Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 91 of 106
Found at i:34747650 original size:60 final size:60
Alignment explanation
Indices: 34747537--34747703 Score: 228
Period size: 60 Copynumber: 2.8 Consensus size: 60
34747527 ATGGGAGAAA
* * * *
34747537 GTGCTTGTTATGGAAGAGCACATTAAAGAA-CAGTTATTGGATGTTAAGTTCAATCATGG
1 GTGCTTGTTATGGAAGAGCACATTAAGGAATGACTTATTGGATGTTAAGCTCAATCATGG
* * *
34747596 GTGCTTGTCATGAAAGAGCACGTTAAGGAATGACTTATTGGATGTTAAGCTCAATCATGG
1 GTGCTTGTTATGGAAGAGCACATTAAGGAATGACTTATTGGATGTTAAGCTCAATCATGG
* * * *
34747656 GAGCTTGTTTTGGAAGAGCACATTAAGAAATGACTTATTAGATGTTAA
1 GTGCTTGTTATGGAAGAGCACATTAAGGAATGACTTATTGGATGTTAA
34747704 AAGAATGAGC
Statistics
Matches: 93, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
59 26 0.28
60 67 0.72
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (60 bp):
GTGCTTGTTATGGAAGAGCACATTAAGGAATGACTTATTGGATGTTAAGCTCAATCATGG
Found at i:34750633 original size:31 final size:32
Alignment explanation
Indices: 34750585--34750649 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 32
34750575 TCAATAGTTA
34750585 TTATCTGTTAAAAAAAATTAAAAATATATATT
1 TTATCTGTTAAAAAAAATTAAAAATATATATT
*
34750617 TTATCTGTT-AAAAAAATTAAAAATATATTTT
1 TTATCTGTTAAAAAAAATTAAAAATATATATT
34750648 TT
1 TT
34750650 CTTTACACCT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 23 0.72
32 9 0.28
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (32 bp):
TTATCTGTTAAAAAAAATTAAAAATATATATT
Found at i:34751328 original size:2 final size:2
Alignment explanation
Indices: 34751316--34751350 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
34751306 TTGGGATGAA
34751316 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
34751351 GTGCTAACAG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:34763121 original size:78 final size:78
Alignment explanation
Indices: 34762989--34763139 Score: 275
Period size: 78 Copynumber: 1.9 Consensus size: 78
34762979 TCAACTTTTT
* * *
34762989 AAAACAAAAGATGTTGAGATTAAACAAGTTGTACTTAAAATTTTGAGTTGGCAAAGGGAGTGTTT
1 AAAACAAAAGATGTTGAGATTAAACAAGTTGTACTTAAAATTTTGAGTTAGCAAAAGGAGAGTTT
34763054 GTTGAAGTGCTTC
66 GTTGAAGTGCTTC
34763067 AAAACAAAAGATGTTGAGATTAAACAAGTTGTACTTAAAATTTTGAGTTAGCAAAAGGAGAGTTT
1 AAAACAAAAGATGTTGAGATTAAACAAGTTGTACTTAAAATTTTGAGTTAGCAAAAGGAGAGTTT
34763132 GTTGAAGT
66 GTTGAAGT
34763140 TCTGCCTTGT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
78 70 1.00
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (78 bp):
AAAACAAAAGATGTTGAGATTAAACAAGTTGTACTTAAAATTTTGAGTTAGCAAAAGGAGAGTTT
GTTGAAGTGCTTC
Found at i:34764917 original size:24 final size:24
Alignment explanation
Indices: 34764872--34764917 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
34764862 TTAGAATTCT
* **
34764872 ATTTTATTTAATTTAGTTTTTTTA
1 ATTTTAATTAATTTAGGATTTTTA
*
34764896 ATTTTAATTGATTTAGGATTTT
1 ATTTTAATTAATTTAGGATTTT
34764918 ATTTTCTTTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (24 bp):
ATTTTAATTAATTTAGGATTTTTA
Found at i:34794769 original size:17 final size:17
Alignment explanation
Indices: 34794747--34794782 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
34794737 ATATCATATT
*
34794747 TGAAGATGGTGTCTTTG
1 TGAAGATGGTATCTTTG
34794764 TGAAGATGGTATCTTTG
1 TGAAGATGGTATCTTTG
34794781 TG
1 TG
34794783 CTGAGGTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.19, C:0.06, G:0.33, T:0.42
Consensus pattern (17 bp):
TGAAGATGGTATCTTTG
Found at i:34805157 original size:30 final size:30
Alignment explanation
Indices: 34805123--34805179 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
34805113 TAATTTTTAC
34805123 AAAATATATTATATT-AAAA-AATATAAATAA
1 AAAAT-TA-TATATTGAAAATAATATAAATAA
*
34805153 AAAATTATATATTGAAAATAATCTAAA
1 AAAATTATATATTGAAAATAATATAAA
34805180 AAGTTTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 6 0.25
29 6 0.25
30 12 0.50
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (30 bp):
AAAATTATATATTGAAAATAATATAAATAA
Found at i:34805340 original size:19 final size:20
Alignment explanation
Indices: 34805301--34805340 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
34805291 AAGAAAAAAG
*
34805301 AAAATTAAAAAATATATATA
1 AAAATTAAAAAATATACATA
*
34805321 AAAATT-AAAAATTTACATA
1 AAAATTAAAAAATATACATA
34805340 A
1 A
34805341 TCTCATTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAATTAAAAAATATACATA
Found at i:34809215 original size:5 final size:5
Alignment explanation
Indices: 34809205--34809230 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
34809195 ACAATCCCGC
34809205 CTCCT CTCCT CTCCT CTCCT CTCCT C
1 CTCCT CTCCT CTCCT CTCCT CTCCT C
34809231 AAAAACCCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (5 bp):
CTCCT
Found at i:34818948 original size:19 final size:19
Alignment explanation
Indices: 34818924--34818961 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
34818914 ACTTATAAAC
34818924 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
*
34818943 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
34818962 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:34819573 original size:26 final size:26
Alignment explanation
Indices: 34819544--34819628 Score: 79
Period size: 26 Copynumber: 3.3 Consensus size: 26
34819534 TGGGTCAAGG
34819544 TATCCATCTACATTTTGTGGTAAAAT
1 TATCCATCTACATTTTGTGGTAAAAT
* *
34819570 TATCCATC--CATTTCTAATGGCAAAAT
1 TATCCATCTACATTT-T-GTGGTAAAAT
* *
34819596 TATCC-T-TAGATTCTGATGGTAAAAT
1 TATCCATCTACATTTTG-TGGTAAAAT
34819621 TATCCATC
1 TATCCATC
34819629 AACTTCTAGT
Statistics
Matches: 46, Mismatches: 6, Indels: 13
0.71 0.09 0.20
Matches are distributed among these distances:
24 5 0.11
25 16 0.35
26 25 0.54
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.39
Consensus pattern (26 bp):
TATCCATCTACATTTTGTGGTAAAAT
Found at i:34819619 original size:25 final size:26
Alignment explanation
Indices: 34819561--34819627 Score: 82
Period size: 25 Copynumber: 2.6 Consensus size: 26
34819551 CTACATTTTG
*
34819561 TGGTAAAATTATCCATCCATTTCTAA
1 TGGTAAAATTATCCATACATTTCTAA
* * * *
34819587 TGGCAAAATTATCCTTAGA-TTCTGA
1 TGGTAAAATTATCCATACATTTCTAA
34819612 TGGTAAAATTATCCAT
1 TGGTAAAATTATCCAT
34819628 CAACTTCTAG
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
25 19 0.56
26 15 0.44
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.37
Consensus pattern (26 bp):
TGGTAAAATTATCCATACATTTCTAA
Found at i:34819643 original size:26 final size:25
Alignment explanation
Indices: 34819560--34819645 Score: 77
Period size: 26 Copynumber: 3.4 Consensus size: 25
34819550 TCTACATTTT
*
34819560 GTGGTAAAATTATCCATCCATTTCTA
1 GTGGTAAAATTATCCAT-CAATTCTA
* * *
34819586 ATGGCAAAATTATCC-TTAGATTCT-
1 GTGGTAAAATTATCCATCA-ATTCTA
34819610 GATGGTAAAATTATCCATCAACTTCTA
1 G-TGGTAAAATTATCCATCAA-TTCTA
*
34819637 GTAGTAAAA
1 GTGGTAAAA
34819646 CTATTTCAGA
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
24 1 0.02
25 19 0.40
26 26 0.55
27 1 0.02
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (25 bp):
GTGGTAAAATTATCCATCAATTCTA
Found at i:34825924 original size:17 final size:17
Alignment explanation
Indices: 34825902--34825934 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
34825892 TAAATGTCCA
34825902 TATATT-ATATATCTATC
1 TATATTAATATA-CTATC
34825919 TATATTAATATACTAT
1 TATATTAATATACTAT
34825935 GAATGTTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (17 bp):
TATATTAATATACTATC
Found at i:34827002 original size:23 final size:24
Alignment explanation
Indices: 34826962--34827006 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
34826952 TTCAATAGTT
34826962 ATTTTTTATATATATATAATATTA
1 ATTTTTTATATATATATAATATTA
* *
34826986 ATTTTTTTTA-ATTTATAATAT
1 ATTTTTTATATATATATAATAT
34827007 GAACTTTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
ATTTTTTATATATATATAATATTA
Found at i:34837437 original size:30 final size:30
Alignment explanation
Indices: 34837377--34837447 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
34837367 TTATTTAAAA
* * *
34837377 AAATTTTTATATTTTTATTTTGATATAAAT
1 AAATTTTTATATTTGTATTTCGATACAAAT
34837407 AAATTTTTATATTTGTATTTCGAGT-CAAAT
1 AAATTTTTATATTTGTATTTCGA-TACAAAT
*
34837437 AAATTCTTATA
1 AAATTTTTATA
34837448 ACTAATAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
30 35 0.97
31 1 0.03
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.54
Consensus pattern (30 bp):
AAATTTTTATATTTGTATTTCGATACAAAT
Found at i:34837792 original size:17 final size:17
Alignment explanation
Indices: 34837766--34837804 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
34837756 TAAAACATAC
*
34837766 AAAT-TATGTATAAATT
1 AAATATATGTATAAATA
*
34837782 AAATATATGTATATATA
1 AAATATATGTATAAATA
34837799 AAATAT
1 AAATAT
34837805 TATTTTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (17 bp):
AAATATATGTATAAATA
Found at i:34838161 original size:222 final size:226
Alignment explanation
Indices: 34837769--34838253 Score: 697
Period size: 222 Copynumber: 2.2 Consensus size: 226
34837759 AACATACAAA
*
34837769 TTATGTATAAATTAAATATATG--TATATATA-A--A-ATATTATTTTATTATTATATATATGAA
1 TTATGTATAAATTAAATATATGTATATATATATATTATATATTACTTTATTATTATATATATGAA
* ** * *
34837828 ATTAATGATGCAGTTTATATGTTATAATATTTTAATTTTAATACTAAAGTTTGTATAAACAATAA
66 ATTAATGATACAACTTATATGTTAT-ATATGTT-ATTATAATACTAAAGTTTGTATAAACAATAA
*
34837893 CTAATTATAAACAATATGTTATAAAAACTAAGATGAGAACTAATAAAATTATTAAGTATAATCAT
129 CTAATTATAAACAATATGTTATAAAAACTAAGATAAGAACTAATAAAATTATTAAGTATAATCAT
34837958 ATAAATAAAATCTATTATAAGTTACAATAATAC
194 ATAAATAAAATCTATTATAAGTTACAATAATAC
34837991 TTATGTATAAATTAAATATATGTATATATATATATTATATATTACTTTATTATATATATATATGA
1 TTATGTATAAATTAAATATATGTATATATATATATTATATATTACTTTATTAT-TATATATATGA
* *
34838056 AATTAATGATACAACTTATATGTTAT-TATGTT-TTAT-AT-C-AAAGTTTGTATAAATAATAAG
65 AATTAATGATACAACTTATATGTTATATATGTTATTATAATACTAAAGTTTGTATAAACAATAAC
* * * *
34838116 TAATTATAAACAATATGTTATAAAAACTAAGGTAATAATTAATAAAATTATTAAGTGTAATCATA
