATTTAGTCCACTTGTTCTTAATAGTGCCGTATTGCCATCATCGAAATGTGAGGTTAGTA
66 AGAGGAATTTAGTCCACTTGTTCTTAATAGTGCCGTATTGCCATCATCGAAAGGTGAGGTTAGTA
38125004 TGCATGTTTAAGTCTCAGATTAAATAGAGGAGTGAAGCTGGGTAAGATATACATTGAACTTTATT
131 TGCATGTTTAAGTCTCAGATTAAATAGAGGAGTGAAGCTGGGTAAGATATACATTGAACTTTATT
38125069 GCTTCGACTACCTATCCTTTTTATACCTTGTGAGCACTTAGTATTCTACTGAAGATTCATGTTGG
196 GCTTCGACTACCTATCCTTTTTATACCTTGTGAGCACTTAGTATTCTACTGAAGATTCATGTTGG
* *
38125134 GGATCTCATTTTATCATTATCATATTTTATTTTATTGTTTTCAAGTTATTGCATTGACAACTATT
261 GGATCCCAGTTTATCATTATCATATTTTATTTTATTGTTTTCAAGTTATTGCATTGACAACTATT
*
38125199 CTCACAATTTATCTTTTTTCCATCTAGTTG
326 CTCACAATTTATCTTGTTTCCATCTAGTTG
*
38125229 TGACACTGGAAAGTGCAGTGACAGTTTGAGCCAACAAGCATTACAACAGAAGTTGAGTGAGGAAT
1 TGACACTGGAAAGTGCAGTGACAGTTTCAGCCAACAAGCATTACAACAGAAGTTGAGTGAGGAAT
* * * *
38125294 AGAGGAATTTA-TCCACTTGTTTTTAATAGTGTCGTATTTCCATCATCGGAAGGTGAGGTTAGTA
66 AGAGGAATTTAGTCCACTTGTTCTTAATAGTGCCGTATTGCCATCATCGAAAGGTGAGGTTAGTA
38125358 TGCATGTTTAAGTCTCAGATTAAATAGAGGAGTGAAGCTGGGTAAGATATACATTGAACTTTATT
131 TGCATGTTTAAGTCTCAGATTAAATAGAGGAGTGAAGCTGGGTAAGATATACATTGAACTTTATT
*
38125423 GCTTCGACAATCACCTATCCTTTTTATACCTTGTGAGCACTTAGTATTTTACTGAAGATTCATGT
196 GCTTCGAC--T-ACCTATCCTTTTTATACCTTGTGAGCACTTAGTATTCTACTGAAGATTCATGT
38125488 TGGGGATCCCAGTTTATCATTATCATATTTTATTTTATTGTTTTCAAGTTATTGCATTGACAACT
258 TGGGGATCCCAGTTTATCATTATCATATTTTATTTTATTGTTTTCAAGTTATTGCATTGACAACT
38125553 ATTCTCACAATTTATCTTGTTTCCATCTAGTT
323 ATTCTCACAATTTATCTTGTTTCCATCTAGTT
38125585 TTTGCACCGA
Statistics
Matches: 340, Mismatches: 13, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
354 121 0.36
355 72 0.21
356 1 0.00
357 146 0.43
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.37
Consensus pattern (355 bp):
TGACACTGGAAAGTGCAGTGACAGTTTCAGCCAACAAGCATTACAACAGAAGTTGAGTGAGGAAT
AGAGGAATTTAGTCCACTTGTTCTTAATAGTGCCGTATTGCCATCATCGAAAGGTGAGGTTAGTA
TGCATGTTTAAGTCTCAGATTAAATAGAGGAGTGAAGCTGGGTAAGATATACATTGAACTTTATT
GCTTCGACTACCTATCCTTTTTATACCTTGTGAGCACTTAGTATTCTACTGAAGATTCATGTTGG
GGATCCCAGTTTATCATTATCATATTTTATTTTATTGTTTTCAAGTTATTGCATTGACAACTATT
CTCACAATTTATCTTGTTTCCATCTAGTTG
Found at i:38130563 original size:22 final size:22
Alignment explanation
Indices: 38130522--38130564 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
38130512 CATCCATTTG
*
38130522 AAGGAGGCACACACTCGTGTGA
1 AAGGAGGCACAAACTCGTGTGA
38130544 AAGGAGGCACAAAGCT-GTGTG
1 AAGGAGGCACAAA-CTCGTGTG
38130565 GCTAAGGCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.33, C:0.19, G:0.35, T:0.14
Consensus pattern (22 bp):
AAGGAGGCACAAACTCGTGTGA
Found at i:38134599 original size:22 final size:22
Alignment explanation
Indices: 38134574--38134618 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
38134564 CGAAGTGTTG
38134574 AGCAGAAGGCAGCGAAATGCGA
1 AGCAGAAGGCAGCGAAATGCGA
* * *
38134596 AGCAGTAGGCAGCGTAGTGCGA
1 AGCAGAAGGCAGCGAAATGCGA
38134618 A
1 A
38134619 TCAATAAGCA
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:0.36, C:0.18, G:0.38, T:0.09
Consensus pattern (22 bp):
AGCAGAAGGCAGCGAAATGCGA
Found at i:38140450 original size:31 final size:29
Alignment explanation
Indices: 38140380--38140453 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
