Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 21 of 106
Found at i:3655166 original size:6 final size:6
Alignment explanation
Indices: 3655155--3655184 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
3655145 TCCCTATCTA
*
3655155 GACTCC GACTCC GACTCC GACTCC GGCTCC
1 GACTCC GACTCC GACTCC GACTCC GACTCC
3655185 TTGAGCCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.13, C:0.50, G:0.20, T:0.17
Consensus pattern (6 bp):
GACTCC
Found at i:3664059 original size:42 final size:41
Alignment explanation
Indices: 3664010--3664089 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 41
3664000 TAAATAATTA
*
3664010 TATTTGAACATAAATA-ATTATTATATGATAAATAATCATAAC
1 TATTTGAACATAAATAGATTATTAT-TCATAAA-AATCATAAC
*
3664052 TATTTGAATATAAATAGATTATTATTCATAAAAATCAT
1 TATTTGAACATAAATAGATTATTATTCATAAAAATCAT
3664090 GATTATACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
41 6 0.17
42 21 0.60
43 8 0.23
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (41 bp):
TATTTGAACATAAATAGATTATTATTCATAAAAATCATAAC
Found at i:3665225 original size:63 final size:63
Alignment explanation
Indices: 3665130--3665288 Score: 173
Period size: 62 Copynumber: 2.5 Consensus size: 63
3665120 GTAATTATGG
* *
3665130 AAGGCATTTTTGACCAAAAAATACCTTGAATAATCCCCTCATA-AAAATAGATAGGAGATCATTA
1 AAGGCATTTTTGACCAAAAAATACCTTAAATAATCCCCTAATATAAAAT-G-TAGGAGATCATTA
* * * * *
3665194 AAGGCATTTTTG-GCAAACAATACCTTAAATAATCCCTTAATATAAAATGTAGGTGATTATTA
1 AAGGCATTTTTGACCAAAAAATACCTTAAATAATCCCCTAATATAAAATGTAGGAGATCATTA
* * *
3665256 AAGGCGTTTTCT-ACC-AGAAATACCTTTAATAAT
1 AAGGCATTTT-TGACCAAAAAATACCTTAAATAAT
3665289 TTTTTAAAAA
Statistics
Matches: 80, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
62 35 0.44
63 28 0.35
64 17 0.21
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.31
Consensus pattern (63 bp):
AAGGCATTTTTGACCAAAAAATACCTTAAATAATCCCCTAATATAAAATGTAGGAGATCATTA
Found at i:3670057 original size:128 final size:128
Alignment explanation
Indices: 3669848--3670585 Score: 641
Period size: 128 Copynumber: 5.6 Consensus size: 128
3669838 TTTGAAAAAA
* * *
3669848 AAAAAAAAAGCCTTCAATAATTTTCTTTAAAA-ATTTTCA-AGAGATTATTGAAGGCATTTTTAG
1 AAAAAAAATGCCTTCAATAATTTTTTTTAAAATA-TTTCAGAG-GATTATTGAAGGCATTTGTAG
* * * * *
3669911 TA-TAAAAACGCCTTCAATAATCACTTGATAAAAAATTAGAATGGACTATTAAAGGCATTTTATG
64 -ACTAAAAACGCCTTCAATAATCACCTGATAAAAAATTAGAATGGATTATTGAAGGCGTTTTCTG
3669975 C
128 C
* * *
3669976 AAAACAAATGCCTTCAATAATTTTTTTTTTAAATATTTGAGAGGATTATTGAAGGCATTTGT-GA
1 AAAAAAAATGCCTTCAATAA-TTTTTTTTAAAATATTTCAGAGGATTATTGAAGGCATTTGTAGA
* * * * * *
3670040 CTAAAAACGCCTTCAATAATCTCCTGATAAAAAAATGGAATTGATTATTGAAGGTGTTTTCTAC
65 CTAAAAACGCCTTCAATAATCACCTGATAAAAAATTAGAATGGATTATTGAAGGCGTTTTCTGC
* *
3670104 AAAAAAAAAATGCCTAAAAAAAAAACGTCTTAAATAATTTTCTTTAAAAT-TTTAAGAGGATTAT
1 --AAAAAAAATGCCT------------TC---AATAATTTTTTTTAAAATATTTCAGAGGATTAT
* * ** * *
3670168 TGAAGGCGTTTGT-GACTGAAAATACCTTCAATAATCCCCTGATAAAAAATTGGAATGGATTATT
49 TGAAGGCATTTGTAGACTAAAAACGCCTTCAATAATCACCTGATAAAAAATTAGAATGGATTATT
3670232 GAAGGCGTTTTCTGC
114 GAAGGCGTTTTCTGC
* * * *
3670247 AAAAAAAATGCCTTCAATAATTTTTTTTTACAATTTTTTATGA-GATTATTGAAGGCATTTTTAG
1 AAAAAAAATGCCTTCAATAA-TTTTTTTTAAAATATTTCA-GAGGATTATTGAAGGCATTTGTAG
* * * * * * * * *
3670311 TCTAAAAATGCCTTCAATAATCTCTTAATAAAAAATTATAGTGGATTATTGAAGGCATTTTCTAT
64 ACTAAAAACGCCTTCAATAATCACCTGATAAAAAATTAGAATGGATTATTGAAGGCGTTTTCT-G
*
3670376 A
128 C
* * ** * * *
3670377 AAAAAAAATACATTCAATAATTTCATTTAAAATATTTGAGTGGATTATTGAAGGCGTTTGT-GAC
1 AAAAAAAATGCCTTCAATAATTTTTTTTAAAATATTTCAGAGGATTATTGAAGGCATTTGTAGAC
* * * ** * *
3670441 TTAAAACGTCTTCAATAATCACCTGATAAAAAATTAGAGTTAATTATTAAAGGTGTTTTCTGC
66 TAAAAACGCCTTCAATAATCACCTGATAAAAAATTAGAATGGATTATTGAAGGCGTTTTCTGC
** *
3670504 AAAAAAAAACACCTTCAATAATTTTTTTTAAAAT-TTTCATGA-GATTATTGAAGGCATTTTTAG
1 -AAAAAAAATGCCTTCAATAATTTTTTTTAAAATATTTCA-GAGGATTATTGAAGGCATTTGTAG
* * *
3670567 TCAAAAAACACCTTCAATA
64 ACTAAAAACGCCTTCAATA
3670586 CTGTTAAATG
Statistics
Matches: 495, Mismatches: 85, Indels: 60
0.77 0.13 0.09
Matches are distributed among these distances:
126 5 0.01
127 33 0.07
128 189 0.38
129 121 0.24
130 33 0.07
141 13 0.03
142 2 0.00
143 83 0.17
144 11 0.02
145 5 0.01
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (128 bp):
AAAAAAAATGCCTTCAATAATTTTTTTTAAAATATTTCAGAGGATTATTGAAGGCATTTGTAGAC
TAAAAACGCCTTCAATAATCACCTGATAAAAAATTAGAATGGATTATTGAAGGCGTTTTCTGC
Found at i:3670196 original size:143 final size:145
Alignment explanation
Indices: 3669991--3670254 Score: 406
Period size: 143 Copynumber: 1.8 Consensus size: 145
3669981 AAATGCCTTC
* * * *
3669991 AATAATTTTTTTTTTAAATATTTGAGAGGATTATTGAAGGCATTTGTGACTAAAAACGCCTTCAA
1 AATAATTTTTCTTTAAAATATTTAAGAGGATTATTGAAGGCATTTGTGACTAAAAACACCTTCAA
* * *
3670056 TAATCTCCTGATAAAAAAATGGAATTGATTATTGAAGGTGTTTTCTACAAAAAAAAAATGCCTAA
66 TAATCCCCTGATAAAAAAATGGAATGGATTATTGAAGGCGTTTTCTACAAAAAAAAAATGCCTAA
3670121 AAAAAAAACGTCTTA
131 AAAAAAAACGTCTTA
* * *
3670136 AATAA-TTTTCTTTAAAAT-TTTAAGAGGATTATTGAAGGCGTTTGTGACTGAAAATACCTTCAA
1 AATAATTTTTCTTTAAAATATTTAAGAGGATTATTGAAGGCATTTGTGACTAAAAACACCTTCAA
* *
3670199 TAATCCCCTGATAAAAAATTGGAATGGATTATTGAAGGCGTTTTCTGCAAAAAAAA
66 TAATCCCCTGATAAAAAAATGGAATGGATTATTGAAGGCGTTTTCTACAAAAAAAA
3670255 TGCCTTCAAT
Statistics
Matches: 107, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
143 91 0.85
144 11 0.10
145 5 0.05
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.34
Consensus pattern (145 bp):
AATAATTTTTCTTTAAAATATTTAAGAGGATTATTGAAGGCATTTGTGACTAAAAACACCTTCAA
TAATCCCCTGATAAAAAAATGGAATGGATTATTGAAGGCGTTTTCTACAAAAAAAAAATGCCTAA
AAAAAAAACGTCTTA
Found at i:3670358 original size:64 final size:61
Alignment explanation
Indices: 3670161--3670371 Score: 172
Period size: 64 Copynumber: 3.3 Consensus size: 61
3670151 AATTTTAAGA
* * * * * * *
3670161 GGATTATTGAAGGCGTTTGTGACTGAAAATACCTTCAATAATCCCCTGATAAAAAATTGGA-AT
1 GGATTATTGAAGGCATTTTTG-CTAAAAATGCCTTCAATAATCTCTTAATAAAAAATT--ATAT
* * * * ** * ** *
3670224 GGATTATTGAAGGCGTTTTCTGCAAAAAAAATGCCTTCAATAATTTTTTTTTACAATTTTTTAT
1 GGATTATTGAAGGCATTTT-TGC--TAAAAATGCCTTCAATAATCTCTTAATAAAAAATTATAT
3670288 GAGATTATTGAAGGCATTTTTAGTCTAAAAATGCCTTCAATAATCTCTTAATAAAAAATTATAGT
1 G-GATTATTGAAGGCATTTTT-G-CTAAAAATGCCTTCAATAATCTCTTAATAAAAAATTATA-T
3670353 GGATTATTGAAGGCATTTT
1 GGATTATTGAAGGCATTTT
3670372 CTATAAAAAA
Statistics
Matches: 116, Mismatches: 24, Indels: 15
0.75 0.15 0.10
Matches are distributed among these distances:
63 19 0.16
64 53 0.46
65 43 0.37
66 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.16, T:0.38
Consensus pattern (61 bp):
GGATTATTGAAGGCATTTTTGCTAAAAATGCCTTCAATAATCTCTTAATAAAAAATTATAT
Found at i:3670382 original size:64 final size:62
Alignment explanation
Indices: 3670186--3670431 Score: 176
Period size: 65 Copynumber: 3.8 Consensus size: 62
3670176 TTTGTGACTG
* * * * *
3670186 AAAATACCTTCAATAATCCCCTGATAAAAAATTGGAATGGATTATTGAAGGCGTTTTCTGCA-AA
1 AAAATACCTTCAATAAT-CTCTTATAAAAAATT-TAGTGGATTATTGAAGGCATTTTCT--ATAA
3670250 A
62 A
* * * * *** **
3670251 AAAATGCCTTCAATAATTTTTTTTTACAATTTTTTA-TGAGATTATTGAAGGCATTTT-TAGTCT
1 AAAATACCTTCAATAA-TCTCTTATA-AAAAATTTAGTG-GATTATTGAAGGCATTTTCTA-TAA
3670314 A
62 A
*
3670315 AAAATGCCTTCAATAATCTCTTAATAAAAAATTATAGTGGATTATTGAAGGCATTTTCTATAAAA
1 AAAATACCTTCAATAATCTCTT-ATAAAAAATT-TAGTGGATTATTGAAGGCATTTTCTAT--AA
3670380 A
62 A
* * *
3670381 AAAATACATTCAATAATTTCATT-TAAAATATTTGAGTGGATTATTGAAGGC
1 AAAATACCTTCAATAATCTC-TTATAAAAAATTT-AGTGGATTATTGAAGGC
3670432 GTTTGTGACT
Statistics
Matches: 143, Mismatches: 25, Indels: 26
0.74 0.13 0.13
Matches are distributed among these distances:
62 1 0.01
63 8 0.06
64 44 0.31
65 65 0.45
66 23 0.16
67 2 0.01
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (62 bp):
AAAATACCTTCAATAATCTCTTATAAAAAATTTAGTGGATTATTGAAGGCATTTTCTATAAA
Found at i:3670426 original size:65 final size:62
Alignment explanation
Indices: 3670223--3670431 Score: 190
Period size: 65 Copynumber: 3.2 Consensus size: 62
3670213 AAAATTGGAA
* ** * * *
3670223 TGGATTATTGAAGGCGTTTTCTGCAAAAAAAATGCCTTCAATAATTTTTTTTTACAATTTTTTA-
1 TGGATTATTGAAGGCATTTTCTATAAAAAAAATGCCTTCAATAA--TTTCTTTA-AAATATTTAG
** * *
3670287 TGAGATTATTGAAGGCATTTT-TAGT-CTAAAAATGCCTTCAATAATCTCTTAATAAAAAATTAT
1 TG-GATTATTGAAGGCATTTTCTA-TAAAAAAAATGCCTTCAATAATTTCTT--TAAAATATT-T
3670350 AG
61 AG
* *
3670352 TGGATTATTGAAGGCATTTTCTATAAAAAAAAATACATTCAATAATTTCATTTAAAATATTTGAG
1 TGGATTATTGAAGGCATTTTCTAT-AAAAAAAATGCCTTCAATAATTTC-TTTAAAATATTT-AG
3670417 TGGATTATTGAAGGC
1 TGGATTATTGAAGGC
3670432 GTTTGTGACT
Statistics
Matches: 118, Mismatches: 16, Indels: 21
0.76 0.10 0.14
Matches are distributed among these distances:
62 4 0.03
63 4 0.03
64 44 0.37
65 46 0.39
66 18 0.15
67 2 0.02
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (62 bp):
TGGATTATTGAAGGCATTTTCTATAAAAAAAATGCCTTCAATAATTTCTTTAAAATATTTAG
Found at i:3670496 original size:400 final size:401
Alignment explanation
Indices: 3669718--3670512 Score: 1017
Period size: 400 Copynumber: 2.0 Consensus size: 401
3669708 GTATTTTAAC
* * * *
3669718 AAAAAACATCTTCAATAAATTACTTCAAAAATTTTTAGACGATTATTGATGGCGTTTGTGATTGA
1 AAAAAACATCTTAAATAAATTACTTCAAAAATTTTAAGACGATTATTGAAGGCGTTTGTGACTGA
* * * * *
3669783 AAACGCCTTTAATAATTCTCCGATAAAATATTGAAGAGGATTATTGAAGGCATTTTTTGAAAAAA
66 AAACACCTTCAATAATTCCCCGATAAAAAATTGAAGAGGATTATTGAAGGCATTTTCTG----AA
3669848 AAAAAAAAAGCCTTCAATAATTTTCTTTAAAAATTTTCAAGAGATTATTGAAGGCATTTTTAGTA
127 AAAAAAAAAGCCTTCAATAATTTTCTTTAAAAATTTTCAAGAGATTATTGAAGGCATTTTTAGTA
* *
3669913 TAAAAACGCCTTCAATAATCACTTGATAAAAAATTAGAATGGACTATTAAAGGCATTTTATGCAA
192 TAAAAACGCCTTCAATAATCACTTAATAAAAAATTAGAATGGACTATTAAAGGCATTTTATGAAA
* * * ** *
3669978 AACAAATGCCTTCAATAATTTTTTTTTTAAATATTTGAGAGGATTATTGAAGGCATTTGTGACTA