130 TAATTATAAACAATATGTTATAAAAACTAAGATAAGAACTAATAAAATTATTAAGTATAATCATA
* * *
34838181 TAAATAAAATTTATTATAAGTTATAGTAATAC
195 TAAATAAAATCTATTATAAGTTACAATAATAC
*
34838213 TTATGTATAAATTAAATATATATATATATA-ATATTTATATA
1 TTATGTATAAATTAAATATATGTATATATATATA-TTATATA
34838254 ATTATATATA
Statistics
Matches: 238, Mismatches: 17, Indels: 16
0.88 0.06 0.06
Matches are distributed among these distances:
221 3 0.01
222 166 0.70
223 1 0.00
224 10 0.04
225 4 0.02
227 6 0.03
228 14 0.06
229 34 0.14
ACGTcount: A:0.47, C:0.04, G:0.07, T:0.42
Consensus pattern (226 bp):
TTATGTATAAATTAAATATATGTATATATATATATTATATATTACTTTATTATTATATATATGAA
ATTAATGATACAACTTATATGTTATATATGTTATTATAATACTAAAGTTTGTATAAACAATAACT
AATTATAAACAATATGTTATAAAAACTAAGATAAGAACTAATAAAATTATTAAGTATAATCATAT
AAATAAAATCTATTATAAGTTACAATAATAC
Found at i:34838368 original size:20 final size:18
Alignment explanation
Indices: 34838321--34838378 Score: 53
Period size: 18 Copynumber: 3.0 Consensus size: 18
34838311 AATTTATTAA
*
34838321 TATATTTATTATCATATAT
1 TATA-TTATTAACATATAT
*
34838340 TATAATATTAACATATAAGT
1 TATATTATTAACATAT-A-T
*
34838360 TATATTATTTAAAATATAT
1 TATATTA-TTAACATATAT
34838379 AACTTGTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
18 10 0.31
19 6 0.19
20 8 0.25
21 8 0.25
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (18 bp):
TATATTATTAACATATAT
Found at i:34838376 original size:21 final size:20
Alignment explanation
Indices: 34838339--34838377 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
34838329 TTATCATATA
*
34838339 TTATAATATTAACATATAAG
1 TTATAATATTAAAATATAAG
*
34838359 TTATATTATTTAAAATATA
1 TTATAATA-TTAAAATATA
34838378 TAACTTGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (20 bp):
TTATAATATTAAAATATAAG
Found at i:34848350 original size:2 final size:2
Alignment explanation
Indices: 34848339--34848373 Score: 54
Period size: 2 Copynumber: 17.5 Consensus size: 2
34848329 AAAGTGATAA
34848339 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT ACT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT A
34848374 NTCCAAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 28 0.90
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:34848527 original size:206 final size:207
Alignment explanation
Indices: 34848173--34848577 Score: 733
Period size: 206 Copynumber: 2.0 Consensus size: 207
34848163 TAGGTATTCG
* * *
34848173 AATTTTATTAAAATTCAAATAAAATTATAAAATATTATTCAAAATCAAACTCTAATAATATAACA
1 AATTTTATTAAAACTCAAATAAAATTACAAAATATTATTCAAAACCAAACTCTAATAATATAACA
34848238 CTATCTACTAATTAATTGAATCCGTTAAATACATAAAAATCATATAAAATATTAATTTATATTTA
66 CTATCTACTAATTAATTGAATCCGTTAAATACATAAAAATCATATAAAATATTAATTTATATTTA
*
34848303 TTAATTTACAAAAAAAGAATTTAATTAAAGTGATAAATATT-ATATATATATATATATATATA-T
131 TTAATTTACAAAAAAAGAATTTAATTAAAGTGATAAATATTAATATATATATATATATAGATAGT
34848366 ATACTATANTCCA
196 ATACTATA-TCCA
* *
34848379 AATTTTATTAAAACTCAAATAAAATTACAAAATATTGTTCAAAACCGAACTCTAATAATATAACA
1 AATTTTATTAAAACTCAAATAAAATTACAAAATATTATTCAAAACCAAACTCTAATAATATAACA
34848444 CTATCTACTAATTAATTGAATCCGTTAAATACATAAAAATCATATAAAATATTAATTTATATTTA
66 CTATCTACTAATTAATTGAATCCGTTAAATACATAAAAATCATATAAAATATTAATTTATATTTA
34848509 TTAATTTACAAAAAAAGAATTTAATTAAAGTGATAAATATTAATATATATATATATATAGATAGT
131 TTAATTTACAAAAAAAGAATTTAATTAAAGTGATAAATATTAATATATATATATATATAGATAGT
34848574 ATAC
196 ATAC
34848578 ATACATACAT
Statistics
Matches: 191, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
206 166 0.87
207 20 0.10
208 5 0.03
ACGTcount: A:0.50, C:0.09, G:0.03, T:0.37
Consensus pattern (207 bp):
AATTTTATTAAAACTCAAATAAAATTACAAAATATTATTCAAAACCAAACTCTAATAATATAACA
CTATCTACTAATTAATTGAATCCGTTAAATACATAAAAATCATATAAAATATTAATTTATATTTA
TTAATTTACAAAAAAAGAATTTAATTAAAGTGATAAATATTAATATATATATATATATAGATAGT
ATACTATATCCA
Found at i:34874122 original size:12 final size:12
Alignment explanation
Indices: 34874105--34874131 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
34874095 TAATTAGATG
34874105 ATAAGGTAAAAT
1 ATAAGGTAAAAT
34874117 ATAAGGTAAAAT
1 ATAAGGTAAAAT
34874129 ATA
1 ATA
34874132 CTAACACTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (12 bp):
ATAAGGTAAAAT
Found at i:34894290 original size:121 final size:117
Alignment explanation
Indices: 34894141--34894369 Score: 307
Period size: 121 Copynumber: 1.9 Consensus size: 117
34894131 AACAATACTT
* * * *
34894141 TTTTTTAATTTTTTAATTTTATTTTCATTAAAATTTAAAATATTAACAATTTA-TTATTAAACTA
1 TTTTCTAATCTTTTAATTTTATTTTCATTAAAAATT-AAACATTAACAATTTATTTATTAAACTA
*
34894205 TTAATATGATATGTTATTTCAATTTCTTTTTATTTTTTTCTCTATTTGTATTTTCA
65 TTAATAT-AT-TGTTATTTCAATTTC-TTTTATCTTTTTCTCTATTTGTATTTTCA
* * *
34894261 TTTTCTAATCTTTTAATTTCTATTTTCATTAAAAATTAAACATTAATATTTTATTTATTAAATTA
1 TTTTCTAATCTTTTAATTT-TATTTTCATTAAAAATTAAACATTAACAATTTATTTATTAAACTA
* * *
34894326 TTAATATATTTTTATTTTAATTTCTTTTATCTTTTTCTTTATTT
65 TTAATATATTGTTATTTCAATTTCTTTTATCTTTTTCTCTATTT
34894370 ATTAATTTTC
Statistics
Matches: 96, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
118 18 0.19
119 13 0.14
120 32 0.33
121 33 0.34
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.61
Consensus pattern (117 bp):
TTTTCTAATCTTTTAATTTTATTTTCATTAAAAATTAAACATTAACAATTTATTTATTAAACTAT
TAATATATTGTTATTTCAATTTCTTTTATCTTTTTCTCTATTTGTATTTTCA
Found at i:34894320 original size:22 final size:22
Alignment explanation
Indices: 34894295--34894341 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
34894285 TTCATTAAAA
*
34894295 ATTAAA-CATTAATATTTTATTT
1 ATTAAATCATTAATATATT-TTT
*
34894317 ATTAAATTATTAATATATTTTT
1 ATTAAATCATTAATATATTTTT
34894339 ATT
1 ATT
34894342 TTAATTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTAAATCATTAATATATTTTT
Found at i:34897956 original size:19 final size:19
Alignment explanation
Indices: 34897934--34897970 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
34897924 AGAGCCGGAT
*
34897934 TTATTTTTTTTATTTATTG
1 TTATTTTATTTATTTATTG
34897953 TTATTTTATTTATTTATT
1 TTATTTTATTTATTTATT
34897971 TAATTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (19 bp):
TTATTTTATTTATTTATTG
Found at i:34897961 original size:15 final size:13
Alignment explanation
Indices: 34897932--34898006 Score: 62
Period size: 13 Copynumber: 5.3 Consensus size: 13
34897922 AAAGAGCCGG
34897932 ATTTATTTTTTTT
1 ATTTATTTTTTTT
34897945 ATTTATTGTTATTTT
1 ATTTATT-TT-TTTT
* *
34897960 ATTTATTTATTTA
1 ATTTATTTTTTTT
34897973 ATTTAATTTAATTTTT
1 ATTT-ATTT--TTTTT
34897989 AATTT-TTTTATTTT
1 -ATTTATTTT-TTTT
34898003 ATTT
1 ATTT
34898007 GAGTGTCTAC
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
13 19 0.37
14 11 0.22
15 14 0.27
16 3 0.06
17 4 0.08
ACGTcount: A:0.24, C:0.00, G:0.01, T:0.75
Consensus pattern (13 bp):
ATTTATTTTTTTT
Found at i:34897963 original size:5 final size:5
Alignment explanation
Indices: 34897933--34898006 Score: 59
Period size: 5 Copynumber: 15.4 Consensus size: 5
34897923 AAGAGCCGGA
* *
34897933 TTTAT TTT-T TTTA- TTTAT TGTTAT TTTA- TTTA- TTTAT TTAAT TTAAT
1 TTTAT TTTAT TTTAT TTTAT T-TTAT TTTAT TTTAT TTTAT TTTAT TTTAT
* *
34897980 TTAATT TTTAA TTT-T TTTAT TTTAT TT
1 TTTA-T TTTAT TTTAT TTTAT TTTAT TT
34898007 GAGTGTCTAC
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
4 19 0.32
5 31 0.53
6 9 0.15
ACGTcount: A:0.23, C:0.00, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:34901678 original size:15 final size:15
Alignment explanation
Indices: 34901655--34901686 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
34901645 ATTAAAGGCA
34901655 ATGAAGTTTCCCACT
1 ATGAAGTTTCCCACT
*
34901670 ATGATGTTTCCCACT
1 ATGAAGTTTCCCACT
34901685 AT
1 AT
34901687 ATGGTCTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (15 bp):
ATGAAGTTTCCCACT
Found at i:34903397 original size:25 final size:25
Alignment explanation
Indices: 34903361--34903420 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
34903351 CTATATCTCT
*
34903361 CTATCTCTAGGCATATTCCTTGAAA
1 CTATCTCCAGGCATATTCCTTGAAA
34903386 CTATCTCCAGGCATATTCCTTGAAA
1 CTATCTCCAGGCATATTCCTTGAAA
34903411 CTATCTCCAG
1 CTATCTCCAG
34903421 CCTTTTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (25 bp):
CTATCTCCAGGCATATTCCTTGAAA
Found at i:34909197 original size:14 final size:14
Alignment explanation
Indices: 34909178--34909215 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
34909168 TACATGACCT
*
34909178 TAAATAGATAAAAA
1 TAAATAAATAAAAA
*
34909192 TAAATAAATAAAAG
1 TAAATAAATAAAAA
34909206 TAAA-AAATAA
1 TAAATAAATAA
34909216 CTAATTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (14 bp):
TAAATAAATAAAAA
Found at i:34909385 original size:17 final size:17
Alignment explanation
Indices: 34909349--34909412 Score: 57
Period size: 17 Copynumber: 3.9 Consensus size: 17
34909339 GCTTATGAAG
*
34909349 AATATAATAATA-ATAAA
1 AATATAAAAATATAT-AA
34909366 AATATAAAAATATATAA
1 AATATAAAAATATATAA
*
34909383 AAT-GAAAAATAGTAT--
1 AATATAAAAATA-TATAA
34909398 AATA-AAAAATATATA
1 AATATAAAAATATATA
34909413 TAATTTTTGT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
14 3 0.07
15 10 0.24
16 7 0.17
17 19 0.46
18 2 0.05
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (17 bp):
AATATAAAAATATATAA
Found at i:34909405 original size:15 final size:14
Alignment explanation
Indices: 34909349--34909412 Score: 53
Period size: 15 Copynumber: 4.6 Consensus size: 14
34909339 GCTTATGAAG
34909349 AATATAATAATAATAA
1 AATAT-ATAATAA-AA
34909365 AA-ATAT-A-AAAA
1 AATATATAATAAAA
* * *
34909376 TATATAAAATGAAA
1 AATATATAATAAAA
34909390 AATAGTATAATAAAA
1 AATA-TATAATAAAA
34909405 AATATATA
1 AATATATA
34909413 TAATTTTTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
11 3 0.08
12 5 0.13
13 2 0.05
14 12 0.32
15 14 0.37
16 2 0.05
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (14 bp):
AATATATAATAAAA
Found at i:34909414 original size:16 final size:16
Alignment explanation
Indices: 34909366--34909416 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
34909356 TAATAATAAA
*
34909366 AATATAAAAATATATAA