38140370 GCCTCAGGTT
* *
38140380 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTACGTTTGAAATGTA
* * *
38140409 ACGTTTTAGTCACTTACGTTATCGTATTGTA
1 ACATTTTAGTCACTTACGTT-T-GAAATGTA
38140440 ACATTTTAGTCACT
1 ACATTTTAGTCACT
38140454 AAGCTATTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 18 0.49
30 1 0.03
31 18 0.49
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.46
Consensus pattern (29 bp):
ACATTTTAGTCACTTACGTTTGAAATGTA
Found at i:38141864 original size:31 final size:29
Alignment explanation
Indices: 38141823--38141899 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
38141813 TTAACGGCTC
* * *
38141823 AGTGATTAAAATGTTACAATACGATAACGTA
1 AGTGACTAAAATGTAACAATAC-A-AACATA
* *
38141854 AGTGACTAAAATGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACAATACAAACATA
*
38141883 AGTGACTAAAATATAAC
1 AGTGACTAAAATGTAAC
38141900 CTGAGGTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 21 0.52
30 1 0.03
31 18 0.45
ACGTcount: A:0.48, C:0.12, G:0.13, T:0.27
Consensus pattern (29 bp):
AGTGACTAAAATGTAACAATACAAACATA
Found at i:38142011 original size:26 final size:26
Alignment explanation
Indices: 38141981--38142035 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
38141971 ATACTAAGTG
38141981 ATTTAGTCTTGATCGGAAAATAAATT
1 ATTTAGTCTTGATCGGAAAATAAATT
38142007 ATTTAGTCTTGATCGGAAAATAAATT
1 ATTTAGTCTTGATCGGAAAATAAATT
38142033 ATT
1 ATT
38142036 CTTTAAACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.40
Consensus pattern (26 bp):
ATTTAGTCTTGATCGGAAAATAAATT
Found at i:38147684 original size:5 final size:5
Alignment explanation
Indices: 38147674--38147716 Score: 59
Period size: 5 Copynumber: 8.4 Consensus size: 5
38147664 TGACTCGTTT
* *
38147674 TTTTA TTTTA TGTTA CTTTA TTTTA TTTTA TTTTA TCTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TT
38147717 GGGTTGTTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
5 28 0.85
6 5 0.15
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:38152043 original size:20 final size:19
Alignment explanation
Indices: 38152018--38152077 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
38152008 TCAAGTTCAT
38152018 TCAGCTCAATTTTAGCTCA
1 TCAGCTCAATTTTAGCTCA
* *
38152037 TCGAGCTCACTCTTAGCTCAA
1 TC-AGCTCAATTTTAGCTC-A
38152058 TCAGCTC-ATTTTAAGCTCA
1 TCAGCTCAATTTT-AGCTCA
38152077 T
1 T
38152078 TTGCGTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 7 0.21
20 24 0.71
21 3 0.09
ACGTcount: A:0.25, C:0.28, G:0.12, T:0.35
Consensus pattern (19 bp):
TCAGCTCAATTTTAGCTCA
Found at i:38160708 original size:50 final size:50
Alignment explanation
Indices: 38160647--38161113 Score: 342
Period size: 50 Copynumber: 9.3 Consensus size: 50
38160637 TGGCATTACA
* * *
38160647 GTGGAATAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGTG
1 GTGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTG
* * ** * ** * * * *
38160697 GTGGAACAGATTGAAGCTATGACGGCGAATCTTGTTTCCCCGACATTGCG
1 GTGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTG
** *
38160747 GTTAAATAGATTGAAACCACAACGGTGAATCTTACTTCCCTGGCAGTGTG
1 GTGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTG
* * * ** * * * **
38160797 GTGGAACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTACG
1 GTGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTG
** * * * *
38160847 GTTAAATAGATTGAAGCCAAAACGGTGAATCTTACTTCTCTGGCGGTGTA
1 GTGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTG
* * * * * * * *
38160897 GTGGAATAGATTGAAGCTACGACGGCGAATCTT-GTTACCCCGACATTGCG
1 GTGGAATAGATTGAAGCCACAACGGTGAATCTTACTT-CCCTGGCAGTGTG
** *
38160947 GTTAAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTA
1 GTGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTG
* * * * * ** * ** * **
38160997 GTGGAACAAATTGAAGCTACGATGGTGAATCTTGTTTCCCCGAAATTGCA
1 GTGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTG
** * ** *
38161047 GTTAAATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGTGGTGTA
1 GTGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTG
*
38161097 GTGGAACAGATTGAAGC
1 GTGGAATAGATTGAAGC
38161114 TACGACGACG
Statistics
Matches: 302, Mismatches: 113, Indels: 4
0.72 0.27 0.01
Matches are distributed among these distances:
49 2 0.01
50 298 0.99
51 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.27
Consensus pattern (50 bp):
GTGGAATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTG
Found at i:38160796 original size:100 final size:100
Alignment explanation
Indices: 38160651--38161159 Score: 802
Period size: 100 Copynumber: 5.1 Consensus size: 100
38160641 ATTACAGTGG
* * *
38160651 AATAGATTGAAGCCGCAACGGCGAATCTTACTTCCCTGGCGGTGTGGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
*
38160716 TGACGGCGAATCTTGTTTCCCCGACATTGCGGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCGGTTA
* * *
38160751 AATAGATTGAAACCACAACGGTGAATCTTACTTCCCTGGCAGTGTGGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* *
38160816 CGACGGTGAATCTTGTTTCCCCGACATTACGGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCGGTTA
* * *
38160851 AATAGATTGAAGCCAAAACGGTGAATCTTACTTCTCTGGCGGTGTAGTGGAATAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
*
38160916 CGACGGCGAATCTTGTTACCCCGACATTGCGGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCGGTTA
* *
38160951 AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTAGTGGAACAAATTGAAGCTA
1 AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* * * *
38161016 CGATGGTGAATCTTGTTTCCCCGAAATTGCAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCGGTTA
* *
38161051 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGTGGTGTAGTGGAACAGATTGAAGCTA
1 AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* *
38161116 CGACGACGAATCTTGTTTCCCCGACATTGCAGTTA
66 CGACGGCGAATCTTGTTTCCCCGACATTGCGGTTA
*
38161151 AACAGATTG
1 AATAGATTG
38161160 CAGATCACAT
Statistics
Matches: 374, Mismatches: 35, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 374 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (100 bp):
AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
CGACGGCGAATCTTGTTTCCCCGACATTGCGGTTA
Found at i:38161155 original size:50 final size:50
Alignment explanation
Indices: 38160701--38161159 Score: 324
Period size: 50 Copynumber: 9.2 Consensus size: 50
38160691 GGTGTGGTGG
* * *
38160701 AACAGATTGAAGCTATGACGGCGAATCTTGTTTCCCCGACATTGCGGTTA