257 AAAAAATACATTCAATAATTTTCATTTAAAATATTTGAGAGGATTATTGAAGGCATTTGTGACTA
* * * *
3670043 AAAACGCCTTCAATAATCTCCTGATAAAAAAATGGAATTGATTATTGAAGGTGTTTTCTACAAAA
322 AAAACGCCTTCAATAATCACCTGATAAAAAAATAGAATTAATTATTAAAGGTGTTTTCTACAAAA
3670108 AAAAAATGCCTAAAA
387 AAAAAATGCCTAAAA
* * * * *
3670123 AAAAAACGTCTTAAATAATTTTCTT-TAAAATTTTAAGAGGATTATTGAAGGCGTTTGTGACTGA
1 AAAAAACATCTTAAATAAATTACTTCAAAAATTTTAAGACGATTATTGAAGGCGTTTGTGACTGA
* * * *
3670187 AAATACCTTCAATAA-TCCCCTGATAAAAAATTGGAA-TGGATTATTGAAGGCGTTTTCTG-CAA
66 AAACACCTTCAATAATTCCCC-GATAAAAAATT-GAAGAGGATTATTGAAGGCATTTTCTGAAAA
* * * * * * *
3670249 AAAAAATGCCTTCAATAATTTTTTTTTACAATTTTTTATGAGATTATTGAAGGCATTTTTAGTCT
129 AAAAAAAGCCTTCAATAA-TTTTCTTTAAAAATTTTCAAGAGATTATTGAAGGCATTTTTAGTAT
* * * * * *
3670314 AAAAATGCCTTCAATAATCTCTTAATAAAAAATTATAGTGGATTATTGAAGGCATTTTCTAT-AA
193 AAAAACGCCTTCAATAATCACTTAATAAAAAATTAGAATGGACTATTAAAGGCA-TTT-TATGAA
* *
3670378 AAAAAAATACATTCAATAA-TTTCATTTAAAATATTTGAGTGGATTATTGAAGGCGTTTGTGACT
256 AAAAAAATACATTCAATAATTTTCATTTAAAATATTTGAGAGGATTATTGAAGGCATTTGTGACT
* * * * *
3670442 TAAAACGTCTTCAATAATCACCTGATAAAAAATTAGAGTTAATTATTAAAGGTGTTTTCTGCAAA
321 AAAAACGCCTTCAATAATCACCTGATAAAAAAATAGAATTAATTATTAAAGGTGTTTTCTACAAA
3670507 AAAAAA
386 AAAAAA
3670513 CACCTTCAAT
Statistics
Matches: 335, Mismatches: 50, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
399 19 0.06
400 189 0.56
401 20 0.06
402 3 0.01
403 4 0.01
404 76 0.23
405 24 0.07
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.35
Consensus pattern (401 bp):
AAAAAACATCTTAAATAAATTACTTCAAAAATTTTAAGACGATTATTGAAGGCGTTTGTGACTGA
AAACACCTTCAATAATTCCCCGATAAAAAATTGAAGAGGATTATTGAAGGCATTTTCTGAAAAAA
AAAAAGCCTTCAATAATTTTCTTTAAAAATTTTCAAGAGATTATTGAAGGCATTTTTAGTATAAA
AACGCCTTCAATAATCACTTAATAAAAAATTAGAATGGACTATTAAAGGCATTTTATGAAAAAAA
AATACATTCAATAATTTTCATTTAAAATATTTGAGAGGATTATTGAAGGCATTTGTGACTAAAAA
CGCCTTCAATAATCACCTGATAAAAAAATAGAATTAATTATTAAAGGTGTTTTCTACAAAAAAAA
AATGCCTAAAA
Found at i:3676726 original size:161 final size:160
Alignment explanation
Indices: 3676389--3677249 Score: 730
Period size: 160 Copynumber: 5.4 Consensus size: 160
3676379 TAGTAAGTTT
* * ** *** *
3676389 ATGATATTAAACTT-TTCCAAATGATTGAACTTGATTTCCATTGTTGATATATGTGTCATTTTTT
1 ATGATATTAAACTTATT-CAAATGATTGAACTTGGTTTCCAATGTTGATATATGTGAAAAAGTTG
** ** * ** * * * ** *
3676453 ACAATTTATGTCTGTTTATAACTTTTTGTACCGTTATAAGGTAAAAATGTAAATTTAC-AGTTAT
65 A-TGTTTACCTCTATTTAGGACTTTTT-TGCCGTTAAAAGGCAAAAATACAAATTTGCTA-TTAT
* *
3676517 T-TTTCTATTTT-ACTAGTTTTGATAGTTTCAATAC
127 TATTT-TATTTTAAC-AGTTTGGATAGCTTCAATAC
* * * * *
3676551 ATGATATTAAACTTATTCAAATTATTGAACTTAGTTTCCAATGTTGATATGTATGAAAAAGTTAA
1 ATGATATTAAACTTATTCAAATGATTGAACTTGGTTTCCAATGTTGATATATGTGAAAAAGTTGA
* * * * *
3676616 TGTTTACGTCTATTTAGGACTTTTTATGCCGTTAATAGGTAATAATACAAATTTTCTATTATTAT
66 TGTTTACCTCTATTTAGGACTTTTT-TGCCGTTAAAAGGCAAAAATACAAATTTGCTATTATTAT
* *
3676681 TTTATTTTAACAGTTTGGATAGCTCCAATAT
130 TTTATTTTAACAGTTTGGATAGCTTCAATAC
* *
3676712 ATGATATTAAACTTA-TCTAAATGATTGAACTTGGTTTTCACA--TTGATATATGTGAAAAGGTT
1 ATGATATTAAACTTATTC-AAATGATTGAACTTGGTTTCCA-ATGTTGATATATGTGAAAAAGTT
* * * *
3676774 -ATCATTTACATTTATTTAGGACTATTTTTGCCGTTAAAACGCAAAAATACAAATTTGCTATTAT
64 GAT-GTTTACCTCTATTTAGGACT-TTTTTGCCGTTAAAAGGCAAAAATACAAATTTGCTATTAT
* * * *
3676838 TATTTTATTTTAACAGTTTGTATGGCTTCATTAT
127 TATTTTATTTTAACAGTTTGGATAGCTTCAATAC
*
3676872 ATGATATTAAA--TAGTTTCAAATG-TTGAACTTGGTTTCC-ATAGTTGATATATGTAAAAAAGT
1 ATGATATTAAACTTA--TTCAAATGATTGAACTTGGTTTCCAAT-GTTGATATATGTGAAAAAGT
* * * * * *
3676933 TGTTGTTTACCTCTGTTTAGGA-TTTTTCGGGTCGTTAAAAAGCAAAAATACAAATTTGCTATTT
63 TGATGTTTACCTCTATTTAGGACTTTTT--TGCCGTTAAAAGGCAAAAATACAAATTTGCTATTA
* * *
3676997 TTGTTTTGTTTTAGCAGTTTGGATAGCTTCAATAC
126 TTATTTTATTTTAACAGTTTGGATAGCTTCAATAC
* * *
3677032 ATGATATTAAACTTTTTCAAAAGATTGAACTTGGTATTCACAA--TTGATATATGTGACAAAGTT
1 ATGATATTAAACTTATTCAAATGATTGAACTTGGT-TTC-CAATGTTGATATATGTGAAAAAGTT
* * * * * ** * * *
3677095 GTTGTTTACCTTTGTTAATGACTTTTTTAACGTTAAAAGGTAAAAATACAAAGTTGCTATTAGTC
64 GATGTTTACCTCTATTTAGGACTTTTTTGCCGTTAAAAGGCAAAAATACAAATTTGCTATTA-TT
*** *
3677160 ACCATGTTTTAACAGTTTGGATAGCTTCAATAC
128 ATTTTATTTTAACAGTTTGGATAGCTTCAATAC
* * * * *
3677193 ATGATATTAAACTTGTCCAAATAATTGAATTTGG-TTCC-ATGATTGATATGTGTGAAA
1 ATGATATTAAACTTATTCAAATGATTGAACTTGGTTTCCAATG-TTGATATATGTGAAA
3677250 GGCCAAAATG
Statistics
Matches: 577, Mismatches: 94, Indels: 58
0.79 0.13 0.08
Matches are distributed among these distances:
157 2 0.00
158 7 0.01
159 20 0.03
160 263 0.46
161 215 0.37
162 66 0.11
163 3 0.01
164 1 0.00
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.43
Consensus pattern (160 bp):
ATGATATTAAACTTATTCAAATGATTGAACTTGGTTTCCAATGTTGATATATGTGAAAAAGTTGA
TGTTTACCTCTATTTAGGACTTTTTTGCCGTTAAAAGGCAAAAATACAAATTTGCTATTATTATT
TTATTTTAACAGTTTGGATAGCTTCAATAC
Found at i:3678467 original size:16 final size:17
Alignment explanation
Indices: 3678446--3678478 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3678436 ATAATAAATA
3678446 TAAAAA-TAAATTTTTT
1 TAAAAAGTAAATTTTTT
3678462 TAAAAAGTAAATTTTTT
1 TAAAAAGTAAATTTTTT
3678479 AATTTTACAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (17 bp):
TAAAAAGTAAATTTTTT
Found at i:3682273 original size:44 final size:44
Alignment explanation
Indices: 3682184--3682276 Score: 107
Period size: 44 Copynumber: 2.1 Consensus size: 44
3682174 ATGAAAAAAG
* * * * *
3682184 AAAAAAAAAATTGATAAGGTAAAATGTCGATGTGCTCCGCTAAA
1 AAAAAAAAAATTGATAAGGCAAAATGCCAATGTGCTCCACCAAA
* *
3682228 AAAAAATAAAATTGAT-GGGCAAAATGCCAATGTGCTCTACCAAA
1 AAAAAA-AAAATTGATAAGGCAAAATGCCAATGTGCTCCACCAAA
3682272 AAAAA
1 AAAAA
3682277 GAGACAAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 32 0.78
45 9 0.22
ACGTcount: A:0.51, C:0.13, G:0.16, T:0.20
Consensus pattern (44 bp):
AAAAAAAAAATTGATAAGGCAAAATGCCAATGTGCTCCACCAAA
Found at i:3683778 original size:86 final size:84
Alignment explanation
Indices: 3683660--3683824 Score: 231
Period size: 86 Copynumber: 1.9 Consensus size: 84
3683650 AAACTTGGAG
* ** *
3683660 TCTTAGAACCTGAAAATCCTTGTGAATCTTGCATCTTTACGAATCTAGAACCTTTATGAAACTTG
1 TCTTAGAACCTAAAAATCCTTACGAATCTTGCATCTTTACGAATCTAGAA-CTTTATGAAACTTA
*
3683725 GAGTCTTGCGAATCTTTTTT
65 GAGTCTTACGAATCTTTTTT
* * * *
3683745 TCTTACGAACCTAAAAATCTTTACGAATTTTGCATCTTTATGAATCTAGAACTTTGTGAAACTTA
1 TCTTA-GAACCTAAAAATCCTTACGAATCTTGCATCTTTACGAATCTAGAACTTTATGAAACTTA
3683810 GAGTCTTACGAATCT
65 GAGTCTTACGAATCT
3683825 GAAAATCCTT
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
85 31 0.44
86 39 0.56
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (84 bp):
TCTTAGAACCTAAAAATCCTTACGAATCTTGCATCTTTACGAATCTAGAACTTTATGAAACTTAG
AGTCTTACGAATCTTTTTT
Found at i:3683946 original size:51 final size:51
Alignment explanation
Indices: 3683819--3683931 Score: 163
Period size: 51 Copynumber: 2.2 Consensus size: 51
3683809 AGAGTCTTAC
* * * * * *
3683819 GAATCTGAAAATCCTTACGAATCTTACATCTTGCGAATCTTTCTTTCTTGT
1 GAATCTGAAAATCCTTGCAAATTTTACATCTTACGAATATTTCATTCTTGT
*
3683870 GAATGTGAAAATCCTTGCAAATTTTACATCTTACGAATATTTCATTCTTGT
1 GAATCTGAAAATCCTTGCAAATTTTACATCTTACGAATATTTCATTCTTGT
3683921 GAATCTGAAAA
1 GAATCTGAAAA
3683932 CTTTTGTAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (51 bp):
GAATCTGAAAATCCTTGCAAATTTTACATCTTACGAATATTTCATTCTTGT
Found at i:3684643 original size:3 final size:3
Alignment explanation
Indices: 3684637--3684812 Score: 92
Period size: 3 Copynumber: 62.7 Consensus size: 3
3684627 ATGGGTTTTT
*
3684637 TTA TTA -TA TTA TTA -TA TTA -TA TTA TTA GTA TTA TT- TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
3684680 TTA TTA TTA TTA -TA TTA -TA TTA -GA GTA -TA GTA -TA TTA ATA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * * * *
3684723 CAA CATA TTA -TA GTA TTA TTA TTA TTA GTA -TA TT- GTA TATA TT-
1 TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
* * * *
3684766 TTA TTA GTA TTA TTA TTA TTA CTA CTA TCA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
3684813 TTAAAAAATA
Statistics
Matches: 136, Mismatches: 21, Indels: 32
0.72 0.11 0.17
Matches are distributed among these distances:
2 26 0.19
3 106 0.78
4 4 0.03
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (3 bp):
TTA
Found at i:3684648 original size:5 final size:5
Alignment explanation
Indices: 3684638--3684716 Score: 58
Period size: 5 Copynumber: 16.0 Consensus size: 5
3684628 TGGGTTTTTT
* *
3684638 TATTA TA-T- TATTA TATTA TATTA TTAGTA TTATTT TATTA TA-T- TATTA
1 TATTA TATTA TATTA TATTA TATTA -TATTA -TATTA TATTA TATTA TATTA
* * *
3684686 TTATTA TATTA TATTA GAGTA TAGTA TATTA
1 -TATTA TATTA TATTA TATTA TATTA TATTA
3684717 ATATAACAAC
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
3 4 0.07
4 4 0.07
5 39 0.65
6 13 0.22
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (5 bp):
TATTA
Found at i:3684668 original size:27 final size:26
Alignment explanation
Indices: 3684638--3684808 Score: 105
Period size: 27 Copynumber: 6.2 Consensus size: 26
3684628 TGGGTTTTTT
*
3684638 TATTATATTATTATATTATATTATTA
1 TATTATATTATTATAGTATATTATTA
* *
3684664 GTATTATTTTATTATATTATTATTATTA
1 -TATTATATTATTATAGTA-TATTATTA
* *
3684692 TATTATATTAGAGTATAGTATATTAATA
1 TATTATATT--ATTATAGTATATTATTA
** *
3684720 TAACA-ACATATTATAGTATTATTATTA
1 TATTATA-TTATTATAGTA-TATTATTA
* * *
3684747 TTAGTATATT-GTATA-TATTTTATTA
1 -TATTATATTATTATAGTATATTATTA
*
3684772 GTATTATTATTATTACTACTATCATTATTA
1 -TATTA-TATTATTA-TAGTAT-ATTATTA
3684802 TTATTAT
1 -TATTAT
3684809 TATTTTAAAA
Statistics
Matches: 112, Mismatches: 20, Indels: 22
0.73 0.13 0.14
Matches are distributed among these distances:
25 11 0.10
26 14 0.12
27 39 0.35
28 25 0.22
29 12 0.11
30 11 0.10
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.56
Consensus pattern (26 bp):
TATTATATTATTATAGTATATTATTA