1 AATA-AAAAATATATAT
* *
34909383 AATGAAAAATA-GTAT
1 AATAAAAAATATATAT
34909398 AATAAAAAATATATAT
1 AATAAAAAATATATAT
34909414 AAT
1 AAT
34909417 TTTTGTTCAC
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
15 12 0.43
16 13 0.46
17 3 0.11
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (16 bp):
AATAAAAAATATATAT
Found at i:34909546 original size:20 final size:20
Alignment explanation
Indices: 34909518--34909562 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
34909508 AAAAAATGAT
*
34909518 AATAAGAT-ATAAGAATAGAA
1 AATAAGATAATAA-AATAAAA
*
34909538 AATATGATAATAAAATAAAA
1 AATAAGATAATAAAATAAAA
34909558 AATAA
1 AATAA
34909563 TTAATTAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.22
Consensus pattern (20 bp):
AATAAGATAATAAAATAAAA
Found at i:34909647 original size:16 final size:17
Alignment explanation
Indices: 34909610--34909648 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
34909600 AGCACAGCAT
*
34909610 ATATATATTGCATCATAC
1 ATAT-TATTGCATCATAA
34909628 ATATTATTGCAT-ATAA
1 ATATTATTGCATCATAA
34909644 ATATT
1 ATATT
34909649 TTTGTTTTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 8 0.40
18 4 0.20
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (17 bp):
ATATTATTGCATCATAA
Found at i:34910291 original size:166 final size:166
Alignment explanation
Indices: 34910012--34910344 Score: 612
Period size: 166 Copynumber: 2.0 Consensus size: 166
34910002 TTATCTCACG
34910012 CCATGCATTTCATTTCACTACCCATTTGCATTCCATTTTAGGTTAAATAGGAGATAAAATAAAAG
1 CCATGCATTTCATTTCACTACCCATTTGCATTCCATTTTAGGTTAAATAGGAGATAAAATAAAAG
*
34910077 AATAATAATTAAGAAAATGTAGTAAAATTAAAAATTAAAGCTCAATAGGATAATCTAAAAATGAT
66 AATAATAATTAAGAAAATGTAGTAAAATTAAAAATTAAAGCCCAATAGGATAATCTAAAAATGAT
*
34910142 ACCGTTCATGAAACGGGCGTCCCGGGGATGCTAATC
131 ACCGTTCATGAAACGGACGTCCCGGGGATGCTAATC
34910178 CCATGCATTTCATTTCACTACCCATTTGCATTCCATTTTAGGTTAAATAGGAGATAAAATAAAAG
1 CCATGCATTTCATTTCACTACCCATTTGCATTCCATTTTAGGTTAAATAGGAGATAAAATAAAAG
* * *
34910243 AATAATAATTAAGGAAATGTAGTGAAATTAAAAATTAAAGCCCAATAGGATAATCTAAAAATGGT
66 AATAATAATTAAGAAAATGTAGTAAAATTAAAAATTAAAGCCCAATAGGATAATCTAAAAATGAT
*
34910308 ACCGTTCATGAAACGGACGTCCCGGGGGTGCTAATC
131 ACCGTTCATGAAACGGACGTCCCGGGGATGCTAATC
34910344 C
1 C
34910345 TTCCCCGGGC
Statistics
Matches: 161, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
166 161 1.00
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.28
Consensus pattern (166 bp):
CCATGCATTTCATTTCACTACCCATTTGCATTCCATTTTAGGTTAAATAGGAGATAAAATAAAAG
AATAATAATTAAGAAAATGTAGTAAAATTAAAAATTAAAGCCCAATAGGATAATCTAAAAATGAT
ACCGTTCATGAAACGGACGTCCCGGGGATGCTAATC
Found at i:34911094 original size:7 final size:7
Alignment explanation
Indices: 34911088--34911121 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
34911078 ATTTGCTTTT
*
34911088 TTATTTT
1 TTATTTA
*
34911095 TTATTTG
1 TTATTTA
34911102 TTATTTA
1 TTATTTA
34911109 TTATTTA
1 TTATTTA
34911116 TTATTT
1 TTATTT
34911122 CATTTATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (7 bp):
TTATTTA
Found at i:34911110 original size:18 final size:19
Alignment explanation
Indices: 34911077--34911117 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
34911067 TAATGCATGC
* *
34911077 TATTTGCTTTTTTATTTTT
1 TATTTGCTTATTTATTATT
34911096 TATTTG-TTATTTATTATT
1 TATTTGCTTATTTATTATT
34911114 TATT
1 TATT
34911118 ATTTCATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (19 bp):
TATTTGCTTATTTATTATT
Found at i:34911753 original size:6 final size:6
Alignment explanation
Indices: 34911728--34911774 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
34911718 GACCCAAATC
*
34911728 CTTTTT C-TTTT CTTTCTTT CTTTTT CTCTTT CTTTTT CTTTCTT CTT
1 CTTTTT CTTTTT C-TT-TTT CTTTTT CTTTTT CTTTTT CTTT-TT CTT
34911775 CTCTTTCCCA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
5 5 0.14
6 18 0.51
7 8 0.23
8 4 0.11
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (6 bp):
CTTTTT
Found at i:34911759 original size:12 final size:12
Alignment explanation
Indices: 34911731--34911781 Score: 61
Period size: 12 Copynumber: 4.3 Consensus size: 12
34911721 CCAAATCCTT
*
34911731 TTTCTTTTCTTTC
1 TTTCTTTT-TCTC
34911744 TTTCTTTTTCTC
1 TTTCTTTTTCTC
34911756 TTTC-TTTT-TC
1 TTTCTTTTTCTC
*
34911766 TTTCTTCTTCTC
1 TTTCTTTTTCTC
34911778 TTTC
1 TTTC
34911782 CCAGCCGCTC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
10 6 0.18
11 7 0.21
12 13 0.38
13 8 0.24
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (12 bp):
TTTCTTTTTCTC
Found at i:34911759 original size:16 final size:18
Alignment explanation
Indices: 34911737--34911781 Score: 60
Period size: 16 Copynumber: 2.6 Consensus size: 18
34911727 CCTTTTTCTT
34911737 TTCTTTCTTTCTT-TTTC
1 TTCTTTCTTTCTTCTTTC
34911754 -TCTTTCTTT-TTCTTTC
1 TTCTTTCTTTCTTCTTTC
34911770 TTCTTCTCTTTC
1 TTCTT-TCTTTC
34911782 CCAGCCGCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 2 0.08
16 13 0.54
17 4 0.17
18 5 0.21
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (18 bp):
TTCTTTCTTTCTTCTTTC
Found at i:34911768 original size:22 final size:20
Alignment explanation
Indices: 34911728--34911781 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 20
34911718 GACCCAAATC
34911728 CTTTTTCT-TTTCTTTCTTT
1 CTTTTTCTCTTTCTTTCTTT
34911747 CTTTTTCTCTTTCTTTTTCTTT
1 CTTTTTCTCTTTC--TTTCTTT
*
34911769 CTTCTTCTCTTTC
1 CTTTTTCTCTTTC
34911782 CCAGCCGCTC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 8 0.26
20 4 0.13
22 19 0.61
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (20 bp):
CTTTTTCTCTTTCTTTCTTT
Found at i:34911822 original size:14 final size:15
Alignment explanation
Indices: 34911794--34911833 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
34911784 AGCCGCTCCC
34911794 CCTTC-TTCTTCTCT
1 CCTTCTTTCTTCTCT
*
34911808 CTTTCTTTCTT-TCT
1 CCTTCTTTCTTCTCT
34911822 CCTTCTTT-TTCT
1 CCTTCTTTCTTCT
34911834 TCCCCTCGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 2 0.09
14 15 0.68
15 5 0.23
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (15 bp):
CCTTCTTTCTTCTCT
Found at i:34915272 original size:17 final size:17
Alignment explanation
Indices: 34915250--34915288 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
34915240 TAAAAAAAAA
34915250 TTAATAATTTTA-ATTAT
1 TTAATAATTTTATA-TAT
34915267 TTAATAATTTTATATAT
1 TTAATAATTTTATATAT
34915284 TTAAT
1 TTAAT
34915289 TATATAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 20 0.95
18 1 0.05
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTAATAATTTTATATAT
Found at i:34917999 original size:14 final size:14
Alignment explanation
Indices: 34917980--34918023 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
34917970 ATCATAAAGC
34917980 TAAATAATAAAGAA
1 TAAATAATAAAGAA
34917994 TAAAT-AT-AAG-A
1 TAAATAATAAAGAA
34918005 TAATATAA-AAAGAA
1 TAA-ATAATAAAGAA
34918019 TAAAT
1 TAAAT
34918024 TAGAAAACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
11 4 0.15
12 5 0.19
13 8 0.31
14 9 0.35
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (14 bp):
TAAATAATAAAGAA
Found at i:34921047 original size:22 final size:21
Alignment explanation
Indices: 34921008--34921055 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
34920998 TAAAATATTC
34921008 AATTTAAATTTTAAAATTAACA
1 AATTTAAATTTTAAAATTAA-A
* ** *
34921030 AATTTAATTTTTTCAATTTAA
1 AATTTAAATTTTAAAATTAAA
34921051 AATTT
1 AATTT
34921056 TGAATATTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (21 bp):
AATTTAAATTTTAAAATTAAA
Found at i:34931297 original size:2 final size:2
Alignment explanation
Indices: 34931290--34931323 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
34931280 GCAGTTCTGA
34931290 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
34931324 CTCATGCTTA
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:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:34936893 original size:13 final size:12
Alignment explanation
Indices: 34936877--34936924 Score: 55
Period size: 13 Copynumber: 3.9 Consensus size: 12
34936867 TTATTATTAA
34936877 ATATTATCATATT
1 ATATTAT-ATATT
34936890 ATATTAATATATT
1 ATATT-ATATATT
34936903 ATATTATA-A-T
1 ATATTATATATT
34936913 ATATTATGATAT
1 ATATTAT-ATAT
34936925 ATCAACATGT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
10 8 0.26
11 2 0.06
12 4 0.13
13 15 0.48
14 2 0.06
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (12 bp):
ATATTATATATT
Found at i:34936924 original size:8 final size:7
Alignment explanation
Indices: 34936866--34936924 Score: 50
Period size: 8 Copynumber: 8.3 Consensus size: 7
34936856 CAGTTAATTA
34936866 ATTAT-T
1 ATTATAT
*
34936872 ATTAAAT
1 ATTATAT
34936879 ATTATCAT
1 ATTAT-AT
34936887 ATTATAT
1 ATTATAT
*
34936894 -TAATAT
1 ATTATAT
34936900 ATTATATT
1 ATTATA-T
*
34936908 ATAATAT
1 ATTATAT
34936915 ATTATGAT
1 ATTAT-AT
34936923 AT
1 AT
34936925 ATCAACATGT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
6 9 0.21
7 16 0.38
8 17 0.40
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (7 bp):
ATTATAT
Found at i:34936925 original size:15 final size:14
Alignment explanation
Indices: 34936871--34936925 Score: 58
Period size: 15 Copynumber: 3.8 Consensus size: 14
34936861 AATTAATTAT
* *
34936871 TATTAAATATTATCA
1 TATTATATATAAT-A
34936886 TATTATAT-TAATA
1 TATTATATATAATA
34936899 TATTATATTATAATA
1 TATTATA-TATAATA
34936914 TATTATGATATA
1 TATTAT-ATATA
34936926 TCAACATGTC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
13 8 0.23
14 4 0.11
15 22 0.63
16 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (14 bp):
TATTATATATAATA
Found at i:34937028 original size:25 final size:25
Alignment explanation
Indices: 34936981--34937029 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
34936971 CATTATATAA
*
34936981 AATAATAAATTATATTTTGATTATT
1 AATAATAAATTATATTTTAATTATT
*
34937006 AATAATTAATTA-ATTATTAATTAT
1 AATAATAAATTATATT-TTAATTAT
34937030 AAAAATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (25 bp):