1 AACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* * * * ** * * * ** **
38160751 AATAGATTGAAACCACAACGGTGAATCTTACTTCCCTGGCAGTGTGGTGG
1 AACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* *
38160801 AACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTACGGTTA
1 AACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* * ** ** * * * ** * **
38160851 AATAGATTGAAGCCAAAACGGTGAATCTTACTTCTCTGGCGGTGTAGTGG
1 AACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* * * *
38160901 AATAGATTGAAGCTACGACGGCGAATCTTGTTACCCCGACATTGCGGTTA
1 AACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* * * ** * * * * **
38160951 AATAGATTGAAGCCACAACGGTGAATCTTACTTCCCTGGCAGTGTAGTGG
1 AACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* * *
38161001 AACAAATTGAAGCTACGATGGTGAATCTTGTTTCCCCGAAATTGCAGTTA
1 AACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
* * * * ** * **** * **
38161051 AATAGATTGAAGCCACAACGGCGAATCTTACTTCCCTGGTGGTGTAGTGG
1 AACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
**
38161101 AACAGATTGAAGCTACGACGACGAATCTTGTTTCCCCGACATTGCAGTTA
1 AACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
38161151 AACAGATTG
1 AACAGATTG
38161160 CAGATCACAT
Statistics
Matches: 293, Mismatches: 116, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
50 293 1.00
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (50 bp):
AACAGATTGAAGCTACGACGGTGAATCTTGTTTCCCCGACATTGCAGTTA
Found at i:38162694 original size:3 final size:3
Alignment explanation
Indices: 38162686--38162725 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
38162676 ACTATCGCTC
38162686 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
38162726 AGCCATGTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:38163325 original size:5 final size:5
Alignment explanation
Indices: 38163315--38163350 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
38163305 TGACTCGTTT
* *
38163315 TTTTA TTTTA TGTTA CTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
38163351 CATTATTGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:38164528 original size:137 final size:137
Alignment explanation
Indices: 38164269--38164599 Score: 466
Period size: 137 Copynumber: 2.4 Consensus size: 137
38164259 GAGACATAAT
* * *** *
38164269 CAAACCTTTTGACGTGAAACGAGATGACAACTTAAGCACCTCATTTTGTTTACTCAATTTCACAT
1 CAAACCTTTTGACGCGAAACGAGATGACAACCTAAGCACCTCATCCCGGTTACTCAATTTCACAT
* * * *
38164334 GTCCTTAATCGATTTATTTCTCCTTTATCAAGCAGCTCGGTTAGCAAAATGTAACAAGCTTTAGC
66 ATCCCTAATAGATTTATTTCTCCTTTATCAAGCAGCTCGGTTAGCAAAATGTAACAAGCTTCAGC
38164399 TCGTCAC
131 TCGTCAC
* *
38164406 CAAACCTTTTGACGCGAAACGAGATGACAACCCAAGCACCTCATCCCGGCTACTCAATTTCACAT
1 CAAACCTTTTGACGCGAAACGAGATGACAACCTAAGCACCTCATCCCGGTTACTCAATTTCACAT
* * * * *
38164471 ATCCCTAATAGATTTATTTCTCTTTTCTCAAGGTAGCTCGGTTAGC-AAGTGTTACAAGCTTCAG
66 ATCCCTAATAGATTTATTTCTCCTTTATCAA-GCAGCTCGGTTAGCAAAATGTAACAAGCTTCAG
38164535 CTCGTCAC
130 CTCGTCAC
* * *
38164543 CAAACATTTTGACCCGAAACGAGATGACAACCTAAGCACCTCATCCCAGTTACTCAA
1 CAAACCTTTTGACGCGAAACGAGATGACAACCTAAGCACCTCATCCCGGTTACTCAA
38164600 CTTGGTCACC
Statistics
Matches: 171, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