Found at i:3689173 original size:11 final size:11
Alignment explanation
Indices: 3689157--3689181 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3689147 ATTTTCTACC
3689157 TTTGTTATTAT
1 TTTGTTATTAT
3689168 TTTGTTATTAT
1 TTTGTTATTAT
3689179 TTT
1 TTT
3689182 TTTAGTTGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (11 bp):
TTTGTTATTAT
Found at i:3690228 original size:21 final size:22
Alignment explanation
Indices: 3690190--3690231 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
3690180 CTACTGGATC
3690190 AAAAAAAATTTTTAAATTTTTTT
1 AAAAAAAA-TTTTAAATTTTTTT
*
3690213 AAAAAAAA-TTTGAATTTTT
1 AAAAAAAATTTTAAATTTTT
3690232 ATTAGAGACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
23 8 0.44
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
AAAAAAAATTTTAAATTTTTTT
Found at i:3693771 original size:6 final size:6
Alignment explanation
Indices: 3693756--3693805 Score: 59
Period size: 6 Copynumber: 8.3 Consensus size: 6
3693746 TTTAATAAAT
*
3693756 AAAT-A AAATAA AAATAA AAATAAA ACAATAA CAAT-A AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAAT-AA A-AATAA AAATAA AAATAA AAATAA
3693804 AA
1 AA
3693806 TTTGGTCTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
5 8 0.21
6 23 0.59
7 5 0.13
8 3 0.08
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:3693772 original size:11 final size:11
Alignment explanation
Indices: 3693756--3693806 Score: 61
Period size: 11 Copynumber: 4.8 Consensus size: 11
3693746 TTTAATAAAT
3693756 AAATAAAATAA
1 AAATAAAATAA
*
3693767 AAATAAAA-AT
1 AAATAAAATAA
*
3693777 AAA-ACAATAA
1 AAATAAAATAA
*
3693787 CAATAAAATAA
1 AAATAAAATAA
3693798 AAATAAAAT
1 AAATAAAAT
3693807 TTGGTCTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
9 3 0.09
10 7 0.22
11 22 0.69
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:3693785 original size:25 final size:24
Alignment explanation
Indices: 3693749--3693805 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 24
3693739 TAATTAATTT
3693749 AATAAATAAATAA-AATAAAAATAAA
1 AATAAA-AAATAACAAT-AAAATAAA
3693774 AATAAAACAATAACAATAAAATAAA
1 AATAAAA-AATAACAATAAAATAAA
3693799 AATAAAA
1 AATAAAA
3693806 TTTGGTCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
24 1 0.03
25 26 0.87
26 3 0.10
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.18
Consensus pattern (24 bp):
AATAAAAAATAACAATAAAATAAA
Found at i:3693791 original size:14 final size:12
Alignment explanation
Indices: 3693749--3693805 Score: 55
Period size: 11 Copynumber: 4.6 Consensus size: 12
3693739 TAATTAATTT
3693749 AATAAATAAATAA
1 AATAAA-AAATAA
3693762 AAT-AAAAATAAA
1 AATAAAAAAT-AA
3693774 AATAAAACAATAA
1 AATAAAA-AATAA
*
3693787 CAATAAAATA-AA
1 -AATAAAAAATAA
3693799 AATAAAA
1 AATAAAA
3693806 TTTGGTCTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
11 11 0.28
12 9 0.23
13 9 0.23
14 10 0.26
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.18
Consensus pattern (12 bp):
AATAAAAAATAA
Found at i:3693800 original size:20 final size:19
Alignment explanation
Indices: 3693752--3693800 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
3693742 TTAATTTAAT
3693752 AAATAAATAAAATAAAAATAA
1 AAATAAA-AAAATAAAAAT-A
* *
3693773 AAATAAAACAATAACAATA
1 AAATAAAAAAATAAAAATA
3693792 AAATAAAAA
1 AAATAAAAA
3693801 TAAAATTTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 9 0.36
20 9 0.36
21 7 0.28
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (19 bp):
AAATAAAAAAATAAAAATA
Found at i:3695274 original size:2 final size:2
Alignment explanation
Indices: 3695269--3695297 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3695259 TATATATATA
3695269 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
3695298 TTTTTATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:3699329 original size:3 final size:3
Alignment explanation
Indices: 3699323--3699393 Score: 110
Period size: 3 Copynumber: 24.0 Consensus size: 3
3699313 CTTTAAAATC
3699323 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
3699370 ATT ATC ATT -TCT ATT ATT ATT ATT
1 ATT ATT ATT AT-T ATT ATT ATT ATT
3699394 CCTTTTTTTC
Statistics
Matches: 63, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
2 3 0.05
3 59 0.94
4 1 0.02
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:3703014 original size:18 final size:19
Alignment explanation
Indices: 3702991--3703029 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
3702981 AACAAAAATC
* *
3702991 AATTAAATTTCTAATA-AT
1 AATTAAAATTATAATATAT
3703009 AATTAAAATTATAATATAT
1 AATTAAAATTATAATATAT
3703028 AA
1 AA
3703030 AATACGAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTAAAATTATAATATAT
Found at i:3704027 original size:132 final size:133
Alignment explanation
Indices: 3703817--3704131 Score: 366
Period size: 132 Copynumber: 2.4 Consensus size: 133
3703807 CGTCATTAAA
* * * * *
3703817 TTAGTTGCATTTTTATGAGAAAAACACCGTTGCTTTGGT-AGCGTTTGTAACTGAAAACATCACT
1 TTAGTGGCAGTTTTATGAGAAAAATACCGTTGCTTTGGTGA-CATTTGTAACTAAAAACATCACT
* * *
3703881 ACTTTGAGGTGTTTGTATTTAAAAACGCCTCTATATTAACAGCATTTATATCTTTGAGATGCTGC
65 ACTTTGAGGCGTTTGTATTTAAAAACGCCTCTATATTAACAGCATTTATATCTTTGAGACGCCGC
3703946 TAAT
130 TAAT
* * **
3703950 TTAGTGGC-GTTTTATGAGAAAAATGCCGTTGTTTTGGTGACATTTGTAAC-AAAAACATTGCTA
1 TTAGTGGCAGTTTTATGAGAAAAATACCGTTGCTTTGGTGACATTTGTAACTAAAAACATCACTA
* * * * * * *
3704013 CTTTAGAGGCGTTTGTATTTAAAAATGTCTCTATTTTAGCAGCATTTGTATTTTTGAGACGCCGT
66 CTTT-GAGGCGTTTGTATTTAAAAACGCCTCTATATTAACAGCATTTATATCTTTGAGACGCCGC
3704078 TAAT
130 TAAT
* * * ** *
3704082 TTAGTGGCATTTTTGTGAGGAAAATACTATTGCTTTGGTGGCATTTGTAA
1 TTAGTGGCAGTTTTATGAGAAAAATACCGTTGCTTTGGTGACATTTGTAA
3704132 ATGAAAACGC
Statistics
Matches: 152, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
131 14 0.09
132 97 0.64
133 41 0.27
ACGTcount: A:0.28, C:0.13, G:0.20, T:0.40
Consensus pattern (133 bp):
TTAGTGGCAGTTTTATGAGAAAAATACCGTTGCTTTGGTGACATTTGTAACTAAAAACATCACTA
CTTTGAGGCGTTTGTATTTAAAAACGCCTCTATATTAACAGCATTTATATCTTTGAGACGCCGCT
AAT
Found at i:3714295 original size:80 final size:79
Alignment explanation
Indices: 3714160--3714480 Score: 367
Period size: 80 Copynumber: 4.1 Consensus size: 79
3714150 TTAAATATTG
* * * * *
3714160 TGGTTTGCTAAACCTTGTTCTTTGATTTTTTTTGCTGAATGGTATTGTATTATATTGGGGGGCTG
1 TGGTTTGCTAAACCTTGTTGTCTGATATTGTTTGCTGAATGGTATTGTATGATATTGGGGGGCTG
* *
3714225 AATCGTATGTTGAA
66 AATCATATGCTGAA
* * * * * * *
3714239 TGGTTTGTTGAACCTTATTGTATGATATTGTATTG-TCGAATGGTATTATATAATATTGGGAGGC
1 TGGTTTGCTAAACCTTGTTGTCTGATATTGT-TTGCT-GAATGGTATTGTATGATATTGGGGGGC
3714303 TGAATCATATGCTGAA
64 TGAATCATATGCTGAA
* * **
3714319 TGGTTTGCTAAACCTTGTTGTCTAATATTGTTTTGCTGAATGGTTTTGTATGATATTGGGGGATT
1 TGGTTTGCTAAACCTTGTTGTCTGATATTG-TTTGCTGAATGGTATTGTATGATATTGGGGGGCT
*
3714384 GAATCATATGCTAAA
65 GAATCATATGCTGAA
* * * * *
3714399 TGATTTGCTAAACTTTGTTGTCTGATATT-TTTGCTAAATGGTTTTGTATGATATTGGGGGGTTG
1 TGGTTTGCTAAACCTTGTTGTCTGATATTGTTTGCTGAATGGTATTGTATGATATTGGGGGGCTG
**
3714463 AATTGTATGCTGAA
66 AATCATATGCTGAA
3714477 TGGT
1 TGGT
3714481 GTTTATGAGT
Statistics
Matches: 205, Mismatches: 33, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
78 47 0.23
79 25 0.12
80 131 0.64
81 2 0.01
ACGTcount: A:0.23, C:0.08, G:0.25, T:0.45
Consensus pattern (79 bp):
TGGTTTGCTAAACCTTGTTGTCTGATATTGTTTGCTGAATGGTATTGTATGATATTGGGGGGCTG
AATCATATGCTGAA
Found at i:3722804 original size:19 final size:20
Alignment explanation
Indices: 3722780--3722820 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
3722770 ATCTACTTAT
3722780 TAAATAT-AACTATTGAAGA
1 TAAATATGAACTATTGAAGA
3722799 TAAATATGAACTATTGAAGA
1 TAAATATGAACTATTGAAGA
3722819 TA
1 TA
3722821 GAAGTTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.51, C:0.05, G:0.12, T:0.32
Consensus pattern (20 bp):
TAAATATGAACTATTGAAGA
Found at i:3723150 original size:18 final size:18
Alignment explanation
Indices: 3723127--3723172 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
3723117 ATTCTCGAAT
3723127 CCAAATTATTTTATAGAC
1 CCAAATTATTTTATAGAC
*
3723145 CCAAATTATTTTGTAGAC
1 CCAAATTATTTTATAGAC
*
3723163 CCAATTTATT
1 CCAAATTATT
3723173 AAAAGGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.41
Consensus pattern (18 bp):
CCAAATTATTTTATAGAC
Found at i:3724357 original size:33 final size:33
Alignment explanation
Indices: 3724302--3724380 Score: 108
Period size: 33 Copynumber: 2.4 Consensus size: 33
3724292 ATTACGAATA
* *
3724302 ATTTTTAAATTATAATAAAATATTTAAATTATAT
1 ATTTTTTAATTATAATAAAATATTTAAATAAT-T
3724336 ATTTTTTAATTA-AATAAAATATTTAAATAATT
1 ATTTTTTAATTATAATAAAATATTTAAATAATT
3724368 ATTTATTT-ATTAT
1 ATTT-TTTAATTAT
3724381 TTATCATCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
32 9 0.22
33 21 0.51
34 11 0.27
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (33 bp):
ATTTTTTAATTATAATAAAATATTTAAATAATT
Found at i:3724478 original size:29 final size:29
Alignment explanation
Indices: 3724413--3724505 Score: 100
Period size: 29 Copynumber: 3.2 Consensus size: 29
3724403 ATATTAAAAA
**
3724413 TAAATATCACATTAATTAATAAATTTATAATT
1 TAAATATCACATTAA--AA-ATTTTTATAATT
*
3724445 TAAATATCACATTAAAAATTTTTAAAATT
1 TAAATATCACATTAAAAATTTTTATAATT
* *
3724474 TAAATATTACATT--AAATTATTATAATT
1 TAAATATCACATTAAAAATTTTTATAATT
3724501 TAAAT
1 TAAAT
3724506 GTCATTGATG
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 17 0.31
29 21 0.38
30 2 0.04
32 15 0.27
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (29 bp):
TAAATATCACATTAAAAATTTTTATAATT
Found at i:3724786 original size:7 final size:7
Alignment explanation
Indices: 3724774--3724798 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
3724764 TATCGAATAG
3724774 ATTTAAA
1 ATTTAAA
3724781 ATTTAAA
1 ATTTAAA
3724788 ATTTAAA
1 ATTTAAA
3724795 ATTT
1 ATTT