AATAATAAATTATATTTTAATTATT
Found at i:34937089 original size:23 final size:25
Alignment explanation
Indices: 34937038--34937099 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 25
34937028 ATAAAAATTT
34937038 ATTTAATTTAAAATAAAAATATAAAA
1 ATTT-ATTTAAAATAAAAATATAAAA
*
34937064 ATTT-TGTTAAAAT-AAAA-ATAATA
1 ATTTAT-TTAAAATAAAAATATAAAA
34937087 ATTTATTTAAAAT
1 ATTTATTTAAAAT
34937100 TTTATAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
23 16 0.48
24 6 0.18
25 7 0.21
26 4 0.12
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (25 bp):
ATTTATTTAAAATAAAAATATAAAA
Found at i:34961233 original size:16 final size:19
Alignment explanation
Indices: 34961188--34961230 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
34961178 ATTATGAAGT
34961188 TTTTATGAAAAATAATAGC
1 TTTTATGAAAAATAATAGC
*
34961207 TTTTATGAAAAATAATAGT
1 TTTTATGAAAAATAATAGC
34961226 TTTTA
1 TTTTA
34961231 AAATTAAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (19 bp):
TTTTATGAAAAATAATAGC
Found at i:34966988 original size:96 final size:96
Alignment explanation
Indices: 34966765--34966958 Score: 370
Period size: 96 Copynumber: 2.0 Consensus size: 96
34966755 GAAACTCAAA
* *
34966765 TTAACATCCAGTAACATAATCAACAAAAAAAAGAGTTTTATTAATGGTCTTCTGTTTATCAATTC
1 TTAAGATCCAGTAACATAATCAACCAAAAAAAGAGTTTTATTAATGGTCTTCTGTTTATCAATTC
34966830 ATGTAACAAAAAGCATTAATAGAGTCTTTTT
66 ATGTAACAAAAAGCATTAATAGAGTCTTTTT
34966861 TTAAGATCCAGTAACATAATCAACCAAAAAAAGAGTTTTATTAATGGTCTTCTGTTTATCAATTC
1 TTAAGATCCAGTAACATAATCAACCAAAAAAAGAGTTTTATTAATGGTCTTCTGTTTATCAATTC
34966926 ATGTAACAAAAAGCATTAATAGAGTCTTTTT
66 ATGTAACAAAAAGCATTAATAGAGTCTTTTT
34966957 TT
1 TT
34966959 TTTTTCCTTT
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 96 1.00
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (96 bp):
TTAAGATCCAGTAACATAATCAACCAAAAAAAGAGTTTTATTAATGGTCTTCTGTTTATCAATTC
ATGTAACAAAAAGCATTAATAGAGTCTTTTT
Found at i:34968546 original size:2 final size:2
Alignment explanation
Indices: 34968534--34968583 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
34968524 TTTACCTTGG
*
34968534 AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AG 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
*
34968575 CT AT AT AT A
1 AT AT AT AT A
34968584 CATGTTTTGT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:34981007 original size:39 final size:41
Alignment explanation
Indices: 34980959--34981041 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 41
34980949 CGAATTTCCC
*
34980959 TTATAGATTCTA-AGAAAGAGAAGAGAA-G-TTAACTTTCTT
1 TTATAGATTCTAGAG-AAGAAAAGAGAAGGATTAACTTTCTT
*
34980998 TTATCGATTCTAGAGAAGAAAAGAGAAGGATTTAACTTTCTT
1 TTATAGATTCTAGAGAAGAAAAGAGAAGGA-TTAACTTTCTT
34981040 TT
1 TT
34981042 CTCAAAATCG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
39 22 0.58
40 3 0.08
42 13 0.34
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35
Consensus pattern (41 bp):
TTATAGATTCTAGAGAAGAAAAGAGAAGGATTAACTTTCTT
Found at i:34983188 original size:22 final size:22
Alignment explanation
Indices: 34983128--34983188 Score: 88
Period size: 21 Copynumber: 2.8 Consensus size: 22
34983118 ATTACTGTAG
*
34983128 GACTAATTTTTAGACATTACGT
1 GACTAGTTTTTAGACATTACGT
* *
34983150 GATTAG-TTTTAGGCATTACGT
1 GACTAGTTTTTAGACATTACGT
34983171 GACTAGTTTTTAGACATT
1 GACTAGTTTTTAGACATT
34983189 GCATAACTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
21 19 0.58
22 14 0.42
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.43
Consensus pattern (22 bp):
GACTAGTTTTTAGACATTACGT
Found at i:34983242 original size:23 final size:23
Alignment explanation
Indices: 34983215--34983278 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
34983205 AGCAATGCCT
34983215 AAGTCACACAATGCCTTACTAAC
1 AAGTCACACAATGCCTTACTAAC
* *
34983238 TAGTCACGCAATGCCTTACTAAC
1 AAGTCACACAATGCCTTACTAAC
*
34983261 AAATCACACAATGCCTTA
1 AAGTCACACAATGCCTTA
34983279 ACAAAAACTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.30, G:0.09, T:0.23
Consensus pattern (23 bp):
AAGTCACACAATGCCTTACTAAC
Found at i:34983309 original size:26 final size:26
Alignment explanation
Indices: 34983235--34983712 Score: 319
Period size: 26 Copynumber: 19.7 Consensus size: 26
34983225 ATGCCTTACT
*
34983235 AACTAGTCACGCAATGCCTTA-CTAAC
1 AACTAGTCACGCAATGCCTTATC-AAA
* *
34983261 AA--A-TCACACAATGCCTTAACAAA
1 AACTAGTCACGCAATGCCTTATCAAA
*
34983284 AACTAGTCATGCAATGCCTTATCAAA
1 AACTAGTCACGCAATGCCTTATCAAA
* * *
34983310 AATTAGTCATGCAATGCTTTATCAAA
1 AACTAGTCACGCAATGCCTTATCAAA
* * *
34983336 AACTAGTTACACAATACC----C--A
1 AACTAGTCACGCAATGCCTTATCAAA
* * *
34983356 AAGTGAGTCATGCAATACC-TATC---
1 AACT-AGTCACGCAATGCCTTATCAAA
34983379 AACTAGTCACGCAATGCCTTATCAAA
1 AACTAGTCACGCAATGCCTTATCAAA
*
34983405 AATTAGTCACGCAATGCCTTATCAAA
1 AACTAGTCACGCAATGCCTTATCAAA
*
34983431 AATTAGTCACGCAATGCC----CAAA
1 AACTAGTCACGCAATGCCTTATCAAA
** *
34983453 GTC-AGTCACACAATGCC-TATC---
1 AACTAGTCACGCAATGCCTTATCAAA
* *
34983474 AACTAGTCACGTAATGTCTTATCAAA
1 AACTAGTCACGCAATGCCTTATCAAA
* *
34983500 AACTAGTCATGCAATGCTTTATCAAA
1 AACTAGTCACGCAATGCCTTATCAAA
*
34983526 AACTAGTCACGCAATACC----C--A
1 AACTAGTCACGCAATGCCTTATCAAA
* * *
34983546 AAGTGAGTCATGCAATACC-TATC---
1 AACT-AGTCACGCAATGCCTTATCAAA
* *
34983569 AACTAGTCATGCAATGCCTTATCAGA
1 AACTAGTCACGCAATGCCTTATCAAA
* *
34983595 AATTAGTCATGCAATGCCTTATCAAA
1 AACTAGTCACGCAATGCCTTATCAAA
* *
34983621 AATTAGTCACACAATGCC-TATC---
1 AACTAGTCACGCAATGCCTTATCAAA
* *
34983643 AACTAGTCACGTAATGCCTTATCAGA
1 AACTAGTCACGCAATGCCTTATCAAA
* ** *
34983669 AACTAGTCGCATAATGTCTTATCAAA
1 AACTAGTCACGCAATGCCTTATCAAA
*
34983695 AATTAGTCACGCAATGCC
1 AACTAGTCACGCAATGCC
34983713 CAAAGTCAGT
Statistics
Matches: 363, Mismatches: 57, Indels: 64
0.75 0.12 0.13
Matches are distributed among these distances:
20 8 0.02
21 38 0.10
22 57 0.16
23 40 0.11
24 5 0.01
25 5 0.01
26 210 0.58
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (26 bp):
AACTAGTCACGCAATGCCTTATCAAA
Found at i:34983397 original size:95 final size:95
Alignment explanation
Indices: 34983284--34983635 Score: 533
Period size: 95 Copynumber: 3.7 Consensus size: 95
34983274 CCTTAACAAA
* * *
34983284 AACTAGTCATGCAATGCCTTATCAAAAATTAGTCATGCAATGCTTTATCAAAAACTAGTTACACA
1 AACTAGTCACGCAATGCCTTATCAAAAATTAGTCATGCAATGCCTTATCAAAAACTAGTCACACA
34983349 ATACCCAAAGTGAGTCATGCAATACCTATC
66 ATACCCAAAGTGAGTCATGCAATACCTATC
* * *
34983379 AACTAGTCACGCAATGCCTTATCAAAAATTAGTCACGCAATGCCTTATCAAAAATTAGTCACGCA
1 AACTAGTCACGCAATGCCTTATCAAAAATTAGTCATGCAATGCCTTATCAAAAACTAGTCACACA
* * ** *
34983444 ATGCCCAAAGTCAGTCACACAATGCCTATC
66 ATACCCAAAGTGAGTCATGCAATACCTATC
* * * * *
34983474 AACTAGTCACGTAATGTCTTATCAAAAACTAGTCATGCAATGCTTTATCAAAAACTAGTCACGCA
1 AACTAGTCACGCAATGCCTTATCAAAAATTAGTCATGCAATGCCTTATCAAAAACTAGTCACACA
34983539 ATACCCAAAGTGAGTCATGCAATACCTATC
66 ATACCCAAAGTGAGTCATGCAATACCTATC
* * *
34983569 AACTAGTCATGCAATGCCTTATCAGAAATTAGTCATGCAATGCCTTATCAAAAATTAGTCACACA
1 AACTAGTCACGCAATGCCTTATCAAAAATTAGTCATGCAATGCCTTATCAAAAACTAGTCACACA
34983634 AT
66 AT
34983636 GCCTATCAAC
Statistics
Matches: 227, Mismatches: 30, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
95 227 1.00
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (95 bp):
AACTAGTCACGCAATGCCTTATCAAAAATTAGTCATGCAATGCCTTATCAAAAACTAGTCACACA
ATACCCAAAGTGAGTCATGCAATACCTATC
Found at i:34983611 original size:190 final size:192
Alignment explanation
Indices: 34983264--34983711 Score: 659
Period size: 190 Copynumber: 2.3 Consensus size: 192
34983254 TACTAACAAA
* * * *
34983264 TCACACAATGCCTTAACAAAAACTAGTCATGCAATGCCTTATCAAAAATTAGTCATGCAATGCTT
1 TCACACAATGCCTTATC--AAACTAGTCACGTAATGTCTTATCAAAAATTAGTCATGCAATGCTT
*
34983329 TATCAAAAACTAGTTACACAATACCCAAAGTGAGTCATGCAATACCTATCAACTAGTCACGCAAT
64 TATCAAAAACTAGTCACACAATACCCAAAGTGAGTCATGCAATACCTATCAACTAGTCACGCAAT
* *
34983394 GCCTTATCAAAAATTAGTCACGCAATGCCTTATCAAAAATTAGTCACGCAATGCCCA-AAGTCAG
129 GCCTTATCAAAAATTAGTCACGCAATGCCTTATCAAAAATTAGTCACACAATGCCCACAACT-AG
*
34983458 TCACACAATGCC-TATC-AACTAGTCACGTAATGTCTTATCAAAAACTAGTCATGCAATGCTTTA
1 TCACACAATGCCTTATCAAACTAGTCACGTAATGTCTTATCAAAAATTAGTCATGCAATGCTTTA
* *
34983521 TCAAAAACTAGTCACGCAATACCCAAAGTGAGTCATGCAATACCTATCAACTAGTCATGCAATGC
66 TCAAAAACTAGTCACACAATACCCAAAGTGAGTCATGCAATACCTATCAACTAGTCACGCAATGC
* * *
34983586 CTTATCAGAAATTAGTCATGCAATGCCTTATCAAAAATTAGTCACACAATGCCTATCAACTAG
131 CTTATCAAAAATTAGTCACGCAATGCCTTATCAAAAATTAGTCACACAATGCCCA-CAACTAG
** * * *
34983649 TCACGTAATGCCTTATCAGAAACTAGTCGCATAATGTCTTATCAAAAATTAGTCACGCAATGC
1 TCACACAATGCCTTATC--AAACTAGTCACGTAATGTCTTATCAAAAATTAGTCATGCAATGC
34983712 CCAAAGTCAG
Statistics
Matches: 229, Mismatches: 19, Indels: 11
0.88 0.07 0.04
Matches are distributed among these distances:
190 156 0.68
191 12 0.05
192 7 0.03
193 3 0.01
194 12 0.05
195 39 0.17
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (192 bp):
TCACACAATGCCTTATCAAACTAGTCACGTAATGTCTTATCAAAAATTAGTCATGCAATGCTTTA
TCAAAAACTAGTCACACAATACCCAAAGTGAGTCATGCAATACCTATCAACTAGTCACGCAATGC
CTTATCAAAAATTAGTCACGCAATGCCTTATCAAAAATTAGTCACACAATGCCCACAACTAG
Found at i:34983666 original size:169 final size:163
Alignment explanation
Indices: 34983408--34983735 Score: 462
Period size: 169 Copynumber: 2.0 Consensus size: 163
34983398 TATCAAAAAT
*
34983408 TAGTCACGCAATGCCTTATCAAAAATTAGTCACGCAATGCCCAAAGTCAGTCACACAATGCCTAT
1 TAGTCACGCAATGCCTTATCAAAAATTAGTCACGCAATGCCCAAAATCAGTCACACAATGCCTAT
*
34983473 CAACTAGTCACGTAATGTCTTATCAAAAACTAGTCATGC-AATG-CTTTATCAAAAACTAGTCAC
66 CAACTAGTCACGTAATGCCTTATCAAAAACTAGTC--GCAAATGTC-TTATCAAAAACTAGTCAC
* *
34983536 GCAATACCCAAAGTGAGTCATGCAATACCTATCAAC
128 GCAATACCCAAAGTCAGTCACGCAATACCTATCAAC
* * * *
34983572 TAGTCATGCAATGCCTTATCAGAAATTAGTCATGCAATGCCTTATCAAAAATTAGTCACACAATG
1 TAGTCACGCAATGCCTTATCAAAAATTAGTCACGCAATGCC----C-AAAATCAGTCACACAATG
* *
34983637 CCTATCAACTAGTCACGTAATGCCTTATCAGAAACTAGTCGCATAATGTCTTATCAAAAATTAGT
61 CCTATCAACTAGTCACGTAATGCCTTATCAAAAACTAGTCGCA-AATGTCTTATCAAAAACTAGT