137 158 0.92
138 13 0.08
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (137 bp):
CAAACCTTTTGACGCGAAACGAGATGACAACCTAAGCACCTCATCCCGGTTACTCAATTTCACAT
ATCCCTAATAGATTTATTTCTCCTTTATCAAGCAGCTCGGTTAGCAAAATGTAACAAGCTTCAGC
TCGTCAC
Found at i:38171119 original size:15 final size:16
Alignment explanation
Indices: 38171090--38171119 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38171080 CAAACTTGCT
38171090 TTAACACATTATCAAA
1 TTAACACATTATCAAA
38171106 TTAACACA-TATCAA
1 TTAACACATTATCAA
38171120 TAAGGCACCA
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:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:38173537 original size:39 final size:39
Alignment explanation
Indices: 38173478--38173589 Score: 152
Period size: 39 Copynumber: 2.9 Consensus size: 39
38173468 TTGATCGCAT
* *
38173478 TTACGTGCCCCTGATGTACTTTGGTACCCCTAATCCCAC
1 TTACGTGCCCCTGTTGTACTTTGGTACCCCTAATCACAC
* * * *
38173517 TTACGTGCCCTTGTTATACTTCGGTACCCCTGATCACAC
1 TTACGTGCCCCTGTTGTACTTTGGTACCCCTAATCACAC
* *
38173556 TTACGTGCCCCTGTGGTACTTTGGTACTCCTAAT
1 TTACGTGCCCCTGTTGTACTTTGGTACCCCTAAT
38173590 AGAACTTTTG
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 61 1.00
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.34
Consensus pattern (39 bp):
TTACGTGCCCCTGTTGTACTTTGGTACCCCTAATCACAC
Found at i:38173566 original size:20 final size:20
Alignment explanation
Indices: 38173504--38173568 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
38173494 TACTTTGGTA
* *
38173504 CCCCTAATCCCACTTACGTG
1 CCCCTGATCACACTTACGTG
* * * *
38173524 CCCTTG-TTATACTT-CGGTA
1 CCCCTGATCACACTTAC-GTG
38173543 CCCCTGATCACACTTACGTG
1 CCCCTGATCACACTTACGTG
38173563 CCCCTG
1 CCCCTG
38173569 TGGTACTTTG
Statistics
Matches: 32, Mismatches: 10, Indels: 6
0.67 0.21 0.12
Matches are distributed among these distances:
18 1 0.03
19 12 0.38
20 18 0.56
21 1 0.03
ACGTcount: A:0.17, C:0.40, G:0.14, T:0.29
Consensus pattern (20 bp):
CCCCTGATCACACTTACGTG
Found at i:38177792 original size:13 final size:13
Alignment explanation
Indices: 38177774--38177831 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
38177764 AGTTGGATTT
38177774 TTCCTAAATATTA
1 TTCCTAAATATTA
38177787 TTCCTAAATA--A
1 TTCCTAAATATTA
38177798 -TCCTAAATATTA
1 TTCCTAAATATTA
38177810 -TCACTAAATA--A
1 TTC-CTAAATATTA
38177821 TT-CTAAATATT
1 TTCCTAAATATT
38177832 CAAAATTTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
10 16 0.41
11 2 0.05
12 4 0.10
13 17 0.44
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (13 bp):
TTCCTAAATATTA
Found at i:38177802 original size:23 final size:23
Alignment explanation
Indices: 38177775--38177831 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
38177765 GTTGGATTTT
38177775 TCCTAAATATTATTC-CTAAATAA
1 TCCTAAATATTA-TCACTAAATAA
38177798 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
*
38177821 TTCTAAATATT
1 TCCTAAATATT
38177832 CAAAATTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 2 0.06
23 30 0.94
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (23 bp):
TCCTAAATATTATCACTAAATAA
Found at i:38181185 original size:50 final size:49
Alignment explanation