3724799 GTAATTTTAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (7 bp):
ATTTAAA
Found at i:3735776 original size:21 final size:21
Alignment explanation
Indices: 3735750--3735792 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
3735740 TATCCGACAA
*
3735750 ACTTTTTAAGTCATATTGTAT
1 ACTTTTTAAGTCATATTATAT
3735771 ACTTTTTAAGTCATATTATAT
1 ACTTTTTAAGTCATATTATAT
3735792 A
1 A
3735793 TGTACATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.51
Consensus pattern (21 bp):
ACTTTTTAAGTCATATTATAT
Found at i:3735806 original size:6 final size:6
Alignment explanation
Indices: 3735795--3735819 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
3735785 ATTATATATG
3735795 TACATA TACATA TACATA TACATA T
1 TACATA TACATA TACATA TACATA T
3735820 GTGCATGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (6 bp):
TACATA
Found at i:3736516 original size:16 final size:16
Alignment explanation
Indices: 3736497--3736529 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
3736487 CTTTAACATT
3736497 TCTTGACTTTCATTCA
1 TCTTGACTTTCATTCA
3736513 TCTTGACTTTCATTCA
1 TCTTGACTTTCATTCA
3736529 T
1 T
3736530 TTAATGCTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.18, C:0.24, G:0.06, T:0.52
Consensus pattern (16 bp):
TCTTGACTTTCATTCA
Found at i:3739130 original size:2 final size:2
Alignment explanation
Indices: 3739123--3739147 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3739113 ATCAAATGGA
3739123 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
3739148 ATGAACTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3746506 original size:25 final size:25
Alignment explanation
Indices: 3746452--3746508 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
3746442 TTTAATATAA
* * *
3746452 CAATAAATTTTATTATATAAGAAAT
1 CAATAATTTTTATTATATAACAAAC
*
3746477 AAATAATTTTTATTATATAACAAAC
1 CAATAATTTTTATTATATAACAAAC
3746502 CAATAAT
1 CAATAAT
3746509 ATGTATTAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.39
Consensus pattern (25 bp):
CAATAATTTTTATTATATAACAAAC
Found at i:3746515 original size:25 final size:25
Alignment explanation
Indices: 3746462--3746516 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
3746452 CAATAAATTT
* * * *
3746462 TATTATATAAGAAATAAATAATTTT
1 TATTATATAACAAACAAATAATATG
*
3746487 TATTATATAACAAACCAATAATATG
1 TATTATATAACAAACAAATAATATG
3746512 TATTA
1 TATTA
3746517 ATATTTTGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.40
Consensus pattern (25 bp):
TATTATATAACAAACAAATAATATG
Found at i:3747497 original size:18 final size:19
Alignment explanation
Indices: 3747455--3747501 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
3747445 TATATATATA
3747455 TATTTGTGTTAGCCATGTC
1 TATTTGTGTTAGCCATGTC
3747474 TATTTGTGTATA-CCATGT-
1 TATTTGTGT-TAGCCATGTC
3747492 TATTTGTGTT
1 TATTTGTGTT
3747502 TATACGTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 1 0.04
18 9 0.33
19 15 0.56
20 2 0.07
ACGTcount: A:0.17, C:0.11, G:0.19, T:0.53
Consensus pattern (19 bp):
TATTTGTGTTAGCCATGTC
Found at i:3747798 original size:3 final size:3
Alignment explanation
Indices: 3747790--3747829 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
3747780 AACTTTTTAA
3747790 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
3747830 CTAAGCTATA
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:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:3748639 original size:2 final size:2
Alignment explanation
Indices: 3748632--3748662 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3748622 GGATACTTTA
3748632 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3748663 AAGGTAGGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3749316 original size:21 final size:21
Alignment explanation
Indices: 3749292--3749331 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3749282 AAATAACATG
*
3749292 TTAAAATTTTAATTTTAATGA
1 TTAAAATTTAAATTTTAATGA
3749313 TTAAAATTTAAATTTTAAT
1 TTAAAATTTAAATTTTAAT
3749332 AATTTCAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (21 bp):
TTAAAATTTAAATTTTAATGA
Found at i:3757898 original size:30 final size:30
Alignment explanation
Indices: 3757864--3757925 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
3757854 AGACAAAAAT
3757864 TGAGGTTGTGCAATAAAAAAAAAAGCATGA
1 TGAGGTTGTGCAATAAAAAAAAAAGCATGA
* *
3757894 TGAGGTTGTGTAATAAGAAAAAAAGCATGA
1 TGAGGTTGTGCAATAAAAAAAAAAGCATGA
3757924 TG
1 TG
3757926 TACTAGATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.47, C:0.05, G:0.26, T:0.23
Consensus pattern (30 bp):
TGAGGTTGTGCAATAAAAAAAAAAGCATGA
Found at i:3762064 original size:95 final size:94
Alignment explanation
Indices: 3761913--3762099 Score: 261
Period size: 95 Copynumber: 2.0 Consensus size: 94
3761903 TCGAAAATTG
* *
3761913 AAAATTTTCTTTCCTTAGACTTTTCTTAGCATTGATGATAGAATAAAAAATAAATTTAAGATTTA
1 AAAATCTTCTTTCCTTAAACTTTTCTTAGCATTGATGATAGAATAAAAAATAAATTTAAGATTTA
3761978 ATATTTAAATTTTTTTAATTAAAAATATTTT
66 ATATTTAAA-TTTTTT-ATTAAAAATATTTT
* *** *
3762009 AAAATCTTCTTTTCTTAAACTTTT-TTAGCATTGATGATA-AATTAAATGTTCAATTTAAGATTT
1 AAAATCTTCTTTCCTTAAACTTTTCTTAGCATTGATGATAGAA-TAAAAAATAAATTTAAGATTT
*
3762072 AATATTTAGATTTTTTATTAAAAATATT
65 AATATTTAAATTTTTTATTAAAAATATT
3762100 ATTTTTTAAT
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
93 12 0.15
94 8 0.10
95 41 0.50
96 21 0.26
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (94 bp):
AAAATCTTCTTTCCTTAAACTTTTCTTAGCATTGATGATAGAATAAAAAATAAATTTAAGATTTA
ATATTTAAATTTTTTATTAAAAATATTTT
Found at i:3762238 original size:1 final size:1
Alignment explanation
Indices: 3762227--3762256 Score: 51
Period size: 1 Copynumber: 30.0 Consensus size: 1
3762217 TTAATTATAT
*
3762227 AAAAGAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3762257 CCCAAACTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:3762617 original size:15 final size:15
Alignment explanation
Indices: 3762597--3762737 Score: 51
Period size: 15 Copynumber: 9.0 Consensus size: 15
3762587 AAAATATTAA
3762597 AAAATATTTATTATT
1 AAAATATTTATTATT
*
3762612 AAAATA--TA-T-TG
1 AAAATATTTATTATT
*
3762623 AAATTATTTATTATT
1 AAAATATTTATTATT
*
3762638 AAAAT-TATTAATATT
1 AAAATAT-TTATTATT
*
3762653 AAAAATAATTATATTTTAAT
1 -AAAAT-ATT-TA--TTATT
*
3762673 AATAATATTTAATATT
1 AA-AATATTTATTATT
*
3762689 AAATAATTATGTTAATATT
1 -AA-AA-TAT-TTATTATT
* * *
3762708 AAAATACTTA-AAAT
1 AAAATATTTATTATT
3762722 AAAATTATTTATTATT
1 AAAA-TATTTATTATT
3762738 CTTTATATTA
Statistics
Matches: 94, Mismatches: 15, Indels: 33
0.66 0.11 0.23
Matches are distributed among these distances:
11 6 0.06
12 1 0.01
13 4 0.04
14 8 0.09
15 26 0.28
16 12 0.13
17 8 0.09
18 10 0.11
19 13 0.14
20 6 0.06
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:3762647 original size:19 final size:19
Alignment explanation
Indices: 3762624--3762713 Score: 70
Period size: 19 Copynumber: 5.1 Consensus size: 19
3762614 AATATATTGA
3762624 AATTATTTATTATTAAAAT
1 AATTATTTATTATTAAAAT
* *
3762643 TATTA-ATATTA--AAAAT
1 AATTATTTATTATTAAAAT
3762659 AATTA--TATT-TTAATAAT
1 AATTATTTATTATTAA-AAT
*
3762676 AA-TATTTAATATT-AAAT
1 AATTATTTATTATTAAAAT
*
3762693 AATTATGTTAATATTAAAAT
1 AATTAT-TTATTATTAAAAT
3762713 A
1 A
3762714 CTTAAAATAA
Statistics
Matches: 58, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
15 4 0.07
16 13 0.22
17 10 0.17
18 12 0.21
19 14 0.24
20 5 0.09
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (19 bp):
AATTATTTATTATTAAAAT
Found at i:3762653 original size:25 final size:25
Alignment explanation
Indices: 3762583--3762653 Score: 90
Period size: 26 Copynumber: 2.8 Consensus size: 25
3762573 TTAATATAAC
*
3762583 TATTAAAA-TATTAAAAAATATTTAT
1 TATTAAAATTATT-AAAATTATTTAT
*
3762608 TATTAAAATATATTGAAATTATTTAT
1 TATTAAAAT-TATTAAAATTATTTAT
*
3762634 TATTAAAATTATTAATATTA
1 TATTAAAATTATTAAAATTA
3762654 AAAATAATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.43
26 19 0.47
27 4 0.10
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (25 bp):
TATTAAAATTATTAAAATTATTTAT
Found at i:3762768 original size:23 final size:22
Alignment explanation
Indices: 3762741--3762896 Score: 159
Period size: 23 Copynumber: 7.3 Consensus size: 22
3762731 TATTATTCTT
3762741 TATATTATTTATTAATATAATA
1 TATATTATTTATTAATATAATA
3762763 TAATATTATTTATT-A-ATAATA
1 T-ATATTATTTATTAATATAATA
* *
3762784 TTTATTAATATATT-ATATTAATA
1 TATATT-ATTTATTAATA-TAATA
3762807 GTATATTATTTATTAATATAATA
1 -TATATTATTTATTAATATAATA
3762830 T-TATTATTTATT-AT-T-ATA
1 TATATTATTTATTAATATAATA
* *
3762848 -ATATTATTTATTAGTATATTA
1 TATATTATTTATTAATATAATA
*
3762869 TAATATTATTTATTAATACAATA
1 T-ATATTATTTATTAATATAATA
3762892 T-TATT
1 TATATT
3762897 TATAAAGTAA
Statistics
Matches: 113, Mismatches: 9, Indels: 25
0.77 0.06 0.17
Matches are distributed among these distances:
18 14 0.12
19 2 0.02
20 7 0.06
21 31 0.27
22 4 0.04
23 47 0.42
24 8 0.07
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (22 bp):
TATATTATTTATTAATATAATA
Found at i:3762779 original size:18 final size:18
Alignment explanation
Indices: 3762742--3762899 Score: 132
Period size: 18 Copynumber: 8.6 Consensus size: 18
3762732 ATTATTCTTT
3762742 ATATTATTTATTAATATA
1 ATATTATTTATTAATATA
* *
3762760 ATATAATATTATTTAT-TA
1 ATATTAT-TTATTAATATA
*
3762778 ATAATATTTATT-A-AT-
1 ATATTATTTATTAATATA
3762793 ATATTA--TATTAATAGT-
1 ATATTATTTATTAATA-TA
3762809 ATATTATTTATTAATATAA
1 ATATTATTTATTAATAT-A
*
3762828 TATTATTATTTATTATTATA
1 -A-TATTATTTATTAATATA
3762848 ATATTATTTATTAGTATATTATA
1 ATATTATTTA-T--TA-A-TATA
*
3762871 ATATTATTTATTAATACA
1 ATATTATTTATTAATATA
3762889 ATATTATTTAT
1 ATATTATTTAT
3762900 AAAGTAAAAT
Statistics
Matches: 116, Mismatches: 8, Indels: 32
0.74 0.05 0.21
Matches are distributed among these distances:
13 4 0.03
14 1 0.01
15 6 0.05
16 9 0.08
17 6 0.05
18 44 0.38
19 10 0.09