*
34983702 CACGCAATGCCCAAAGTCAGTCACGCAATACCTA
125 CACGCAATACCCAAAGTCAGTCACGCAATACCTA
34983736 AAAATTAGTC
Statistics
Matches: 145, Mismatches: 11, Indels: 11
0.87 0.07 0.07
Matches are distributed among these distances:
164 38 0.26
167 2 0.01
168 1 0.01
169 103 0.71
170 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.26
Consensus pattern (163 bp):
TAGTCACGCAATGCCTTATCAAAAATTAGTCACGCAATGCCCAAAATCAGTCACACAATGCCTAT
CAACTAGTCACGTAATGCCTTATCAAAAACTAGTCGCAAATGTCTTATCAAAAACTAGTCACGCA
ATACCCAAAGTCAGTCACGCAATACCTATCAAC
Found at i:34983748 original size:22 final size:21
Alignment explanation
Indices: 34983691--34983762 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 21
34983681 AATGTCTTAT
*
34983691 CAAAAATTAGTCACGCAATGC
1 CAAAAATTAGTCACGCAATAC
* * *
34983712 CCAAAGTCAGTCACGCAATAC
1 CAAAAATTAGTCACGCAATAC
* *
34983733 CTAAAAATTAGTCACGTAATTC
1 C-AAAAATTAGTCACGCAATAC
34983755 TCAAAAAT
1 -CAAAAAT
34983763 CACCAAAACT
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
21 18 0.45
22 21 0.52
23 1 0.03
ACGTcount: A:0.43, C:0.24, G:0.11, T:0.22
Consensus pattern (21 bp):
CAAAAATTAGTCACGCAATAC
Found at i:34985086 original size:21 final size:22
Alignment explanation
Indices: 34985043--34985086 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
34985033 TGTCAGCAAG
**
34985043 AAATACCATATCAATTTAATTA
1 AAATACCATATCAACATAATTA
*
34985065 AAATA-CATATCAACATATTTA
1 AAATACCATATCAACATAATTA
34985086 A
1 A
34985087 TGATTAAATG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (22 bp):
AAATACCATATCAACATAATTA
Found at i:34998647 original size:30 final size:31
Alignment explanation
Indices: 34998590--34998648 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
34998580 TCATTCGAAT
* *
34998590 AAGAACAAGAGGGGCAATTAAACAACAAAAA
1 AAGAACAAGAGGGGAAAATAAACAACAAAAA
*
34998621 AAGAACAAGA-GGGAAAATAGACAACAAA
1 AAGAACAAGAGGGGAAAATAAACAACAAA
34998649 CCTCGGCTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.63, C:0.12, G:0.20, T:0.05
Consensus pattern (31 bp):
AAGAACAAGAGGGGAAAATAAACAACAAAAA
Found at i:35005872 original size:108 final size:107
Alignment explanation
Indices: 35005334--35005864 Score: 520
Period size: 108 Copynumber: 4.9 Consensus size: 107
35005324 ATTGGATTAC
* * * *
35005334 CATATTTACTTAAAAAATAAAAAA-TATTTTAATAATTAATCTATAACTTAAAATTATAACATAA
1 CATATTTACCT-AAAAATAAAAAATTATTTTAGTAATTAATTTATAACTTGAAATTATAACATAA
** * * * * ** *
35005398 AATCTTAAGTTTAAATCCTAAAAAGGAATGATTTGAAATGATG
65 AATCTCGAGTTTAAGTCTTGAAAAGGAAGGATGAGAAATTATG
* * * *
35005441 CTTATTTACCACAAAAAT-AAATATTATTTTAGTAATTAATTTGTAACTTGAAATTATAACATAA
1 CATATTTACC-TAAAAATAAAAAATTATTTTAGTAATTAATTTATAACTTGAAATTATAACATAA
* * *
35005505 AATCTCGAGTTTAAGT-TCAGAAAAAGAATGATGAGAAATTATG
65 AATCTCGAGTTTAAGTCT-TGAAAAGGAAGGATGAGAAATTATG
* * * * *
35005548 CATATTTAGCTAAAAA-ATAGAAATTATTTCAGAAATTAAATTAGTAACTTGAAATTATAACATA
1 CATATTTACCTAAAAATA-AAAAATTATTTTAGTAATTAATTTA-TAACTTGAAATTATAACATA
* *
35005612 AAATCTCGAGTTTAAGT-TTCGAGAAGGAATGATGAGAAATTATG
64 AAATCTCGAGTTTAAGTCTT-GAAAAGGAAGGATGAGAAATTATG
* * * * *
35005656 TACT-TTTACTTAGAAAAT-AAAAATTATTTCAATAATTAAATTTGTAACTTGAAATTATAACAT
1 CA-TATTTACCTA-AAAATAAAAAATTATTTTAGTAATT-AATTTATAACTTGAAATTATAACAT
* * * * * * *
35005719 GATATTTAGAGTTTAAGTCTCGAAAAAGAAGGATGAGAGATTTATG
63 AAAATCTCGAGTTTAAGTCTTGAAAAGGAAGGATGAGA-AATTATG
* * *
35005765 CATATTTACCTAAAAATAAAAAAATATTTTAGTAATTACATTTATAACTTGTAATTATAACATGA
1 CATATTTACCTAAAAATAAAAAATTATTTTAGTAATTA-ATTTATAACTTGAAATTATAACATAA
*
35005830 AA-CTCGAGTTTAAGTCTTGAAAAGGAAGGTTGAGA
65 AATCTCGAGTTTAAGTCTTGAAAAGGAAGGATGAGA
35005865 GATTTATGGA
Statistics
Matches: 348, Mismatches: 60, Indels: 31
0.79 0.14 0.07
Matches are distributed among these distances:
106 9 0.03
107 109 0.31
108 165 0.47
109 65 0.19
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.35
Consensus pattern (107 bp):
CATATTTACCTAAAAATAAAAAATTATTTTAGTAATTAATTTATAACTTGAAATTATAACATAAA
ATCTCGAGTTTAAGTCTTGAAAAGGAAGGATGAGAAATTATG
Found at i:35010892 original size:208 final size:205
Alignment explanation
Indices: 35010530--35010936 Score: 739
Period size: 208 Copynumber: 2.0 Consensus size: 205
35010520 AAAAAATAAA
35010530 AATT-AAAAAAAAACTAAAAAAACTCTAAAAATGAGTTTTCTCTTATCTTTTTTTAAAAATATAT
1 AATTAAAAAAAAAACTAAAAAAACTCTAAAAATGAGTTTTCTCTTATCTTTTTTTAAAAATATAT
35010594 TAACATTTCAAAAAATATTTATATCTTTCAATCAATCTCCCTCTCCTCTCCTTCCTTCTTTAATT
66 TAACATTTCAAAAAATATTTATATCTTTCAATCAATCTCCCTCTCCTCTCCTTCCTTCTTTAATT
*
35010659 GTTTGGTAAAATTGCGATTATCCTCTCCTCCTTTACCTCTC-TCTACAAAAACTAAT-AAAAAAA
131 GTTTGGTAAAATTGCGATTAT-C-CT-CTCCTTCACCTCTCGT-TACAAAAACTAATAAAAAAAA
35010722 ATAGAAGACCCAAC
192 ATAGAAGACCCAAC
35010736 ANATTAAAAAAAAAACTAAAAAAACTCTAAAAATGAGTTTTCTCTTATCTTTTTTTAAAAATATA
1 A-ATTAAAAAAAAAACTAAAAAAACTCTAAAAATGAGTTTTCTCTTATCTTTTTTTAAAAATATA
35010801 TTAACATTTCAAAAAATATTTATATCTTTCAATCAATCTCCCTCTCCTCTCCTTCCTTCTTTAAT
65 TTAACATTTCAAAAAATATTTATATCTTTCAATCAATCTCCCTCTCCTCTCCTTCCTTCTTTAAT
35010866 TGTTTGGTAAAATTGCGATTATCCTCTCCTTCACCTCTCGTTACAAAAACTAATAAAAAAAAATA
130 TGTTTGGTAAAATTGCGATTATCCTCTCCTTCACCTCTCGTTACAAAAACTAATAAAAAAAAATA
35010931 GAAGAC
195 GAAGAC
35010937 TTAGTAACAA
Statistics
Matches: 196, Mismatches: 1, Indels: 8
0.96 0.00 0.04
Matches are distributed among these distances:
205 26 0.13
206 20 0.10
207 4 0.02
208 146 0.74
ACGTcount: A:0.39, C:0.20, G:0.05, T:0.36
Consensus pattern (205 bp):
AATTAAAAAAAAAACTAAAAAAACTCTAAAAATGAGTTTTCTCTTATCTTTTTTTAAAAATATAT
TAACATTTCAAAAAATATTTATATCTTTCAATCAATCTCCCTCTCCTCTCCTTCCTTCTTTAATT
GTTTGGTAAAATTGCGATTATCCTCTCCTTCACCTCTCGTTACAAAAACTAATAAAAAAAAATAG
AAGACCCAAC
Found at i:35013081 original size:23 final size:24
Alignment explanation
Indices: 35013037--35013082 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
35013027 TAATAAAAAA
*
35013037 TTAATAAAATTATATAATAGTAAT
1 TTAATAAAATTATATAAGAGTAAT
35013061 TTAA-AAAATTA-ATTAAGAGTAA
1 TTAATAAAATTATA-TAAGAGTAA
35013083 AATTATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 1 0.05
23 15 0.75
24 4 0.20
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (24 bp):
TTAATAAAATTATATAAGAGTAAT
Found at i:35016852 original size:176 final size:176
Alignment explanation
Indices: 35016554--35016901 Score: 669
Period size: 176 Copynumber: 2.0 Consensus size: 176
35016544 GAGAAAACCA
35016554 CTCTGAAGCATTGTTAATTAAAAAGCAAGATATTAAATTACAAAATTCAAGTTAAACATGTTTTT
1 CTCTGAAGCATTGTTAATTAAAAAGCAAGATATTAAATTACAAAATTCAAGTTAAACATGTTTTT
35016619 CAGCAATGATTTATACTTCAAAATGAAGGCTTGAATCAAGTTGTAGGACACATAATCTACCACAT
66 CAGCAATGATTTATACTTCAAAATGAAGGCTTGAATCAAGTTGTAGGACACATAATCTACCACAT
35016684 TAATATTTGTAGATTTGTAACCAACTCTGTTAACTAATCAGTTTCT
131 TAATATTTGTAGATTTGTAACCAACTCTGTTAACTAATCAGTTTCT
35016730 CTCTGAAGCATTGTTAATTAAAAAGCAAGATATTAAATTACAAAATTCAAGTTAAACATGTTTTT
1 CTCTGAAGCATTGTTAATTAAAAAGCAAGATATTAAATTACAAAATTCAAGTTAAACATGTTTTT
* * *
35016795 CAGCAATGATTTATACTTCAAAATGAAGGGTTGAATCAAGTTGTAGGATATATAATCTACCACAT
66 CAGCAATGATTTATACTTCAAAATGAAGGCTTGAATCAAGTTGTAGGACACATAATCTACCACAT
35016860 TAATATTTGTAGATTTGTAACCAACTCTGTTAACTAATCAGT
131 TAATATTTGTAGATTTGTAACCAACTCTGTTAACTAATCAGT
35016902 GGCACAAACT
Statistics
Matches: 169, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
176 169 1.00
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.35
Consensus pattern (176 bp):
CTCTGAAGCATTGTTAATTAAAAAGCAAGATATTAAATTACAAAATTCAAGTTAAACATGTTTTT
CAGCAATGATTTATACTTCAAAATGAAGGCTTGAATCAAGTTGTAGGACACATAATCTACCACAT
TAATATTTGTAGATTTGTAACCAACTCTGTTAACTAATCAGTTTCT
Found at i:35019913 original size:185 final size:186
Alignment explanation
Indices: 35019590--35019926 Score: 491
Period size: 185 Copynumber: 1.8 Consensus size: 186
35019580 TTACTGTTGC
* * * *
35019590 TCTATTTCAGTTCAGATTTAGGTTGTTATAGGTTTGGATTATTTCAGGTTTAAAGTGTAATAAAT
1 TCTACTTCAGTTCAGATTTAAGTTGCTATAGGTTTGGATCATTTCAGGTTTAAAGTGTAATAAAT
** *
35019655 TTTGATTTATTTTGAACTTAAATTTGTATTATTTTAGATACCAAGTTACTCAAATTTAAATGATC
66 TTTGATTTATTTTGAACTTAAATTCATATTATTTTAGATACCAAGTTACTCAAATTCAAATGATC
35019720 ATTAACTTTTTAAAAATTAATTCATAATTAGATGGATTGAGCTGGATTAATATTAG
131 ATTAACTTTTTAAAAATTAATTCATAATTAGATGGATTGAGCTGGATTAATATTAG
* *
35019776 TCTACTTCATTTCAGATTTAAGTTGCTATAGGTTTGGATCATTT-ACGGTTTAAATTGTAATAAA
1 TCTACTTCAGTTCAGATTTAAGTTGCTATAGGTTTGGATCATTTCA-GGTTTAAAGTGTAATAAA
** * * * *
35019840 TTTTGA-TTATTTTGAGTTTGAGTTCATTTTATTTTA-AGTATCAAGTTACTCAAATTCAAATGA
65 TTTTGATTTATTTTGAACTTAAATTCATATTATTTTAGA-TACCAAGTTACTCAAATTCAAATGA
*
35019903 TTATTAACTTTTTAAAAATTAATT
129 TCATTAACTTTTTAAAAATTAATT
35019927 GAAGTAAAAT
Statistics
Matches: 133, Mismatches: 16, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
184 1 0.01
185 70 0.53
186 62 0.47
ACGTcount: A:0.33, C:0.08, G:0.13, T:0.46
Consensus pattern (186 bp):
TCTACTTCAGTTCAGATTTAAGTTGCTATAGGTTTGGATCATTTCAGGTTTAAAGTGTAATAAAT
TTTGATTTATTTTGAACTTAAATTCATATTATTTTAGATACCAAGTTACTCAAATTCAAATGATC
ATTAACTTTTTAAAAATTAATTCATAATTAGATGGATTGAGCTGGATTAATATTAG
Found at i:35020839 original size:23 final size:22
Alignment explanation
Indices: 35020791--35020842 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
35020781 GCATTGGGTA
*
35020791 ATTGATTTTTTGGTATTACGTT
1 ATTGATTTTTTGGTATTACGTG
**
35020813 ATTGATTTTTTAGGTATTTTGTG
1 ATTGATTTTTT-GGTATTACGTG
35020836 ATTGATT
1 ATTGATT
35020843 AATAGGCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 11 0.42
23 15 0.58
ACGTcount: A:0.19, C:0.02, G:0.19, T:0.60
Consensus pattern (22 bp):
ATTGATTTTTTGGTATTACGTG
Found at i:35021039 original size:22 final size:22
Alignment explanation
Indices: 35020992--35021033 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
35020982 ATTAGTCTTG
* *
35020992 TAATGTTTAAAAACTAATGACA
1 TAATGCTTAAAAACTAATAACA
35021014 TAATGCTTAAAAACTAATAA
1 TAATGCTTAAAAACTAATAA
35021034 TTTAATACCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.10, G:0.07, T:0.31
Consensus pattern (22 bp):
TAATGCTTAAAAACTAATAACA