Indices: 38181110--38181254 Score: 182
Period size: 50 Copynumber: 2.9 Consensus size: 49
38181100 TATTGAGGTT
*
38181110 ATGAGAGGTCCCACGTAAGACCATGTCTGGTACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGC-TTGGCACCGAG
* * *
38181160 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGACACCGAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCTTGG-CACCGAG
** * * *
38181210 ATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCTTTGGCA
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGC-TTGGCA
38181255 GTACAGGAAA
Statistics
Matches: 82, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
49 3 0.04
50 76 0.93
51 3 0.04
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.21
Consensus pattern (49 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCTTGGCACCGAG
Found at i:38181247 original size:100 final size:102
Alignment explanation
Indices: 38181068--38181254 Score: 234
Period size: 100 Copynumber: 1.8 Consensus size: 102
38181058 GAGATCCCAT
* ** **
38181068 GTAAGACCATGTCTGGGACATGGCATTGACATTATTGAGGTTATGAGAGGTCCCACGTAAGACCA
1 GTAAGACCATGTCTGGGACATGGCATGGAC--TACCGA-G-TATGAGAACTCCCACGTAAGACCA
* *
38181133 TGTCTGGTACATGGCGTTGGCACCGAGATGAGAGGTCCCCC
62 TATCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCC
*
38181174 GTAAGACCATGTCTGGGACATGGCATGGAC-ACCGA-TATGAGAACTCCCATGTAAGACCATATC
1 GTAAGACCATGTCTGGGACATGGCATGGACTACCGAGTATGAGAACTCCCACGTAAGACCATATC
* *
38181237 TGGGATATGGCTTTGGCA
66 TGGGACATGGCGTTGGCA
38181255 GTACAGGAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
100 39 0.55
103 3 0.04
106 29 0.41
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (102 bp):
GTAAGACCATGTCTGGGACATGGCATGGACTACCGAGTATGAGAACTCCCACGTAAGACCATATC
TGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCCC
Found at i:38181530 original size:20 final size:20
Alignment explanation
Indices: 38181505--38181553 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
38181495 TGAGTTATTG
38181505 AAGTAAGCAAGTAAGGAAAC
1 AAGTAAGCAAGTAAGGAAAC
* *
38181525 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGGAAAC
38181545 AAG-AAGCAA
1 AAGTAAGCAA
38181554 AGACCATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.57, C:0.06, G:0.27, T:0.10
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGGAAAC
Found at i:38186177 original size:42 final size:42
Alignment explanation
Indices: 38186129--38186210 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 42
38186119 CTATTAGTAA
*
38186129 TATTATTGT-TATCCTTATTTCA-TTTATGTTTTCTTT-TTTTAT
1 TATTATT-TATATACTTATTT-ATTTTAT-TTTTCTTTCTTTTAT
*
38186171 TATTATTTATTTACTTATTTATTTTATTTTTCTTTCTTTT
1 TATTATTTATATACTTATTTATTTTATTTTTCTTTCTTTT
38186211 CTGAAAAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
41 10 0.29
42 25 0.71
ACGTcount: A:0.17, C:0.09, G:0.02, T:0.72
Consensus pattern (42 bp):
TATTATTTATATACTTATTTATTTTATTTTTCTTTCTTTTAT
Found at i:38191452 original size:49 final size:50
Alignment explanation
Indices: 38191317--38191453 Score: 145
Period size: 50 Copynumber: 2.8 Consensus size: 50
38191307 AGGGGATGAG
* *
38191317 ATCCCATGTAAGACCATGTCTGGGACATGACATGGGCACCGATATAAGAAC
1 ATCCCATGTAAGACCATGTCTGGGACATGACATTGGCA-CGATACAAGAAC