20 4 0.03
21 17 0.15
22 1 0.01
23 14 0.12
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (18 bp):
ATATTATTTATTAATATA
Found at i:3762795 original size:31 final size:32
Alignment explanation
Indices: 3762758--3762834 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 32
3762748 TTTATTAATA
*
3762758 TAATATAATATTATTTATTA-ATAATATTTAT
1 TAATATAATATTATTTAATAGATAATATTTAT
* *
3762789 TAATATATTA-TA-TTAATAGTATATTATTTAT
1 TAATATAATATTATTTAATAG-ATAATATTTAT
3762820 TAATATAATATTATT
1 TAATATAATATTATT
3762835 ATTTATTATT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
29 5 0.13
30 2 0.05
31 28 0.74
32 2 0.05
33 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (32 bp):
TAATATAATATTATTTAATAGATAATATTTAT
Found at i:3762813 original size:44 final size:40
Alignment explanation
Indices: 3762758--3762899 Score: 155
Period size: 39 Copynumber: 3.4 Consensus size: 40
3762748 TTTATTAATA
3762758 TAATATAATATTATTTATTAATAATATTTATTAATATATTATAT
1 TAATAT-ATATTATTTATTAAT-ATA-TTATTAATATATT-TAT
*
3762802 TAATAGTATATTATTTATTAATATAATATT-AT-TATTTAT
1 TAATA-TATATTATTTATTAATATATTATTAATATATTTAT
* *
3762841 TATTATAATATTATTTATTAGTATATTA-TAATATTATTTAT
1 TAATAT-ATATTATTTATTAATATATTATTAATA-TATTTAT
*
3762882 TAATACAATATTATTTAT
1 TAATA-TATATTATTTAT
3762900 AAAGTAAAAT
Statistics
Matches: 86, Mismatches: 6, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
38 2 0.02
39 28 0.33
40 4 0.05
41 24 0.28
42 4 0.05
43 3 0.03
44 20 0.23
45 1 0.01
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (40 bp):
TAATATATATTATTTATTAATATATTATTAATATATTTAT
Found at i:3762831 original size:62 final size:58
Alignment explanation
Indices: 3762740--3762899 Score: 169
Period size: 62 Copynumber: 2.6 Consensus size: 58
3762730 TTATTATTCT
* * *
3762740 TTATATTATTTATTAATATAATATAATATTATTTATTA-ATAATATTTATTAATATATTATA
1 TTATAATA-TTATTTAT-TAATATAATATTATTTATTATATAATA-TTATTAAT-TAGTATA
*
3762801 TTAATAGTATATTATTTATTAATATAATATTATTATTTATTATTATAATATTATTTATTAGTATA
1 TT-ATA--ATATTATTTATTAATAT-A-A-TATTATTTATTA-TATAATATTATTAATTAGTATA
*
3762866 TTATAATATTATTTATTAATACAATATTATTTAT
1 TTATAATATTATTTATTAATATAATATTATTTAT
3762900 AAAGTAAAAT
Statistics
Matches: 86, Mismatches: 5, Indels: 18
0.79 0.05 0.17
Matches are distributed among these distances:
59 10 0.12
60 1 0.01
61 3 0.03
62 25 0.29
63 8 0.09
64 6 0.07
65 20 0.23
66 7 0.08
67 6 0.07
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.56
Consensus pattern (58 bp):
TTATAATATTATTTATTAATATAATATTATTTATTATATAATATTATTAATTAGTATA
Found at i:3763731 original size:2 final size:2
Alignment explanation
Indices: 3763724--3763766 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
3763714 ACAAAACACA
3763724 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3763766 A
1 A
3763767 AAAGGTTTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3763821 original size:1 final size:1
Alignment explanation
Indices: 3763815--3763846 Score: 64
Period size: 1 Copynumber: 32.0 Consensus size: 1
3763805 ATGAAAATAC
3763815 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
3763847 CGAGAGACAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:3764344 original size:24 final size:25
Alignment explanation
Indices: 3764317--3764371 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 25
3764307 ATTAAAAATA
*
3764317 AAATAGAAAA-TATAATTTTTTTAT
1 AAATAGAAAACTATAATTTTTTAAT
** *
3764341 AAATTTAAAATCTATCATTTTTTAAT
1 AAATAGAAAA-CTATAATTTTTTAAT
3764367 AAATA
1 AAATA
3764372 TTTTTTCATA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 8 0.33
26 16 0.67
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (25 bp):
AAATAGAAAACTATAATTTTTTAAT
Found at i:3766556 original size:20 final size:19
Alignment explanation
Indices: 3766508--3766557 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
3766498 GTTGGAGGTT
*
3766508 AATTAATAAAATAATTTTA
1 AATTAATAAAATAATTTGA
*
3766527 AATTATTAAAATTAATATTGA
1 AATTAATAAAA-TAAT-TTGA
3766548 AA-TAATAAAA
1 AATTAATAAAA
3766558 ATTGTGAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 10 0.38
20 11 0.42
21 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATTAATAAAATAATTTGA
Found at i:3766802 original size:31 final size:32
Alignment explanation
Indices: 3766767--3766841 Score: 109
Period size: 32 Copynumber: 2.4 Consensus size: 32
3766757 TACAAATAAA
3766767 ATCAAATGAAATGC-AA-GTGCATTAATATTTT
1 ATCAAATGAAAT-CAAACGTGCATTAATATTTT
*
3766798 ATCAAATAAAATCAAACGTGCATTAATATTTT
1 ATCAAATGAAATCAAACGTGCATTAATATTTT
*
3766830 ACCAAATGAAAT
1 ATCAAATGAAAT
3766842 TAAATAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
30 1 0.03
31 13 0.33
32 25 0.64
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (32 bp):
ATCAAATGAAATCAAACGTGCATTAATATTTT
Found at i:3768186 original size:19 final size:19
Alignment explanation
Indices: 3768139--3768186 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
3768129 TTTTTTGAAT
*
3768139 TATTT-TTAAATTAAAATG
1 TATTTATTAAAATAAAATG
* *
3768157 TATTAAATAAAATAAAATG
1 TATTTATTAAAATAAAATG
3768176 TATTTATTAAA
1 TATTTATTAAA
3768187 TGTCAAATGA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (19 bp):
TATTTATTAAAATAAAATG
Found at i:3778684 original size:19 final size:20
Alignment explanation
Indices: 3778639--3778689 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
3778629 TTAAAAGATC
*
3778639 AACTAAAGA-ACAGTATAAGA
1 AACTAAAGAGA-AGTATAAAA
*
3778659 AATTAAAGAGAAG-ATAAAA
1 AACTAAAGAGAAGTATAAAA
3778678 AACTAAAGAGAA
1 AACTAAAGAGAA
3778690 ATTGCAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 16 0.59
20 10 0.37
21 1 0.04
ACGTcount: A:0.65, C:0.06, G:0.16, T:0.14
Consensus pattern (20 bp):
AACTAAAGAGAAGTATAAAA
Found at i:3784612 original size:18 final size:19
Alignment explanation
Indices: 3784591--3784656 Score: 70
Period size: 18 Copynumber: 3.7 Consensus size: 19
3784581 TTTATTTTTT
3784591 TATTTT-TTTTGTTTTTGG
1 TATTTTATTTTGTTTTTGG
*
3784609 TATTTTATATT-TTTTTGG
1 TATTTTATTTTGTTTTTGG
*
3784627 TATTTGTATTTTGATTTT--
1 TATTT-TATTTTGTTTTTGG
3784645 T-TTTTATTTTGT
1 TATTTTATTTTGT
3784657 ATTTAATAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
16 7 0.17
17 3 0.07
18 19 0.46
19 8 0.20
20 4 0.10
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (19 bp):
TATTTTATTTTGTTTTTGG
Found at i:3784614 original size:24 final size:23
Alignment explanation
Indices: 3784587--3784660 Score: 87
Period size: 23 Copynumber: 3.1 Consensus size: 23
3784577 TCTGTTTATT
3784587 TTTTTATTTTTTTTGTTTTTGGTA
1 TTTTTATTTTTTTTGTTTTT-GTA
* *
3784611 TTTTATATTTTTTTGGTATTTGTA
1 TTTT-TATTTTTTTTGTTTTTGTA
*
3784635 TTTTGATTTTTTTT-TATTTTGTA
1 TTTTTATTTTTTTTGT-TTTTGTA
3784658 TTT
1 TTT
3784661 AATAATATTA
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
22 1 0.02
23 17 0.40
24 11 0.26
25 14 0.33
ACGTcount: A:0.12, C:0.00, G:0.11, T:0.77
Consensus pattern (23 bp):
TTTTTATTTTTTTTGTTTTTGTA
Found at i:3784643 original size:23 final size:22
Alignment explanation
Indices: 3784587--3784660 Score: 76
Period size: 24 Copynumber: 3.1 Consensus size: 22
3784577 TCTGTTTATT
*
3784587 TTTTTATTTTTTTTGTTTTTGGTA
1 TTTTTA-TTTTTTTGTATTT-GTA
3784611 TTTTATATTTTTTTGGTATTTGTA
1 TTTT-TATTTTTTT-GTATTTGTA
* *
3784635 TTTTGATTTTTTTTTATTTTGTA
1 TTTTTATTTTTTTGTA-TTTGTA
3784658 TTT
1 TTT
3784661 AATAATATTA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
22 2 0.05
23 17 0.39
24 18 0.41
25 7 0.16
ACGTcount: A:0.12, C:0.00, G:0.11, T:0.77
Consensus pattern (22 bp):
TTTTTATTTTTTTGTATTTGTA
Found at i:3791732 original size:12 final size:12
Alignment explanation
Indices: 3791715--3791739 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3791705 ATATTTATCT
3791715 AAACATAGCATA
1 AAACATAGCATA
3791727 AAACATAGCATA
1 AAACATAGCATA
3791739 A
1 A
3791740 GAACTCATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.16, G:0.08, T:0.16
Consensus pattern (12 bp):
AAACATAGCATA
Found at i:3793992 original size:23 final size:23
Alignment explanation
Indices: 3793966--3794012 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
3793956 TTTATCATTT
*
3793966 TATAAAATGATTCCCTTTAAAGA
1 TATAAAATGATTCCCTTCAAAGA
3793989 TATAAAATGATTCCCTTCAAAGA
1 TATAAAATGATTCCCTTCAAAGA
3794012 T
1 T
3794013 TCCATGATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.15, G:0.09, T:0.34
Consensus pattern (23 bp):
TATAAAATGATTCCCTTCAAAGA
Found at i:3794356 original size:135 final size:135
Alignment explanation
Indices: 3794110--3794379 Score: 486
Period size: 135 Copynumber: 2.0 Consensus size: 135
3794100 TAGTTTCTTA
* *
3794110 ATTCAAGGCAAAATATTTTATTTCATACGAATAAAAATTAAACATTATCGACTTGTTACAATGTA
1 ATTCAAGGCAAAATATTTTATTTCATACAAATAAAAATTAAACATTATCGACTTATTACAATGTA
3794175 TGATTTTTTTGAAAAACTTGAGAACTTGCATTATACGCACAATCAATTCAATTGAGACATTAAAT
66 TGATTTTTTTGAAAAACTTGAGAACTTGCATTATACGCACAATCAATTCAATTGAGACATTAAAT
3794240 TATTT
131 TATTT
* *
3794245 ATTCAGGGCAAAATATTTTATTTTATACAAATAAAAATTAAACATTATCGACTTATTACAATGTA
1 ATTCAAGGCAAAATATTTTATTTCATACAAATAAAAATTAAACATTATCGACTTATTACAATGTA
* *
3794310 TGATTTTTTTGACAAACTTGAGAACTTGCATTATACGCACAGTCAATTCAATTGAGACATTAAAT
66 TGATTTTTTTGAAAAACTTGAGAACTTGCATTATACGCACAATCAATTCAATTGAGACATTAAAT
3794375 TATTT
131 TATTT
3794380 GGCCACATGT
Statistics
Matches: 129, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
135 129 1.00
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (135 bp):
ATTCAAGGCAAAATATTTTATTTCATACAAATAAAAATTAAACATTATCGACTTATTACAATGTA
TGATTTTTTTGAAAAACTTGAGAACTTGCATTATACGCACAATCAATTCAATTGAGACATTAAAT
TATTT
Found at i:3795679 original size:33 final size:33
Alignment explanation
Indices: 3795637--3795704 Score: 118
Period size: 33 Copynumber: 2.1 Consensus size: 33
3795627 AGTCAATAAT
* *
3795637 GTTAATCATTATTCGTATAAAATAAAATGTTTA