Found at i:35029410 original size:14 final size:14
Alignment explanation
Indices: 35029391--35029417 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
35029381 TTTGTCAACA
35029391 TTTTGTTTTGCTTG
1 TTTTGTTTTGCTTG
35029405 TTTTGTTTTGCTT
1 TTTTGTTTTGCTT
35029418 ATGCTTGGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.07, G:0.19, T:0.74
Consensus pattern (14 bp):
TTTTGTTTTGCTTG
Found at i:35030738 original size:2 final size:2
Alignment explanation
Indices: 35030731--35030756 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
35030721 AGATGAATAC
35030731 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
35030757 GACTTGCTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:35036364 original size:20 final size:20
Alignment explanation
Indices: 35036347--35036384 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
35036337 CCTCAAATCT
35036347 TACTCCAACAAGTCAAATTA
1 TACTCCAACAAGTCAAATTA
*
35036367 TACTCCAATAAGTCAAAT
1 TACTCCAACAAGTCAAAT
35036385 GGGGCCAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.24, G:0.05, T:0.26
Consensus pattern (20 bp):
TACTCCAACAAGTCAAATTA
Found at i:35044392 original size:2 final size:2
Alignment explanation
Indices: 35044385--35044448 Score: 119
Period size: 2 Copynumber: 31.5 Consensus size: 2
35044375 ATAAGCAAAG
35044385 AT AT AT AT AT AT NAT 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
35044428 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
35044449 ATTGAATGAA
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 59 0.97
3 2 0.03
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35047226 original size:23 final size:24
Alignment explanation
Indices: 35047174--35047224 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
35047164 TGCACTGACT
35047174 CTTTACCCGTAAATGAAAAGGAAC
1 CTTTACCCGTAAATGAAAAGGAAC
*
35047198 CTTTACCCGTAAATGAAAGGGAAC
1 CTTTACCCGTAAATGAAAAGGAAC
35047222 CTT
1 CTT
35047225 ACATTGGTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.24
Consensus pattern (24 bp):
CTTTACCCGTAAATGAAAAGGAAC
Found at i:35048473 original size:34 final size:34
Alignment explanation
Indices: 35048369--35048538 Score: 88
Period size: 34 Copynumber: 5.0 Consensus size: 34
35048359 TACAAAGGTA
* * *
35048369 ATTTTGTGTTGATTTTTAGCACATATGAGTTATG
1 ATTTTGTGTTGATTTTTAGCACATGTAAGCTATG
* * * *
35048403 ATTTTGGGAT-ACTTGTTGTATCTC-TGTAGAG-T-TG
1 ATTTTGTGTTGA-TT-TT-TAGCACATGTA-AGCTATG
35048437 ATTTTGTGTTGATTTTTAGCACATGTAAGCTATG
1 ATTTTGTGTTGATTTTTAGCACATGTAAGCTATG
* * * *
35048471 ATTCTAG-GTTG-TTGTTTA-TACATTTGTAA-ATGTG
1 ATT-TTGTGTTGATT-TTTAGCACA--TGTAAGCTATG
*
35048505 ATTTTGTATTGATTTTTAGCACATGTGAA-CTATG
1 ATTTTGTGTTGATTTTTAGCACATGT-AAGCTATG
35048539 GTTATAATGT
Statistics
Matches: 101, Mismatches: 19, Indels: 32
0.66 0.12 0.21
Matches are distributed among these distances:
32 6 0.06
33 18 0.18
34 53 0.52
35 18 0.18
36 6 0.06
ACGTcount: A:0.23, C:0.08, G:0.21, T:0.48
Consensus pattern (34 bp):
ATTTTGTGTTGATTTTTAGCACATGTAAGCTATG
Found at i:35048507 original size:68 final size:68
Alignment explanation
Indices: 35048369--35048538 Score: 186
Period size: 68 Copynumber: 2.5 Consensus size: 68
35048359 TACAAAGGTA
* * * * * *
35048369 ATTTTGTGTTGATTTTTAGCACATATGAGTTATGATTTTGGGATACTTGTTGTATCTCTGTAGAG
1 ATTTTGTGTTGATTTTTAGCACATGTAAGCTATGATTCTAGGATACTTGTTGTATCTCTGTAAAG
35048434 TTG
66 TTG
** *
35048437 ATTTTGTGTTGATTTTTAGCACATGTAAGCTATGATTCTAGG-TTGTTGTT-TATACATTTGTAA
1 ATTTTGTGTTGATTTTTAGCACATGTAAGCTATGATTCTAGGATACTTGTTGTAT-C-TCTGTAA
35048500 A-TGTG
64 AGT-TG
*
35048505 ATTTTGTATTGATTTTTAGCACATGTGAA-CTATG
1 ATTTTGTGTTGATTTTTAGCACATGT-AAGCTATG
35048539 GTTATAATGT
Statistics
Matches: 88, Mismatches: 10, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
66 3 0.03
67 8 0.09
68 75 0.85
69 2 0.02
ACGTcount: A:0.23, C:0.08, G:0.21, T:0.48
Consensus pattern (68 bp):
ATTTTGTGTTGATTTTTAGCACATGTAAGCTATGATTCTAGGATACTTGTTGTATCTCTGTAAAG
TTG
Found at i:35048948 original size:24 final size:22
Alignment explanation
Indices: 35048901--35048950 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 22
35048891 TATAAATAAT
35048901 TTTTTTCTTCTCATTTTTCTTTC
1 TTTTTTCTTCTCA-TTTTCTTTC
35048924 TTTTTTCTCTCTC-TTTTCATGTTC
1 TTTTTTCT-TCTCATTTTC-T-TTC
35048948 TTT
1 TTT
35048951 CCTTTCTCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 5 0.21
23 9 0.38
24 10 0.42
ACGTcount: A:0.04, C:0.22, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTTTTCTTCTCATTTTCTTTC
Found at i:35049352 original size:27 final size:27
Alignment explanation
Indices: 35049301--35049352 Score: 63
Period size: 27 Copynumber: 1.9 Consensus size: 27
35049291 TTATTTGTAA
*
35049301 AATTTAAAATATTAATATTTTATATAT
1 AATTTAAAATATTAATATTTAATATAT
35049328 AATTTAAACATTATT-ATA-TTAATAT
1 AATTTAAA-A-TATTAATATTTAATAT
35049353 TTTAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
27 14 0.64
28 4 0.18
29 4 0.18
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (27 bp):
AATTTAAAATATTAATATTTAATATAT
Found at i:35049380 original size:17 final size:16
Alignment explanation
Indices: 35049354--35049388 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
35049344 TATTAATATT
35049354 TTAAAATATATTAAAA
1 TTAAAATATATTAAAA
35049370 TTAATAATATATTAAAA
1 TTAA-AATATATTAAAA
35049387 TT
1 TT
35049389 TTAATGAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TTAAAATATATTAAAA
Found at i:35049381 original size:35 final size:35
Alignment explanation
Indices: 35049309--35049392 Score: 95
Period size: 35 Copynumber: 2.4 Consensus size: 35
35049299 AAAATTTAAA
*
35049309 ATATTAATATTTT-ATATATAATTTAAACATTATT
1 ATATTAATATTTTAAAATATAATTTAAACATTATT
35049343 ATATTAATATTTTAAAATAT-A-TTAAA-ATTAATAAT
1 ATATTAATATTTTAAAATATAATTTAAACATT-AT--T
*
35049378 ATATTAAAATTTTAA
1 ATATTAATATTTTAA
35049393 TGAGTATAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
32 3 0.07
33 7 0.16
34 14 0.32
35 20 0.45
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (35 bp):
ATATTAATATTTTAAAATATAATTTAAACATTATT
Found at i:35049505 original size:22 final size:22
Alignment explanation
Indices: 35049413--35049584 Score: 82
Period size: 27 Copynumber: 7.3 Consensus size: 22
35049403 GAAAAAATAA
* *
35049413 AAAATTATTAATATTTTAATCAT
1 AAAA-TATTAATATTTAAATTAT
*
35049436 AATAATACTAA-A-TTATAA--AT
1 AA-AATATTAATATTTA-AATTAT
*
35049456 AAAATATTAATAATTAAATTATACT
1 AAAATATTAATATTTAAA-T-TA-T
35049481 AAAATATTAATATTTAAATTAT
1 AAAATATTAATATTTAAATTAT
* *
35049503 AAATTATAAATATTTTAATTAAATTAT
1 AAAATATTAATA---T--TTAAATTAT
*
35049530 AAATTATTAATATTTTAATTAAATTAT
1 AAAATATTAATA---T--TTAAATTAT
* **
35049557 AAATTATTAATATTTAAAAAAT
1 AAAATATTAATATTTAAATTAT
35049579 AAAATA
1 AAAATA
35049585 AAAATAAATA
Statistics
Matches: 125, Mismatches: 10, Indels: 29
0.76 0.06 0.18
Matches are distributed among these distances:
19 7 0.06
20 7 0.06
21 5 0.04
22 26 0.21
23 9 0.07
24 5 0.04
25 19 0.15
27 47 0.38
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
AAAATATTAATATTTAAATTAT
Found at i:35049530 original size:27 final size:27
Alignment explanation
Indices: 35049444--35049571 Score: 149
Period size: 27 Copynumber: 4.9 Consensus size: 27
35049434 ATAATAATAC
*
35049444 TAAATTATAAA-TA-AAATATTAATAAT
1 TAAATTATAAATTATAAATATT-TTAAT
* * *
35049470 TAAATTAT--ACTA-AAATATTAATATT
1 TAAATTATAAATTATAAATATT-TTAAT
35049495 TAAATTATAAATTATAAATATTTTAAT
1 TAAATTATAAATTATAAATATTTTAAT
*
35049522 TAAATTATAAATTATTAATATTTTAAT
1 TAAATTATAAATTATAAATATTTTAAT
*
35049549 TAAATTATAAATTATTAATATTT
1 TAAATTATAAATTATAAATATTT
35049572 AAAAAATAAA
Statistics
Matches: 93, Mismatches: 5, Indels: 7
0.89 0.05 0.07
Matches are distributed among these distances:
24 1 0.01
25 22 0.24
26 8 0.09
27 55 0.59
28 7 0.08
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (27 bp):
TAAATTATAAATTATAAATATTTTAAT
Found at i:35049556 original size:47 final size:53
Alignment explanation
Indices: 35049444--35049574 Score: 161
Period size: 49 Copynumber: 2.6 Consensus size: 53
35049434 ATAATAATAC
35049444 TAAATTATAAA-TA-AAATATTAATAATTAAATTATACTAAAATATTAATATT
1 TAAATTATAAATTATAAATATTAATAATTAAATTATACTAAAATATTAATATT
* *
35049495 TAAATTATAAATTATAAATATT-TTAATTAAA-T-TA-TAAATTATTAATATT
1 TAAATTATAAATTATAAATATTAATAATTAAATTATACTAAAATATTAATATT
* *
35049544 TTAA-T-TAAATTATAAATTATTAATATTTAAA
1 TAAATTATAAATTATAAA-TATTAATAATTAAA
35049575 AAATAAAATA
Statistics
Matches: 71, Mismatches: 5, Indels: 10
0.83 0.06 0.12
Matches are distributed among these distances:
47 11 0.15
48 5 0.07
49 24 0.34
50 2 0.03
51 12 0.17
52 10 0.14
53 7 0.10
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (53 bp):
TAAATTATAAATTATAAATATTAATAATTAAATTATACTAAAATATTAATATT
Found at i:35049586 original size:27 final size:27
Alignment explanation
Indices: 35049496--35049580 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 27
35049486 ATTAATATTT
* * *
35049496 AAATTATAAATTATAAATATTTTAATT
1 AAATAATAAATTATTAATATTTTAATA
* *
35049523 AAATTATAAATTATTAATATTTTAATT
1 AAATAATAAATTATTAATATTTTAATA
*
35049550 AAATTATAAATTATTAATA-TTTAA-A
1 AAATAATAAATTATTAATATTTTAATA
35049575 AAATAA
1 AAATAA
35049581 AATAAAAATA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
25 5 0.09
26 5 0.09
27 45 0.82
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
AAATAATAAATTATTAATATTTTAATA
Found at i:35050105 original size:21 final size:23
Alignment explanation
Indices: 35050065--35050107 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
35050055 AATTATGGCA
35050065 AATACAATTAATCAAGTGTCAAG
1 AATACAATTAATCAAGTGTCAAG
*
35050088 AATAC-ATTGATC-AGTGTCAA
1 AATACAATTAATCAAGTGTCAA
35050108 AAAGATAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 6 0.32
23 5 0.26
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (23 bp):
AATACAATTAATCAAGTGTCAAG
Found at i:35056508 original size:14 final size:14
Alignment explanation
Indices: 35056470--35056500 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