* * * * *
38191368 -TCCCATGTAAGACCATATTTGGGATATGGCATTGGCA-G-TACAGGAAAC
1 ATCCCATGTAAGACCATGTCTGGGACATGACATTGGCACGATACAAG-AAC
* * *
38191416 ATCCCATGTAAGACCATGTCTAGAACATGACTTTGGCA
1 ATCCCATGTAAGACCATGTCTGGGACATGACATTGGCA
38191454 TGTTATTATC
Statistics
Matches: 70, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
47 4 0.06
48 4 0.06
49 30 0.43
50 32 0.46
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (50 bp):
ATCCCATGTAAGACCATGTCTGGGACATGACATTGGCACGATACAAGAAC
Found at i:38191679 original size:20 final size:20
Alignment explanation
Indices: 38191654--38191702 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
38191644 TGAGTTATTT
38191654 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
38191674 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
38191694 AAG-AAGCAA
1 AAGTAAGCAA
38191703 AGACCATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:38208474 original size:26 final size:26
Alignment explanation
Indices: 38208445--38208505 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
38208435 AATTTACCAA
*
38208445 GGGTAAAATCATCAAAATTTTATTAG-
1 GGGTAAAATCATCAAAATTTTA-CAGT
**
38208471 GGGTAAAATTGTCAAAATTTTACAGT
1 GGGTAAAATCATCAAAATTTTACAGT
38208497 GGGTAAAAT
1 GGGTAAAAT
38208506 AGGTATGAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 2 0.06
26 29 0.94
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.33
Consensus pattern (26 bp):
GGGTAAAATCATCAAAATTTTACAGT
Found at i:38212768 original size:20 final size:20
Alignment explanation
Indices: 38212740--38212777 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
38212730 CCTATAATAC
38212740 TCATCTCAAAACACACCAAG
1 TCATCTCAAAACACACCAAG
* *
38212760 TCATGTCAAAACATACCA
1 TCATCTCAAAACACACCA
38212778 TATACCACCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.32, G:0.05, T:0.18
Consensus pattern (20 bp):
TCATCTCAAAACACACCAAG
Found at i:38214954 original size:13 final size:13
Alignment explanation
Indices: 38214938--38214967 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
38214928 TTAATATAAC
*
38214938 ATATATAACTTAT
1 ATATATAAATTAT
38214951 ATATATAAATTAT
1 ATATATAAATTAT
38214964 ATAT
1 ATAT
38214968 CTCTTAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (13 bp):
ATATATAAATTAT
Found at i:38218009 original size:12 final size:11
Alignment explanation
Indices: 38217980--38218015 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
38217970 TGTTTATTTC
38217980 TTGTTTTTATT
1 TTGTTTTTATT
38217991 TTGTTTTTATT
1 TTGTTTTTATT
*
38218002 TTATTTTTTATT
1 TT-GTTTTTATT
38218014 TT
1 TT
38218016 TCTTGCTTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.11, C:0.00, G:0.06, T:0.83
Consensus pattern (11 bp):
TTGTTTTTATT
Found at i:38226029 original size:12 final size:13
Alignment explanation
Indices: 38226005--38226033 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
38225995 GGGCTATAAC
38226005 TATTGCATTTATT
1 TATTGCATTTATT
38226018 TATTGC-TTTATT
1 TATTGCATTTATT
38226030 TATT
1 TATT
38226034 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:38232504 original size:50 final size:50
Alignment explanation
Indices: 38232385--38232514 Score: 163