1 GTTAATCATTATTCATATAAAATAAAATATTTA
3795670 GTTAATCATTATTCATATAAAATAAAATATTTA
1 GTTAATCATTATTCATATAAAATAAAATATTTA
3795703 GT
1 GT
3795705 CATGAATTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.44, C:0.06, G:0.07, T:0.43
Consensus pattern (33 bp):
GTTAATCATTATTCATATAAAATAAAATATTTA
Found at i:3798176 original size:13 final size:13
Alignment explanation
Indices: 3798154--3798183 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3798144 TATTTTCTAG
*
3798154 AAAATGAAAATAA
1 AAAATAAAAATAA
3798167 AAAATAAAAATAA
1 AAAATAAAAATAA
3798180 AAAA
1 AAAA
3798184 CATTTTCTCA
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:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:3798177 original size:35 final size:35
Alignment explanation
Indices: 3798110--3798175 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
3798100 TACCAAATAC
* *
3798110 ATTTTTTAAAAAATAAAAACTAGAAAATAAAATCT
1 ATTTTCTAAAAAATAAAAACTAAAAAATAAAATCT
* *
3798145 ATTTTCTAGAAAATGAAAA-TAAAAAATAAAA
1 ATTTTCTAAAAAATAAAAACTAAAAAATAAAA
3798176 ATAAAAAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
34 11 0.41
35 16 0.59
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.29
Consensus pattern (35 bp):
ATTTTCTAAAAAATAAAAACTAAAAAATAAAATCT
Found at i:3801323 original size:13 final size:13
Alignment explanation
Indices: 3801305--3801329 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3801295 AATAATATAA
3801305 AAATTTTAAAAGT
1 AAATTTTAAAAGT
3801318 AAATTTTAAAAG
1 AAATTTTAAAAG
3801330 ATGATGAACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
AAATTTTAAAAGT
Found at i:3802491 original size:20 final size:20
Alignment explanation
Indices: 3802454--3802492 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3802444 TGGTGGATGG
*
3802454 TTAAAGATGCATGATAAAGT
1 TTAAAGATGCAAGATAAAGT
* *
3802474 TTAAGGATGCAAGGTAAAG
1 TTAAAGATGCAAGATAAAG
3802493 AATCAAGATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.05, G:0.26, T:0.26
Consensus pattern (20 bp):
TTAAAGATGCAAGATAAAGT
Found at i:3805435 original size:18 final size:18
Alignment explanation
Indices: 3805412--3805447 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3805402 CTTTTTGTTA
3805412 TTTGTTGGATTCTTATTT
1 TTTGTTGGATTCTTATTT
* *
3805430 TTTGTTTGATTTTTATTT
1 TTTGTTGGATTCTTATTT
3805448 GTTTATCTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.03, G:0.14, T:0.72
Consensus pattern (18 bp):
TTTGTTGGATTCTTATTT
Found at i:3807831 original size:17 final size:18
Alignment explanation
Indices: 3807809--3807845 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
3807799 CCAAGTTTTC
*
3807809 TTTTTTATTTGT-TTATG
1 TTTTTTATTTATGTTATG
3807826 TTTTTTATTTATGTTATG
1 TTTTTTATTTATGTTATG
3807844 TT
1 TT
3807846 CTTATTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.14, C:0.00, G:0.11, T:0.76
Consensus pattern (18 bp):
TTTTTTATTTATGTTATG
Found at i:3807893 original size:10 final size:10
Alignment explanation
Indices: 3807880--3807906 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
3807870 CAAATTTTCC
3807880 AAAATTTCAA
1 AAAATTTCAA
3807890 AAAATTTCAA
1 AAAATTTCAA
3807900 AAAATTT
1 AAAATTT
3807907 TACAAGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAATTTCAA
Found at i:3809190 original size:11 final size:11
Alignment explanation
Indices: 3809170--3809201 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
3809160 TTATATGTAG
3809170 GAAA-ATGGAT
1 GAAATATGGAT
3809180 GAAATATGGAT
1 GAAATATGGAT
3809191 GAAATATGGAT
1 GAAATATGGAT
3809202 TTAAGGAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.19
11 17 0.81
ACGTcount: A:0.47, C:0.00, G:0.28, T:0.25
Consensus pattern (11 bp):
GAAATATGGAT
Found at i:3812004 original size:17 final size:17
Alignment explanation
Indices: 3811978--3812039 Score: 67
Period size: 16 Copynumber: 3.8 Consensus size: 17
3811968 CAATTCAAAT
3811978 TTTC-ATTTTTAGAAAC
1 TTTCTATTTTTAGAAAC
*
3811994 TTTCTATTTTTA-ATAC
1 TTTCTATTTTTAGAAAC
* *
3812010 TTGCTATTTTTAGAAAG
1 TTTCTATTTTTAGAAAC
3812027 TTT-TAGTTTTTAG
1 TTTCTA-TTTTTAG
3812040 TTAGTTAACC
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
16 20 0.53
17 18 0.47
ACGTcount: A:0.26, C:0.08, G:0.10, T:0.56
Consensus pattern (17 bp):
TTTCTATTTTTAGAAAC
Found at i:3812478 original size:20 final size:20
Alignment explanation
Indices: 3812437--3812520 Score: 68
Period size: 20 Copynumber: 4.3 Consensus size: 20
3812427 AAGTAATTTT
*
3812437 ATAAATTTAA-TA-TA-AAA
1 ATAAATTTAATTATTATATA
*
3812454 ATAAATTTTATTATTATATA
1 ATAAATTTAATTATTATATA
* * *
3812474 ATAAA-TTAATAAATAAATAA
1 ATAAATTTAATTATTATAT-A
* *
3812494 ATAAATTTAAATATTATGTA
1 ATAAATTTAATTATTATATA
3812514 ATAAATT
1 ATAAATT
3812521 AATAAATAAT
Statistics
Matches: 51, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
17 9 0.18
18 2 0.04
19 11 0.22
20 21 0.41
21 8 0.16
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (20 bp):
ATAAATTTAATTATTATATA
Found at i:3812509 original size:40 final size:40
Alignment explanation
Indices: 3812452--3812529 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 40
3812442 TTTAATATAA
* *
3812452 AAATAAATTTTATTATTATATAATAAATTAATAAATAAAT
1 AAATAAATTTAAATATTATATAATAAATTAATAAATAAAT
*
3812492 AAATAAATTTAAATATTATGTAATAAATTAATAAATAA
1 AAATAAATTTAAATATTATATAATAAATTAATAAATAA
3812530 TTGTTAATTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (40 bp):
AAATAAATTTAAATATTATATAATAAATTAATAAATAAAT
Found at i:3815230 original size:11 final size:11
Alignment explanation
Indices: 3815214--3815244 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
3815204 CTTAAACTTC
3815214 TAATTATAAAT
1 TAATTATAAAT
3815225 TAATTATAAAT
1 TAATTATAAAT
3815236 TAATATATA
1 TAAT-TATA
3815245 CCAATGTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
TAATTATAAAT
Found at i:3816174 original size:16 final size:16
Alignment explanation
Indices: 3816153--3816210 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 16
3816143 ATGATATTAG
3816153 TAATTTAATATGTA-GT
1 TAATTTAATAT-TATGT
*
3816169 TAATTTTATATTATGT
1 TAATTTAATATTATGT
3816185 TAAAATTTAATA-TATG-
1 T--AATTTAATATTATGT
*
3816201 TAATTCAATA
1 TAATTTAATA
3816211 AGAGTATTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 8 0.22
15 2 0.06
16 14 0.39
17 4 0.11
18 8 0.22
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (16 bp):
TAATTTAATATTATGT
Found at i:3817396 original size:2 final size:2
Alignment explanation
Indices: 3817389--3817422 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3817379 CCCTAATTAC
3817389 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
3817423 TTAAAATCCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:3835267 original size:1 final size:1
Alignment explanation
Indices: 3835263--3835288 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
3835253 TCCCCCACTC
3835263 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
3835289 CTGCCTTTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:3835906 original size:51 final size:51
Alignment explanation
Indices: 3835848--3835949 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
3835838 AATGCAAAAG
3835848 TTCTTGTCTTTATTTTTATTTTTTCTTTTTTAGTGTGTTTTGTACATTAGT
1 TTCTTGTCTTTATTTTTATTTTTTCTTTTTTAGTGTGTTTTGTACATTAGT
3835899 TTCTTGTCTTTATTTTTATTTTTTCTTTTTTAGTGTGTTTTGTACATTAGT
1 TTCTTGTCTTTATTTTTATTTTTTCTTTTTTAGTGTGTTTTGTACATTAGT
3835950 AAAAGATGTC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.12, C:0.08, G:0.12, T:0.69
Consensus pattern (51 bp):
TTCTTGTCTTTATTTTTATTTTTTCTTTTTTAGTGTGTTTTGTACATTAGT
Found at i:3847374 original size:198 final size:199
Alignment explanation
Indices: 3846996--3847389 Score: 632
Period size: 198 Copynumber: 2.0 Consensus size: 199
3846986 CAAATCAACA
* * *
3846996 AAAAAAGTATGGTCGTTTAAGCTCGTTAAAATCGAAACAATTGATCATGTACTAAAGGGAATTGA
1 AAAAAAGTATGATCGTTTAAGCTCGTCAAAACCGAAACAATTGATCATGTACTAAAGGGAATTGA
* * *
3847061 TTGTTTCATGTTTGGAAGGCCAAACTTTAAGCTTGAAAAGCACTACCCAATCGATCTTGTATGGG
66 TTGTTTCATGTTTGAAAGGCCAAACTTTAAACTTGAAAAGCACTACCCAATCGATCCTGTATGGG
*
3847126 TACCAATCGATTCGTTTGCAAGGTGATCGATCCTCTAGGTTGGATGATTGATCCATTTTCATGTT
131 TACCAATCGATTCGTTTGCAAGGTGATCGACCCTCTAGGTTGGATGATTGATCCATTTTCATGTT
3847191 TAAC
196 TAAC
* * *
3847195 AAAAAATTATGATCGTTTAAGGCT-GTCAAGACCGAACCAATTGATCATGTACTAAAGGGAATTG
1 AAAAAAGTATGATCGTTTAA-GCTCGTCAAAACCGAAACAATTGATCATGTACTAAAGGGAATTG
**
3847259 ATTGTTTCATGTTTGAAAGGTGAAACTTTAAACTTG-AAAGCACTACCCAATCGATCCTGTATGG
65 ATTGTTTCATGTTTGAAAGGCCAAACTTTAAACTTGAAAAGCACTACCCAATCGATCCTGTATGG
*
3847323 GTACCAATCGATTCGTTTGCAAGGTGATCGACCC-CTTAGGTTGGGTGATTGATCCATTTTCATG
130 GTACCAATCGATTCGTTTGCAAGGTGATCGACCCTC-TAGGTTGGATGATTGATCCATTTTCATG
3847387 TTT
194 TTT
3847390 TTAAAACCAA
Statistics
Matches: 180, Mismatches: 13, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
197 1 0.01
198 90 0.50
199 86 0.48
200 3 0.02
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.32
Consensus pattern (199 bp):
AAAAAAGTATGATCGTTTAAGCTCGTCAAAACCGAAACAATTGATCATGTACTAAAGGGAATTGA
TTGTTTCATGTTTGAAAGGCCAAACTTTAAACTTGAAAAGCACTACCCAATCGATCCTGTATGGG
TACCAATCGATTCGTTTGCAAGGTGATCGACCCTCTAGGTTGGATGATTGATCCATTTTCATGTT
TAAC
Found at i:3849084 original size:18 final size:21
Alignment explanation
Indices: 3849049--3849089 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
3849039 TAGGCTTTTT
3849049 TTTTTAAATATTAGTTTA-TA
1 TTTTTAAATATTAGTTTACTA
*
3849069 TTTTTATAT-TTA-TTTACTA
1 TTTTTAAATATTAGTTTACTA
3849088 TT
1 TT
3849090 CATTTTTTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 4 0.21
19 7 0.37
20 8 0.42
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (21 bp):
TTTTTAAATATTAGTTTACTA
Found at i:3849441 original size:20 final size:20
Alignment explanation
Indices: 3849416--3849468 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