35056460 AGAAATAAAG
35056470 AAATAAAAATTGAAA
1 AAATAAAAA-TGAAA
35056485 AAATAAAAATGAAA
1 AAATAAAAATGAAA
35056499 AA
1 AA
35056501 GTGAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.16
Consensus pattern (14 bp):
AAATAAAAATGAAA
Found at i:35061237 original size:356 final size:347
Alignment explanation
Indices: 35060579--35061317 Score: 890
Period size: 356 Copynumber: 2.1 Consensus size: 347
35060569 TTGAAGAAGT
* * * * ** * *
35060579 TGTATTTTATTTGA-AAAAATGGGTTCACACTTTTGTGCGGAGTAGTTTTTGTGCTAGAAGGTCT
1 TGTATTATATTTGAGAAAAATGGGTTCACACTTATGTGCAGAGCAACTTTTGTGCTAAAAGCTCT
* ** * *
35060643 ACTGTTTAGAGAATTGAAAGTTTGAACAAGTATTTCAAAAATTATGTCAATTTCAACATAATGAT
66 ACTATTTAGAGAAACGAAAGTTTGAACAAGTATTTCAAAAATTATGTCAATTTCAACACAAAGAT
* * * *
35060708 AAATAAGTATCTGATCCAATATAAAAAGGCTATATACAATAAAGAAAATGGAAAAATTTTCAAAA
131 AAATAAGTATCTAATCCAATATAAAAAGCCTATATACAATAAAGAAAAAGAAAAAATTTTCAAAA
* * * *
35060773 TAATGAATTCAAAGTCAAATTTGAGAACATTATATCCAATGAAAAAAAAAAAGCTTTAAAGGTGT
196 CAATGAATTCAAAGTCAAATTTAAAAACATTATATCCAATGAAAAAAAAAAAGCTTCAAAGGTGT
* * * ** * * * *
35060838 ACACAAGAAATATGTTTAGAAAATTTTAAGGTGAGTTAATTCATTTTCAACAATATATTGAAGAA
261 ACACAAAAAATATATTTAGAAAATTTCAACATAAGTTAATTCATTCTCAACAATACATGGAAGAA
*
35060903 ATTATTGTTGCAAATGAGCATG
326 AATATTGTTGCAAATGAGCATG
* *
35060925 TGTATTCTATTTGAGAAAAATGGGTTCACACTTATGTGCAGAGCAACTTTTGTGCTAAAATCTCT
1 TGTATTATATTTGAGAAAAATGGGTTCACACTTATGTGCAGAGCAACTTTTGTGCTAAAAGCTCT
* * *
35060990 ACTATTTAGAGAAACGAAAGTTTGAACAAGTATTTCAAAATTTATGTCAATTTGAGCACAAAGAT
66 ACTATTTAGAGAAACGAAAGTTTGAACAAGTATTTCAAAAATTATGTCAATTTCAACACAAAGAT
* * * * *
35061055 GAATAAGTTTTTAATTCAATATTAGAAAGCCCTCGATGCAAGATACAATAAA-AAAAAGAAGAAA
131 AAATAAGTATCTAATCCAATA-TAAAAAG-CCT--AT-----ATACAATAAAGAAAAAGAA-AAA
* * * *
35061119 ATTTTCAAAACACT-ATATTCAAAGTCGATTTTAAAAACATTGTATCCAATGAAAAAAAAAAAGC
186 ATTTTCAAAACAATGA-ATTCAAAGTCAAATTTAAAAACATTATATCCAATGAAAAAAAAAAAGC
*
35061183 TTCAAAGGTGTACACAAAAAATATATTTAGAAACTTTCAACATAAGTTAATTCATTCTCAACAAT
250 TTCAAAGGTGTACACAAAAAATATATTTAGAAAATTTCAACATAAGTTAATTCATTCTCAACAAT
*
35061248 ACGTGGAAGAAAATATTGTTGCAAATGAGCATG
315 ACATGGAAGAAAATATTGTTGCAAATGAGCATG
* * * * *
35061281 TATATTATATTCGAGAAAAATAGATTCACGCTTATGT
1 TGTATTATATTTGAGAAAAATGGGTTCACACTTATGT
35061318 ACAGTGTTAT
Statistics
Matches: 329, Mismatches: 52, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
346 13 0.04
347 115 0.35
348 6 0.02
349 2 0.01
351 2 0.01
355 7 0.02
356 184 0.56
ACGTcount: A:0.42, C:0.11, G:0.15, T:0.32
Consensus pattern (347 bp):
TGTATTATATTTGAGAAAAATGGGTTCACACTTATGTGCAGAGCAACTTTTGTGCTAAAAGCTCT
ACTATTTAGAGAAACGAAAGTTTGAACAAGTATTTCAAAAATTATGTCAATTTCAACACAAAGAT
AAATAAGTATCTAATCCAATATAAAAAGCCTATATACAATAAAGAAAAAGAAAAAATTTTCAAAA
CAATGAATTCAAAGTCAAATTTAAAAACATTATATCCAATGAAAAAAAAAAAGCTTCAAAGGTGT
ACACAAAAAATATATTTAGAAAATTTCAACATAAGTTAATTCATTCTCAACAATACATGGAAGAA
AATATTGTTGCAAATGAGCATG
Found at i:35062069 original size:355 final size:354
Alignment explanation
Indices: 35061326--35062077 Score: 879
Period size: 355 Copynumber: 2.1 Consensus size: 354
35061316 GTACAGTGTT
* * * *
35061326 ATAATATGTTGAAGAAAGAATTATTGCAAATGAGCTTGTATATTCTATTTGAGAAATATAAGTGC
1 ATAATATGTTGAAGAAA-AATTATTGCAAATGAGCATGTGTATCCTATTCGAGAAATATAAGTGC
* * *
35061391 ACGCTTATGTGCAAAGCAACTTTTATGCTAGATTGTCCATTACTTAGAAAATTGAAAGTTTAAAC
65 ACGCTTATGTGCAAAGCAACTTTTATGCTAGAATGTCCACTACTTAGAAAAATGAAAGTTTAAAC
** * *
35061456 AAGTATTTCCAAGAATATGTCAATTCAAGCACACCCATGAGTAAGTTTTTGATTCAATATGATAA
130 AAGTATTTAAAAGAATATGCCAATTCAAGCACACCCATGAGTAAGTTTTTGATTCAATATGAAAA
**** * ** *
35061521 GGTTCTTGATGCAAGATATGATAAAGAAAAGAAGAAAATTTTCAAAACAATGAATTCAAAGCCAA
195 AACCCTCGATGCAAGATAAAATAAAGAAAAGAAGAAAATTTTCAAAACAATGAATTCAAAACCAA
*
35061586 TTTTGAAGACATTGTATCTAATGAAAAAAAAAAAGCTTCAAAGGATACACAAGAAAAATGTTCAA
260 TTTTAAAGACATTGTATCTAATGAAAAAAAAAAAGCTTCAAAGGATACACAAGAAAAATGTTCAA
35061651 AAAATTTCAAAATGAGTTAATACATTCTCA
325 AAAATTTCAAAATGAGTTAATACATTCTCA
* * * * ** *
35061681 ACAGTATGTTGAAGAAAAGATCATTGTAAATGAGCATGTGTATCCTATTCGAGAAA-AGTGGGTT
1 ATAATATGTTGAAGAAAA-ATTATTGCAAATGAGCATGTGTATCCTATTCGAGAAATA-TAAGTG
* ** * * * * *
35061745 CACGTTTATGTGCGGAGCAGCTTTTGTGCTAGAATGTCTACTA-TTTGAAAAAATGAAAGTTTGA
64 CACGCTTATGTGCAAAGCAACTTTTATGCTAGAATGTCCACTACTTAG-AAAAATGAAAGTTTAA
* * * * ***
35061809 ACTAGTATTTAAAAGATTATGCCAATTCGAGCATATTGATGAGTAAGTTTTTGATTCAATATGAA
128 ACAAGTATTTAAAAGAATATGCCAATTCAAGCACACCCATGAGTAAGTTTTTGATTCAATATGAA
*
35061874 AAAACCCTCGATGCAAGATAAAATAAAGAAAA-AGAGAAAGA-TTTCAAAATAATGAATTCAAAA
193 AAAACCCTCGATGCAAGATAAAATAAAGAAAAGA-AGAAA-ATTTTCAAAACAATGAATTCAAAA
* * * * *
35061937 CCAATTTTAAAGATATTGTAT-TCAATG-AAAAAAAAAAGCTTTGAAAGTATATA-AGAGAAAGA
256 CCAATTTTAAAGACATTGTATCT-AATGAAAAAAAAAAAGC-TTCAAAGGATACACA-AGAAAAA
* * *
35061999 TGTTTAGAAAATTTCAAAATGAGTTAATTCATTCTCA
318 TGTTCAAAAAATTTCAAAATGAGTTAATACATTCTCA
* * *
35062036 ATAATATGTTGAAGAACATATTGTTGCAAATGAGTATGTGTA
1 ATAATATGTTGAAGAA-AAATTATTGCAAATGAGCATGTGTA
35062078 CAAAATAGAG
Statistics
Matches: 330, Mismatches: 58, Indels: 18
0.81 0.14 0.04
Matches are distributed among these distances:
354 20 0.06
355 308 0.93
356 2 0.01
ACGTcount: A:0.42, C:0.11, G:0.17, T:0.31
Consensus pattern (354 bp):
ATAATATGTTGAAGAAAAATTATTGCAAATGAGCATGTGTATCCTATTCGAGAAATATAAGTGCA
CGCTTATGTGCAAAGCAACTTTTATGCTAGAATGTCCACTACTTAGAAAAATGAAAGTTTAAACA
AGTATTTAAAAGAATATGCCAATTCAAGCACACCCATGAGTAAGTTTTTGATTCAATATGAAAAA
ACCCTCGATGCAAGATAAAATAAAGAAAAGAAGAAAATTTTCAAAACAATGAATTCAAAACCAAT
TTTAAAGACATTGTATCTAATGAAAAAAAAAAAGCTTCAAAGGATACACAAGAAAAATGTTCAAA
AAATTTCAAAATGAGTTAATACATTCTCA
Found at i:35063368 original size:25 final size:24
Alignment explanation
Indices: 35063333--35063393 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 24
35063323 AGAATATATC
35063333 ATTTTATTAATCATCATGACTTTTAT
1 ATTTT-TTAATCATCATGA-TTTTAT
* * *
35063359 ATTTTTTAATTATCTTTATTTTAT
1 ATTTTTTAATCATCATGATTTTAT
35063383 ATATTTTTAAT
1 AT-TTTTTAAT
35063394 ATAATTAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 8 0.26
25 18 0.58
26 5 0.16
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.62
Consensus pattern (24 bp):
ATTTTTTAATCATCATGATTTTAT
Found at i:35067321 original size:25 final size:25
Alignment explanation
Indices: 35067263--35067324 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
35067253 AATAAACGTG
*
35067263 ATTATAGGAATTAGAAATCACCATA
1 ATTATAGGGATTAGAAATCACCATA
*
35067288 ATTATAGGGATTA-AGAATCATCATA
1 ATTATAGGGATTAGA-AATCACCATA
35067313 ATTATAGGGATT
1 ATTATAGGGATT
35067325 TTATTTTCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
24 1 0.03
25 33 0.97
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (25 bp):
ATTATAGGGATTAGAAATCACCATA
Found at i:35071860 original size:23 final size:23
Alignment explanation
Indices: 35071829--35071875 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
35071819 ACCATAATTA
35071829 TAGGAATTTTATTTTCTTTATTC
1 TAGGAATTTTATTTTCTTTATTC
*
35071852 TAGGGATTTTATTTTCTTTATTC
1 TAGGAATTTTATTTTCTTTATTC
35071875 T
1 T
35071876 TTTCCTATTT
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:0.19, C:0.09, G:0.11, T:0.62
Consensus pattern (23 bp):
TAGGAATTTTATTTTCTTTATTC
Found at i:35075148 original size:19 final size:19
Alignment explanation
Indices: 35075109--35075156 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
35075099 TTTAATAATA
35075109 ATTTTTTTTATGGATTATTT
1 ATTTTTTTTAT-GATTATTT
*
35075129 ATTATTTTTTAT-ATTTTTT
1 ATT-TTTTTTATGATTATTT
35075148 ATTTTTTTT
1 ATTTTTTTT
35075157 GTTTTCTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 6 0.23
19 9 0.35
20 3 0.12
21 8 0.31
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (19 bp):
ATTTTTTTTATGATTATTT
Found at i:35075161 original size:16 final size:16
Alignment explanation
Indices: 35075124--35075154 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35075114 TTTTATGGAT
*
35075124 TATTTATTATTTTTTA
1 TATTTTTTATTTTTTA
35075140 TATTTTTTATTTTTT
1 TATTTTTTATTTTTT
35075155 TTGTTTTCTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (16 bp):
TATTTTTTATTTTTTA
Found at i:35076075 original size:14 final size:14
Alignment explanation
Indices: 35076056--35076133 Score: 70
Period size: 15 Copynumber: 5.3 Consensus size: 14
35076046 CTCCTTTCTC
*
35076056 CTTTTTCTTTTTTT
1 CTTTTTCTTTCTTT
35076070 CTTTTTTCTTTCTTT
1 C-TTTTTCTTTCTTT
35076085 C--TTTCATTTCCTTTCT
1 CTTTTTC-TTT-C-TT-T
35076101 CTTTCTTCTTTCTTT
1 CTTT-TTCTTTCTTT
*
35076116 CATTTTCTTTCTTT
1 CTTTTTCTTTCTTT
35076130 CTTT
1 CTTT
35076134 CTCTCCTAGC
Statistics
Matches: 53, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
12 4 0.08
13 3 0.06
14 15 0.28
15 19 0.36
16 4 0.08
17 1 0.02
18 4 0.08
19 3 0.06
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (14 bp):
CTTTTTCTTTCTTT
Found at i:35076083 original size:4 final size:4
Alignment explanation
Indices: 35076059--35076135 Score: 81
Period size: 4 Copynumber: 19.2 Consensus size: 4
35076049 CTTTCTCCTT
*
35076059 TTTC TTTT TTTC TTT- TTTC TTTC TTTC TTTC ATTTCC TTTC --TC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC -TTT-C TTTC TTTC TTTC
35076106 -TTC TTTC TTTC ATTTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC --TTTC TTTC TTTC TTTC T
35076136 CTCCTAGCCG
Statistics
Matches: 63, Mismatches: 2, Indels: 16
0.78 0.02 0.20
Matches are distributed among these distances:
2 2 0.03
3 6 0.10
4 44 0.70
5 6 0.10
6 5 0.08
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTC
Found at i:35076109 original size:27 final size:28
Alignment explanation
Indices: 35076074--35076135 Score: 94
Period size: 27 Copynumber: 2.3 Consensus size: 28
35076064 TTTTTTCTTT
35076074 TTTCTTTCTTTCTTTCATTTCCTTTCTC
1 TTTCTTTCTTTCTTTCATTTCCTTTCTC
*
35076102 TTTC-TTCTTTCTTTCATTTTC-TT-TC
1 TTTCTTTCTTTCTTTCATTTCCTTTCTC
35076127 TTTCTTTCT
1 TTTCTTTCT
35076136 CTCCTAGCCG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 6 0.19
26 6 0.19
27 16 0.50
28 4 0.12