Period size: 50 Copynumber: 2.6 Consensus size: 50
38232375 TTATTGAGGT
* * *
38232385 TATGAGAGCTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA
1 TATGAGAGCTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
* * * *
38232435 GATGAGAGGTCCTC-CGTAAGACCTTGTCTGGGACATGGCATGGGCACCGA
1 TATGAGAGCTCC-CATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
* *
38232485 TATGAGAACTCCCATGTAAGACCATATCTG
1 TATGAGAGCTCCCATGTAAGACCATGTCTG
38232515 AGATATGAAA
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
49 1 0.02
50 63 0.97
51 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.23
Consensus pattern (50 bp):
TATGAGAGCTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA
Found at i:38240009 original size:56 final size:49
Alignment explanation
Indices: 38239947--38240073 Score: 130
Period size: 50 Copynumber: 2.4 Consensus size: 49
38239937 AGACCCTATG
*
38239947 TAAGACCATGTCTGGGACATAGCATTGACATTATTGAGGTTATGAGAGG-CCCCACA
1 TAAGACCATGTCTGGGACAT-GCATTGAC---ATCGA-G--ATGAGAGGTCCCC-CA
* * *
38240003 TAAGACCATGTTTGGGACATGCCATTGGCATCGAGATGAGAGGTCCCCCG
1 TAAGACCATGTCTGGGACATG-CATTGACATCGAGATGAGAGGTCCCCCA
38240053 TAAGACCATGTCTGGGACATG
1 TAAGACCATGTCTGGGACATG
38240074 GCATGGGCAC
Statistics
Matches: 64, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
50 29 0.45
51 4 0.06
52 1 0.02
53 4 0.06
55 1 0.02
56 25 0.39
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.24
Consensus pattern (49 bp):
TAAGACCATGTCTGGGACATGCATTGACATCGAGATGAGAGGTCCCCCA
Found at i:38240057 original size:50 final size:50
Alignment explanation
Indices: 38239988--38240123 Score: 148
Period size: 50 Copynumber: 2.7 Consensus size: 50
38239978 TATTGAGGTT
* * * *
38239988 ATGAGAGG-CCCCACATAAGACCATGTTTGGGACATGCCATTGGCATCGAG
1 ATGAGAGGTCCCC-CGTAAGACCATGTCTGGGACATGCCATGGGCACCGAG
* *
38240038 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGCCATGGGCACCGAG
** ** * *
38240088 ATGAGAACTCCCATGTAAGACCATGCCTGGTACATG
1 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATG
38240124 GCTTTGGCAT
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
50 69 0.95
51 4 0.05
ACGTcount: A:0.27, C:0.25, G:0.28, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGCCATGGGCACCGAG
Found at i:38240359 original size:20 final size:20
Alignment explanation
Indices: 38240334--38240376 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
38240324 TGAGTTATTT
38240334 AAGTAAG-CATGTAAGTAAAG
1 AAGTAAGACAT-TAAGTAAAG
*
38240354 AAGTAAGAGATTAAGTAAAG
1 AAGTAAGACATTAAGTAAAG
38240374 AAG
1 AAG
38240377 AAGTAAAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.53, C:0.02, G:0.26, T:0.19
Consensus pattern (20 bp):
AAGTAAGACATTAAGTAAAG
Found at i:38241164 original size:20 final size:21
Alignment explanation
Indices: 38241120--38241164 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
38241110 TCATGGCCTG
38241120 TGCTT-CTTCTTTACTTACTC
1 TGCTTACTTCTTTACTTACTC
*
38241140 T-CTTACTTGTTTACTTACT-
1 TGCTTACTTCTTTACTTACTC
38241159 TGCTTA
1 TGCTTA
38241165 TTTAAATAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.13, C:0.24, G:0.07, T:0.56
Consensus pattern (21 bp):
TGCTTACTTCTTTACTTACTC
Done.