3849406 CCCTATTTTG
* *
3849416 TTTTTTCTTTTTTTTTTCCT
1 TTTTTTCTTTTCTTTTCCCT
3849436 TTTTTTCTTCTTCTTTTCCCT
1 TTTTTTCTT-TTCTTTTCCCT
3849457 TTTTTT-TTTTCT
1 TTTTTTCTTTTCT
3849469 CCCATTTGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 4 0.13
20 11 0.37
21 15 0.50
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (20 bp):
TTTTTTCTTTTCTTTTCCCT
Found at i:3851106 original size:45 final size:45
Alignment explanation
Indices: 3851047--3851174 Score: 148
Period size: 45 Copynumber: 2.8 Consensus size: 45
3851037 TAAATCAAAA
* * * *
3851047 TAAAAACTTCTCTCATCAGATGCTTCACAACTTTAAAAATAAATT
1 TAAAAGCTCCTCTCATTAGAAGCTTCACAACTTTAAAAATAAATT
* * * *
3851092 TAAAAGCTCTTCTCATTATAACCTTCACAACTTTAAAAGTAAATT
1 TAAAAGCTCCTCTCATTAGAAGCTTCACAACTTTAAAAATAAATT
* * **
3851137 TAAAGGCTCCTCTCATTAGAGGCTTCACTTCTTTAAAA
1 TAAAAGCTCCTCTCATTAGAAGCTTCACAACTTTAAAA
3851175 TCTTATTTGG
Statistics
Matches: 68, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
45 68 1.00
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.34
Consensus pattern (45 bp):
TAAAAGCTCCTCTCATTAGAAGCTTCACAACTTTAAAAATAAATT
Found at i:3862819 original size:10 final size:10
Alignment explanation
Indices: 3862804--3862829 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
3862794 TAATAAGATT
3862804 TTAAAATTGA
1 TTAAAATTGA
3862814 TTAAAATTGA
1 TTAAAATTGA
3862824 TTAAAA
1 TTAAAA
3862830 AGATAATTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (10 bp):
TTAAAATTGA
Found at i:3866044 original size:68 final size:68
Alignment explanation
Indices: 3865953--3866079 Score: 200
Period size: 68 Copynumber: 1.9 Consensus size: 68
3865943 ACAAAAGGTA
* * *
3865953 AGAAGGTAATCATCCATTCATATACTAATAGAAATAATTTTATAAACATCTTATTCATTCATATA
1 AGAAGGTAATCATCCATTCATATACTAACAAAAATAATTTTATAAACATCATATTCATTCATATA
3866018 TAT
66 TAT
* * *
3866021 AGAAGGTAGTCATCCATTTATATACTAGCAAAAATAATTTTATAAACATCATATTCATT
1 AGAAGGTAATCATCCATTCATATACTAACAAAAATAATTTTATAAACATCATATTCATT
3866080 AGTGTAATGC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 53 1.00
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (68 bp):
AGAAGGTAATCATCCATTCATATACTAACAAAAATAATTTTATAAACATCATATTCATTCATATA
TAT
Found at i:3875084 original size:9 final size:9
Alignment explanation
Indices: 3875070--3875114 Score: 58
Period size: 9 Copynumber: 5.0 Consensus size: 9
3875060 GTTTTTGATG
3875070 ATTCTTGAA
1 ATTCTTGAA
3875079 ATTCTTGAA
1 ATTCTTGAA
3875088 ATT-TATGAA
1 ATTCT-TGAA
3875097 ATTCTTGGAA
1 ATTCTT-GAA
3875107 A-TCTTGAA
1 ATTCTTGAA
3875115 GTGGAAAGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
8 4 0.12
9 24 0.73
10 5 0.15
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (9 bp):
ATTCTTGAA
Found at i:3879042 original size:21 final size:21
Alignment explanation
Indices: 3879018--3879063 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
3879008 AATTCAGTAG
*
3879018 TTTTTTTCAAG-TTAATTTAA
1 TTTTTTGCAAGTTTAATTTAA
3879038 TTTTTTGCAAGTTTAATTTAA
1 TTTTTTGCAAGTTTAATTTAA
*
3879059 ATTTT
1 TTTTT
3879064 CAAACAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.28, C:0.04, G:0.07, T:0.61
Consensus pattern (21 bp):
TTTTTTGCAAGTTTAATTTAA
Found at i:3879393 original size:21 final size:22
Alignment explanation
Indices: 3879355--3879398 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
3879345 TGTTTATGTT
*
3879355 TTTGCATGTTAGTTAAGTTTAA
1 TTTGCATGTTACTTAAGTTTAA
3879377 TTTGCATGTT-CTTAAGTTTAA
1 TTTGCATGTTACTTAAGTTTAA
3879398 T
1 T
3879399 AAGTTTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.25, C:0.07, G:0.16, T:0.52
Consensus pattern (22 bp):
TTTGCATGTTACTTAAGTTTAA
Found at i:3879903 original size:19 final size:19
Alignment explanation
Indices: 3879861--3879909 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
3879851 TAACACCACA
* * *
3879861 TCTTATTTTTTTCTTTTTT
1 TCTTCTTTTTCTCATTTTT
3879880 TCTTCTTTTTCTCATTTTT
1 TCTTCTTTTTCTCATTTTT
*
3879899 TCTTCCTTTTC
1 TCTTCTTTTTC
3879910 CCCTTACTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (19 bp):
TCTTCTTTTTCTCATTTTT
Found at i:3880026 original size:15 final size:14
Alignment explanation
Indices: 3879985--3880118 Score: 68
Period size: 15 Copynumber: 9.6 Consensus size: 14
3879975 TTTTTGTTCC
3879985 TTTTTCTTTTCTTT
1 TTTTTCTTTTCTTT
***
3879999 TTCCACTTCTTCTTT
1 TTTTTCTT-TTCTTT
3880014 TTTTTCTTATTC--T
1 TTTTTCTT-TTCTTT
*
3880027 TTTTTCTTTTCTCAT
1 TTTTTCTTTTCT-TT
** * * *
3880042 AATTGCTAATTCTCT
1 TTTTTCT-TTTCTTT
3880057 TTTTT-TTTTCTTT
1 TTTTTCTTTTCTTT
3880070 TTTTTCTTTT-TTCT
1 TTTTTCTTTTCTT-T
3880084 TTCCTTT-TTTTCTTT
1 TT--TTTCTTTTCTTT
3880099 TTTTTC---TCTTT
1 TTTTTCTTTTCTTT
3880110 TTTTTCTTT
1 TTTTTCTTT
3880119 CTCCTTCCTA
Statistics
Matches: 89, Mismatches: 17, Indels: 28
0.66 0.13 0.21
Matches are distributed among these distances:
11 11 0.12
12 3 0.03
13 24 0.27
14 13 0.15
15 29 0.33
16 9 0.10
ACGTcount: A:0.05, C:0.18, G:0.01, T:0.76
Consensus pattern (14 bp):
TTTTTCTTTTCTTT
Found at i:3880031 original size:13 final size:12
Alignment explanation
Indices: 3879961--3880118 Score: 62
Period size: 12 Copynumber: 12.8 Consensus size: 12
3879951 TAATTGCCAA
*
3879961 TTTTTCTCTTCT
1 TTTTTCTTTTCT
* *
3879973 CTTTTT-TGTTCC
1 -TTTTTCTTTTCT
3879985 TTTTTCTTTTCT
1 TTTTTCTTTTCT
*
3879997 TTTTCCACTTCTTCTTT
1 TTTT--TCTT-TTC--T
3880014 TTTTTCTTATTCT
1 TTTTTCTT-TTCT
3880027 TTTTTCTTTTCT
1 TTTTTCTTTTCT
* *
3880039 CATAATTGCTAATTCTCT
1 --T-TTTTCT--TT-TCT
3880057 TTTTT-TTTTC-
1 TTTTTCTTTTCT
3880067 -TTTT-TTTTCT
1 TTTTTCTTTTCT
*
3880077 TTTTTCTTTCCT
1 TTTTTCTTTTCT
*
3880089 TTTTT-TCTT-T
1 TTTTTCTTTTCT
*
3880099 TTTTTCTCTT-T
1 TTTTTCTTTTCT
3880110 TTTTTCTTT
1 TTTTTCTTT
3880119 CTCCTTCCTA
Statistics
Matches: 114, Mismatches: 15, Indels: 34
0.70 0.09 0.21
Matches are distributed among these distances:
9 9 0.08
10 6 0.05
11 26 0.23
12 28 0.25
13 14 0.12
14 5 0.04
15 15 0.13
16 1 0.01
17 7 0.06
18 3 0.03
ACGTcount: A:0.04, C:0.19, G:0.01, T:0.75
Consensus pattern (12 bp):
TTTTTCTTTTCT
Found at i:3880070 original size:11 final size:11
Alignment explanation
Indices: 3880054--3880114 Score: 67
Period size: 11 Copynumber: 5.9 Consensus size: 11
3880044 TTGCTAATTC
3880054 TCTTTTTTTTT
1 TCTTTTTTTTT
3880065 TC--TTTTTTT
1 TCTTTTTTTTT
*
3880074 TCTTTTTTCTT
1 TCTTTTTTTTT
*
3880085 TC--CTTTTTT
1 TCTTTTTTTTT
*
3880094 TCTTTTTTTTC
1 TCTTTTTTTTT
3880105 TCTTTTTTTT
1 TCTTTTTTTT
3880115 CTTTCTCCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
9 16 0.39
11 25 0.61
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:3880072 original size:9 final size:9
Alignment explanation
Indices: 3880058--3880118 Score: 77
Period size: 10 Copynumber: 6.3 Consensus size: 9
3880048 TAATTCTCTT
3880058 TTTTTTTTC
1 TTTTTTTTC
3880067 TTTTTTTTC
1 TTTTTTTTC
3880076 TTTTTTCTTTC
1 -TTTTT-TTTC
*
3880087 CTTTTTTTC
1 TTTTTTTTC
3880096 TTTTTTTTCTC
1 -TTTTTTT-TC
3880107 TTTTTTTTC
1 TTTTTTTTC
3880116 TTT
1 TTT
3880119 CTCCTTCCTA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
9 18 0.39
10 22 0.48
11 6 0.13
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:3880079 original size:20 final size:20
Alignment explanation
Indices: 3880054--3880118 Score: 103
Period size: 20 Copynumber: 3.2 Consensus size: 20
3880044 TTGCTAATTC
3880054 TCTTTTTTTTTTCTTTTTTT
1 TCTTTTTTTTTTCTTTTTTT
* *
3880074 TCTTTTTTCTTTCCTTTTTT
1 TCTTTTTTTTTTCTTTTTTT
*
3880094 TCTTTTTTTTCTCTTTTTTT
1 TCTTTTTTTTTTCTTTTTTT
3880114 TCTTT
1 TCTTT
3880119 CTCCTTCCTA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (20 bp):
TCTTTTTTTTTTCTTTTTTT
Found at i:3880083 original size:29 final size:30
Alignment explanation
Indices: 3880059--3880115 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 30
3880049 AATTCTCTTT
3880059 TTTTTTTCTTTTTTTTCT-TTTTTCTTTCC
1 TTTTTTTCTTTTTTTTCTCTTTTTCTTTCC
3880088 TTTTTTTCTTTTTTTTCTCTTTTT-TTTC
1 TTTTTTTCTTTTTTTTCTCTTTTTCTTTC
3880116 TTTCTCCTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (30 bp):
TTTTTTTCTTTTTTTTCTCTTTTTCTTTCC
Found at i:3881071 original size:23 final size:22
Alignment explanation
Indices: 3881029--3881070 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
3881019 ACATTATAAT
3881029 ACTATCAATAATCTACAAAATA
1 ACTATCAATAATCTACAAAATA
*
3881051 ACTATACAAT-ATCTTCAAAA
1 ACTAT-CAATAATCTACAAAA
3881071 AATCAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (22 bp):
ACTATCAATAATCTACAAAATA
Found at i:3885997 original size:114 final size:115
Alignment explanation
Indices: 3885764--3885999 Score: 259
Period size: 114 Copynumber: 2.1 Consensus size: 115
3885754 AATAATCCAA
* * *
3885764 TTAATAAAATTTTTAGTTGGGATTATTGAAGGCAGTTTTTGTAAAAAATGCATTCAATAATCCAT
1 TTAATAAAATTTTTAGTTGGGATTATTCAAGGCACTTCTTGTAAAAAATGCATTCAATAATCCAT
*
3885829 ATAAAAATATTTGAATAAATTATTAAAGGCAGTTTTGGTCAAAAACACCT
66 ATAAAAATATTGGAATAAATTATTAAAGGCAGTTTTGGTCAAAAACACCT
* *
3885879 TTAATAACA-TTTT-GTTAGGGATTATTCAAGGCACTCTCTTGCT-AAAAATGGCCTT-AATAAT
1 TTAATAAAATTTTTAGTT-GGGATTATTCAAGGCACT-TCTTG-TAAAAAAT-GCATTCAATAAT
** * * * * **
3885940 CCATA-AGAAAATA-TGGAATGGATTCTTGAAGGCATTTTTGGTCGAAAATGCCT
62 CCATATA-AAAATATTGGAATAAATTATTAAAGGCAGTTTTGGTCAAAAACACCT
3885993 TTAATAA
1 TTAATAA
3886000 TCTAATCAAT
Statistics
Matches: 102, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
113 3 0.03
114 59 0.58
115 35 0.34
116 5 0.05
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (115 bp):
TTAATAAAATTTTTAGTTGGGATTATTCAAGGCACTTCTTGTAAAAAATGCATTCAATAATCCAT
ATAAAAATATTGGAATAAATTATTAAAGGCAGTTTTGGTCAAAAACACCT
Found at i:3889006 original size:21 final size:21
Alignment explanation
Indices: 3888982--3889036 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
3888972 CTTTTGATAG
3888982 CCAATCTTGAACAAAATTTGT
1 CCAATCTTGAACAAAATTTGT
3889003 CCAATCTTGAACAAAATTTGT
1 CCAATCTTGAACAAAATTTGT
*
3889024 CCAATCTTTAACA
1 CCAATCTTGAACA
3889037 CTTGTTACAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.33
Consensus pattern (21 bp):
CCAATCTTGAACAAAATTTGT
Found at i:3889721 original size:25 final size:25
Alignment explanation
Indices: 3889693--3889744 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
3889683 TAATGTGTTT
*
3889693 AGAAACACCCTTTAGCAAACCATTC
1 AGAAACACCATTTAGCAAACCATTC
*
3889718 AGAAACACCATTTAGCAAATCATTC
1 AGAAACACCATTTAGCAAACCATTC
3889743 AG
1 AG
3889745 TATACGATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.42, C:0.27, G:0.10, T:0.21
Consensus pattern (25 bp):
AGAAACACCATTTAGCAAACCATTC
Found at i:3889782 original size:28 final size:28
Alignment explanation
Indices: 3889746--3889819 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
3889736 ATCATTCAGT
* * *
3889746 ATACGATTCAGCATACCAATATCATACA
1 ATACCATTCAGCAAACCAATATCACACA
* **
3889774 ATACCATTCGGCAAAATAATATCACACA
1 ATACCATTCAGCAAACCAATATCACACA
*
3889802 ATACCATTAAGCAAACCA
1 ATACCATTCAGCAAACCA
3889820 CAATATTTAA
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.46, C:0.26, G:0.07, T:0.22
Consensus pattern (28 bp):
ATACCATTCAGCAAACCAATATCACACA
Found at i:3891199 original size:13 final size:13
Alignment explanation
Indices: 3891181--3891208 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3891171 GAAAATGAAA
3891181 TTATTAAAGGTGT
1 TTATTAAAGGTGT
3891194 TTATTAAAGGTGT
1 TTATTAAAGGTGT
3891207 TT
1 TT
3891209 TTTCTCAAAA
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:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (13 bp):
TTATTAAAGGTGT
Found at i:3891294 original size:62 final size:60
Alignment explanation
Indices: 3891218--3891482 Score: 139
Period size: 63 Copynumber: 4.2 Consensus size: 60
3891208 TTTTCTCAAA
*
3891218 AAATGTCTTCAATAAATTCCTTCAAAAATTATAATGAATTAGTGAAGGCATTTTCCTGGAAT
1 AAATGCCTTCAATAAA-TCCTTCAAAAATTATAATGAATTAGTGAAGGCATTTTCCT-GAAT
* * * * *
3891280 AAATGCCTTTAATAACCAT-CTT-AAAATTTTAGTAGTGAAATATTGAAGGCATTTTCTACT-AG
1 AAATGCCTTCAATAA--ATCCTTCAAAA-ATTA-TAATGAATTAGTGAAGGCATTTTC--CTGA-
3891342 A-
59 AT
* * * * * ** * *
3891343 AGATGCCTTTAATAAA-CC--CAAACAATTTTTAAAAGAAAATTATTGAAGATATTTTTTCTCAA
1 AAATGCCTTCAATAAATCCTTCAAA-AA-TTAT-AATG--AATTAGTGAAGGCA-TTTTCCTGAA
*
3891405 A
60 T
* * * *
3891406 AAATGTCTACAATAAATTCCTTCAAAAATTATAACGAATTAGTGAAGGCATTTTTCTTGAAT
1 AAATGCCTTCAATAAA-TCCTTCAAAAATTATAATGAATTAGTGAAGGCA-TTTTCCTGAAT
*
3891468 AAACGCCTTCAATAA
1 AAATGCCTTCAATAA
3891483 CTATCTTAAA
Statistics
Matches: 151, Mismatches: 31, Indels: 42
0.67 0.14 0.19
Matches are distributed among these distances:
60 4 0.03
61 11 0.07
62 53 0.35
63 61 0.40
64 9 0.06
65 7 0.05
66 2 0.01
67 4 0.03
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.35
Consensus pattern (60 bp):
AAATGCCTTCAATAAATCCTTCAAAAATTATAATGAATTAGTGAAGGCATTTTCCTGAAT
Found at i:3891523 original size:188 final size:189
Alignment explanation
Indices: 3891206--3891593 Score: 584
Period size: 188 Copynumber: 2.1 Consensus size: 189
3891196 ATTAAAGGTG
* *
3891206 TTTTTTCTCAAAAAATGTCTTCAATAAATTCCTTCAAAAATTATAATGAATTAGTGAAGGCATTT
1 TTTTTTCTCAAAAAATGTCTACAATAAATTCCTTCAAAAATTATAACGAATTAGTGAAGGCATTT
* * * * *
3891271 TCCTGGAATAAATGCCTTTAATAACCATCTTAAAATTTTAGTAGTGAAATATTGAAGGCATTTTC
66 TCCTGGAATAAACGCCTTCAATAACCATCTTAAAATTGTAGTACTGAAATATTGAAAGCATTTTC
* *
3891336 TACTAGAAGATGCCTTTAATAAACCCAAACAA-TTTTTAAAAGAAAATTATTGAAGATA-
131 TACTAGAAGATGCCTTTAATAAACACAAACAATTTTTTAAAA-AAAAGTATTGAAGATAT
3891394 TTTTTTCTCAAAAAATGTCTACAATAAATTCCTTCAAAAATTATAACGAATTAGTGAAGGCATTT
1 TTTTTTCTCAAAAAATGTCTACAATAAATTCCTTCAAAAATTATAACGAATTAGTGAAGGCATTT
* * *
3891459 TTCTTGAATAAACGCCTTCAATAACTATCTTAAAATTGTAGTACT-AGAATATTGAAAGCATTTT
66 TCCTGGAATAAACGCCTTCAATAACCATCTTAAAATTGTAGTACTGA-AATATTGAAAGCATTTT
* *** *
3891523 CTACTAGAAGATGCCTTTAATAAATATTTACAATTTTTTAAAAAAAAGTATTGAAGGTAT
130 CTACTAGAAGATGCCTTTAATAAACACAAACAATTTTTTAAAAAAAAGTATTGAAGATAT
3891583 TTTTTTCTCAA
1 TTTTTTCTCAA
3891594 GAAACACCTT
Statistics
Matches: 180, Mismatches: 17, Indels: 5
0.89 0.08 0.02
Matches are distributed among these distances:
187 1 0.01
188 159 0.88
189 20 0.11
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.37
Consensus pattern (189 bp):
TTTTTTCTCAAAAAATGTCTACAATAAATTCCTTCAAAAATTATAACGAATTAGTGAAGGCATTT
TCCTGGAATAAACGCCTTCAATAACCATCTTAAAATTGTAGTACTGAAATATTGAAAGCATTTTC
TACTAGAAGATGCCTTTAATAAACACAAACAATTTTTTAAAAAAAAGTATTGAAGATAT
Found at i:3908494 original size:16 final size:16
Alignment explanation
Indices: 3908473--3908507 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
3908463 TGCTTTCAAC
3908473 ATTAAGGATTTCCTTA
1 ATTAAGGATTTCCTTA
3908489 ATTAAGGATTTCCTTA
1 ATTAAGGATTTCCTTA
3908505 ATT
1 ATT
3908508 TCTATCCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.46
Consensus pattern (16 bp):
ATTAAGGATTTCCTTA
Found at i:3920322 original size:30 final size:31
Alignment explanation
Indices: 3920288--3920357 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
3920278 AATTTACATT
* *
3920288 CAAATAAGCCCCT-AACTTTTCATTTGTATC
1 CAAATAAGCCCCTAAACTTTTAATTAGTATC
* * *
3920318 CAAATAAACCCTTAAAGTTTTAATTAGTATC
1 CAAATAAGCCCCTAAACTTTTAATTAGTATC
*
3920349 TAAATAAGC
1 CAAATAAGC
3920358 TCTTAATATA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
30 11 0.34
31 21 0.66
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (31 bp):
CAAATAAGCCCCTAAACTTTTAATTAGTATC
Found at i:3920428 original size:30 final size:29
Alignment explanation
Indices: 3920394--3920461 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
3920384 TAAAACAAAG
* *
3920394 GTTTATTTGGATACAAATCAAAA-TATAAGA
1 GTTTATTTAGATA-AAAT-AAAAGTATAAAA
3920424 GTTTATTTAGATAAAATAAAAGTATAAAA
1 GTTTATTTAGATAAAATAAAAGTATAAAA
*
3920453 ATTTATTTA
1 GTTTATTTA
3920462 AAAAGAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 4 0.12
29 18 0.53
30 12 0.35
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (29 bp):
GTTTATTTAGATAAAATAAAAGTATAAAA
Found at i:3920681 original size:21 final size:19
Alignment explanation
Indices: 3920630--3920681 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 19
3920620 AATTTTTTTC
3920630 AAATT-TTAAAATAAAATT
1 AAATTGTTAAAATAAAATT
* *
3920648 AATTTGGTAAAATAAAAATT
1 AAATTGTTAAAAT-AAAATT
3920668 GAAATTGTTAAAAT
1 -AAATTGTTAAAAT
3920682 TTTTTAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 4 0.15
19 6 0.22
20 6 0.22
21 11 0.41
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.37
Consensus pattern (19 bp):
AAATTGTTAAAATAAAATT
Found at i:3921922 original size:13 final size:14
Alignment explanation
Indices: 3921904--3921937 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
3921894 ATATTAAAAA
*
3921904 AAATTAAGA-TGAG
1 AAATTAAAATTGAG
3921917 AAATTAAAATTGAG
1 AAATTAAAATTGAG
3921931 AAATTAA
1 AAATTAA
3921938 CCCCATCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (14 bp):
AAATTAAAATTGAG
Found at i:3922757 original size:9 final size:10
Alignment explanation
Indices: 3922731--3922760 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
3922721 ATCAAACTTT
3922731 TATATTTTAA
1 TATATTTTAA
3922741 TATATTTTAA
1 TATATTTTAA
3922751 T-TATTTTAA
1 TATATTTTAA
3922760 T
1 T
3922761 CGATAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TATATTTTAA
Found at i:3923188 original size:28 final size:28
Alignment explanation
Indices: 3923155--3923214 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
3923145 TAAATTATGG
* * *
3923155 TAAAATTTTTAATAT-GATATTTAAATTT
1 TAAAATCTCTAATATAG-TATTTAAACTT
*
3923183 TAAAATCTCTAATATAGTATTTGAACTT
1 TAAAATCTCTAATATAGTATTTAAACTT
3923211 TAAA
1 TAAA
3923215 TATGTTGACT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 26 0.96
29 1 0.04
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (28 bp):
TAAAATCTCTAATATAGTATTTAAACTT
Found at i:3933809 original size:39 final size:39
Alignment explanation
Indices: 3933749--3933828 Score: 133
Period size: 39 Copynumber: 2.1 Consensus size: 39
3933739 ACACTTCTCA
* *
3933749 AACTCCCTTTCACGTCCAAAACATCCAACCAGATCCTCC
1 AACTCCCTTTCAAGTCCAAAACATCCAACCAAATCCTCC
*
3933788 AACTCCCTTTCAAGTCTAAAACATCCAACCAAATCCTCC
1 AACTCCCTTTCAAGTCCAAAACATCCAACCAAATCCTCC
3933827 AA
1 AA
3933829 ACCTAAAGTC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.35, C:0.40, G:0.04, T:0.21
Consensus pattern (39 bp):
AACTCCCTTTCAAGTCCAAAACATCCAACCAAATCCTCC
Found at i:3936501 original size:10 final size:10
Alignment explanation
Indices: 3936488--3936535 Score: 80
Period size: 10 Copynumber: 4.9 Consensus size: 10
3936478 AAAATTGGAT
3936488 GAGAGGAAAG
1 GAGAGGAAAG
3936498 GAGAGGAAAG
1 GAGAGGAAAG
3936508 GAGAGGAAAG
1 GAGAGGAAAG
*
3936518 GAGAGGAAAA
1 GAGAGGAAAG
3936528 GAG-GGAAA
1 GAGAGGAAA
3936536 AAGAAAAAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
9 5 0.14
10 32 0.86
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (10 bp):
GAGAGGAAAG
Found at i:3941744 original size:21 final size:22
Alignment explanation
Indices: 3941720--3941760 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
3941710 CTAGCTCTAT
* *
3941720 TTATTGCTCTTTAT-CTTGTGC
1 TTATTGATCTCTATACTTGTGC
3941741 TTATTGATCTCTATACTTGT
1 TTATTGATCTCTATACTTGT
3941761 TCGAATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.15, C:0.17, G:0.12, T:0.56
Consensus pattern (22 bp):
TTATTGATCTCTATACTTGTGC
Found at i:3946309 original size:13 final size:14
Alignment explanation
Indices: 3946291--3946319 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
3946281 CTCTTACTTT
3946291 TTATATTTTAA-AA
1 TTATATTTTAATAA
3946304 TTATATTTTAATAA
1 TTATATTTTAATAA
3946318 TT
1 TT
3946320 TTTTTGACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATATTTTAATAA
Done.