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (28 bp):
TTTCTTTCTTTCTTTCATTTCCTTTCTC
Found at i:35076113 original size:35 final size:34
Alignment explanation
Indices: 35076059--35076137 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 34
35076049 CTTTCTCCTT
*
35076059 TTTCTTT-T-TTTCTTTTTTCTTTC-TTTCTTTC
1 TTTCTTTCTCTTTCTTCTTTCTTTCATTTCTTTC
35076090 ATTTCCTTTCTCTTTCTTCTTTCTTTCATTTTCTTTC
1 -TTT-CTTTCTCTTTCTTCTTTCTTTCA-TTTCTTTC
35076127 TTTCTTTCTCT
1 TTTCTTTCTCT
35076138 CCTAGCCGCT
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
32 3 0.07
33 4 0.10
34 1 0.02
35 22 0.54
36 3 0.07
37 8 0.20
ACGTcount: A:0.03, C:0.24, G:0.00, T:0.73
Consensus pattern (34 bp):
TTTCTTTCTCTTTCTTCTTTCTTTCATTTCTTTC
Found at i:35076130 original size:31 final size:30
Alignment explanation
Indices: 35076058--35076131 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 30
35076048 CCTTTCTCCT
*
35076058 TTTTCTTT-TTT-TCTTTTTTCTTTCTTTC
1 TTTTCTTTCTTTCTCTTTCTTCTTTCTTTC
35076086 -TTTCATTTCCTTTCTCTTTCTTCTTTCTTTC
1 TTTTC-TTT-CTTTCTCTTTCTTCTTTCTTTC
35076117 ATTTTCTTTCTTTCT
1 -TTTTCTTTCTTTCT
35076132 TTCTCTCCTA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
27 4 0.10
28 3 0.08
30 3 0.08
31 22 0.56
32 3 0.08
33 4 0.10
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (30 bp):
TTTTCTTTCTTTCTCTTTCTTCTTTCTTTC
Found at i:35076132 original size:45 final size:46
Alignment explanation
Indices: 35076047--35076134 Score: 135
Period size: 45 Copynumber: 1.9 Consensus size: 46
35076037 ACCCCCCACC
* *
35076047 TCCTTTCTCCTTTTTCTTTTTTTCTTTTTTCTTTCTTTCTTTCATT
1 TCCTTTCTCCTTTTTCTTTCTTTCTATTTTCTTTCTTTCTTTCATT
35076093 TCCTTTCT-CTTTCTTCTTTCTTTC-ATTTTCTTTCTTTCTTTC
1 TCCTTTCTCCTTT-TTCTTTCTTTCTATTTTCTTTCTTTCTTTC
35076135 TCTCCTAGCC
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
45 21 0.54
46 18 0.46
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (46 bp):
TCCTTTCTCCTTTTTCTTTCTTTCTATTTTCTTTCTTTCTTTCATT
Found at i:35076178 original size:11 final size:11
Alignment explanation
Indices: 35076164--35076198 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
35076154 TTCTTATCTC
35076164 TTTCTTTTTCT
1 TTTCTTTTTCT
*
35076175 TTTCTCTTTCT
1 TTTCTTTTTCT
*
35076186 TTTTTTTTTCT
1 TTTCTTTTTCT
35076197 TT
1 TT
35076199 CTTCTCATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTCTTTTTCT
Found at i:35076180 original size:17 final size:17
Alignment explanation
Indices: 35076154--35076201 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
35076144 CGCTCCCCCC
*
35076154 TTCTTATCTCTTTCTTT
1 TTCTTTTCTCTTTCTTT
35076171 TTCTTTTCTCTTTCTTT
1 TTCTTTTCTCTTTCTTT
35076188 TT-TTTT-TCTTTCTT
1 TTCTTTTCTCTTTCTT
35076202 CTCATTTCTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 4 0.13
17 18 0.60
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (17 bp):
TTCTTTTCTCTTTCTTT
Found at i:35076668 original size:20 final size:19
Alignment explanation
Indices: 35076609--35076691 Score: 55
Period size: 21 Copynumber: 4.2 Consensus size: 19
35076599 TTTTTTTTTT
*
35076609 TTTTAA-TTTTTTATTATT
1 TTTTAATTTTTTTATTATA
*
35076627 TTCTTTATTTATTTT-TCATATA
1 TT-TTAATTT-TTTTAT--TATA
*
35076649 TTTTATTTTGTTTTATTATAA
1 TTTTAATTT-TTTTATTAT-A
*
35076670 TTTAAATTTTTTTATT-TA
1 TTTTAATTTTTTTATTATA
35076688 TTTT
1 TTTT
35076692 TTTAGGTGTC
Statistics
Matches: 50, Mismatches: 8, Indels: 14
0.69 0.11 0.19
Matches are distributed among these distances:
18 6 0.12
19 4 0.08
20 13 0.26
21 21 0.42
22 6 0.12
ACGTcount: A:0.23, C:0.02, G:0.01, T:0.73
Consensus pattern (19 bp):
TTTTAATTTTTTTATTATA
Found at i:35076988 original size:62 final size:61
Alignment explanation
Indices: 35076897--35077249 Score: 392
Period size: 62 Copynumber: 5.9 Consensus size: 61
35076887 AACAAATTCG
* * *
35076897 ATTAAAATTCTTAGACTTAATCTTGGCTCGACCTATCTCACAACAGGTTTGATTTAAACAAA
1 ATTAAATTTC-TAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAA
* * * * * * *
35076959 ATTGAAATTTCTAAACTGAATCTAGGCTCGACCCATATTAGAACA------AATT---C--A
1 ATT-AAATTTCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAA
* * *
35077010 ATTAAAATTCTTAGATTTAATCTAGGCTCGACCTATCTCACAACAGATTCGATTTAAACAAA
1 ATTAAATTTC-TAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAA
*
35077072 ATTAACATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAA
1 ATTAA-ATTTCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAA
* *
35077134 ATTAAAATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAAGTTCGATTT--A-AAA
1 ATT-AAATTTCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAA
* *
35077193 ATTAAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCACAATAGGTTTGATTTAA
1 ATT-AAATTTCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAA
35077250 TTCTTTAATG
Statistics
Matches: 247, Mismatches: 27, Indels: 35
0.80 0.09 0.11
Matches are distributed among these distances:
50 6 0.02
51 31 0.13
53 1 0.00
56 3 0.01
57 3 0.01
59 54 0.22
60 2 0.01
62 136 0.55
63 11 0.04
ACGTcount: A:0.37, C:0.20, G:0.11, T:0.32
Consensus pattern (61 bp):
ATTAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAA
Found at i:35077006 original size:113 final size:113
Alignment explanation
Indices: 35076803--35077225 Score: 460
Period size: 113 Copynumber: 3.7 Consensus size: 113
35076793 AATCAATTCG
** * * * *
35076803 ATCTAGGCTCGATTTATCTCAAAATAAGTTCGATTTAAACAAAAATGAAATTTCTAGACTTG-AT
1 ATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATTGAAATTTCTAGAC-TGAAT
* * * *
35076867 CTGGGCTTGACCCATGTTAGAACAAATTCGATTAAAATTCTTAGACTTA
65 CTAGGCTCGACCCATATTAGAACAAATTCAATTAAAATTCTTAGACTTA
* * *
35076916 ATCTTGGCTCGACCTATCTCACAACAGGTTTGATTTAAACAAAATTGAAATTTCTAAACTGAATC
1 ATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATTGAAATTTCTAGACTGAATC
*
35076981 TAGGCTCGACCCATATTAGAACAAATTCAATTAAAATTCTTAGATTTA
66 TAGGCTCGACCCATATTAGAACAAATTCAATTAAAATTCTTAGACTTA
* * *
35077029 ATCTAGGCTCGACCTATCTCACAACAGATTCGATTTAAACAAAATT-AACATTCCTAGACTTAAT
1 ATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATTGAA-ATTTCTAGACTGAAT
* * * * * *
35077093 CTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATTAAAATTCCTAGACTTA
65 CTAGGCTCGACCCATATTAGAACA------AATT---C--AATTAAAATTCTTAGACTTA
* * *
35077153 ATCTAGGCTCGACCTATCTCACAACAAGTTCGATTT--A-AAAATTAAAATTTCTAGACTTAATC
1 ATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATTGAAATTTCTAGACTGAATC
35077215 TAGGCTCGACC
66 TAGGCTCGACC
35077226 TATCTCACAA
Statistics
Matches: 266, Mismatches: 30, Indels: 20
0.84 0.09 0.06
Matches are distributed among these distances:
112 4 0.02
113 171 0.64
119 3 0.01
121 32 0.12
122 4 0.02
124 52 0.20
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.31
Consensus pattern (113 bp):
ATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAAAATTGAAATTTCTAGACTGAATC
TAGGCTCGACCCATATTAGAACAAATTCAATTAAAATTCTTAGACTTA
Found at i:35077247 original size:121 final size:123
Alignment explanation
Indices: 35077009--35077249 Score: 389
Period size: 121 Copynumber: 2.0 Consensus size: 123
35076999 GAACAAATTC
* *
35077009 AATTAAAATTCTTAGATTTAATCTAGGCTCGACCTATCTCACAACAGATTCGATTTAAACAAAAT
1 AATTAAAATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGATTCGATTT-AACAAAAT
*
35077074 TAACATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAA
65 TAAAATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAA
35077133 AATTAAAATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACA-AGTTCGATTT-A-AAAAT
1 AATTAAAATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGA-TTCGATTTAACAAAAT
* * *
35077195 TAAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCACAATAGGTTTGATTTAA
65 TAAAATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAA
35077250 TTCTTTAATG
Statistics
Matches: 110, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
121 56 0.51
122 1 0.01
123 1 0.01
124 52 0.47
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.32
Consensus pattern (123 bp):
AATTAAAATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGATTCGATTTAACAAAATT
AAAATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCGATTTAAACAA
Found at i:35093259 original size:14 final size:14
Alignment explanation
Indices: 35093232--35093279 Score: 55
Period size: 13 Copynumber: 3.4 Consensus size: 14
35093222 CTGGCCTCTC
35093232 CTTTCTTT-TTCCT
1 CTTTCTTTCTTCCT
35093245 CTTTCTTTCTTCCT
1 CTTTCTTTCTTCCT
*
35093259 CCTTCTCTTTC-TCTT
1 -CTT-TCTTTCTTCCT
35093274 CTTTCT
1 CTTTCT
35093280 CCCTGCCGGG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
13 11 0.35
14 8 0.26
15 6 0.19
16 6 0.19
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (14 bp):
CTTTCTTTCTTCCT
Found at i:35093281 original size:21 final size:20
Alignment explanation
Indices: 35093243--35093281 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
35093233 TTTCTTTTTC
35093243 CTCTTTCTTTCTTCCTCCTT
1 CTCTTTCTTTCTTCCTCCTT
*
35093263 CTCTTTCTCTTCTTTCTCC
1 CTCTTTCT-TTCTTCCTCC
35093282 CTGCCGGGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (20 bp):
CTCTTTCTTTCTTCCTCCTT
Found at i:35093692 original size:20 final size:19
Alignment explanation
Indices: 35093669--35093715 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
35093659 TTATTTTTCA
*
35093669 TATATTTTATTTTGTTTTAT
1 TATATTTTAATTT-TTTTAT
*
35093689 TATAATTTAAATTTTTTTAT
1 TAT-ATTTTAATTTTTTTAT
35093709 T-TATTTT
1 TATATTTT
35093716 TTTAGGTGTC
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 4 0.17
19 1 0.04
20 10 0.43
21 8 0.35
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (19 bp):
TATATTTTAATTTTTTTAT
Found at i:35097733 original size:81 final size:81
Alignment explanation
Indices: 35097614--35097775 Score: 308
Period size: 81 Copynumber: 2.0 Consensus size: 81
35097604 TTTTTTTTTT
35097614 CAATAATTTTCCTTCCTTTGTTGTTCTCTTCCCGAGATTGTCGACCTTATAAACCTCTTCACACC
1 CAATAATTTTCCTTCCTTTGTTGTTCTCTTCCCGAGATTGTCGACCTTATAAACCTCTTCACACC
35097679 AAAATTGGGGGTCTTG
66 AAAATTGGGGGTCTTG
35097695 NCAATAA-TTTCCTTCCTTTGTTGTTCTCTTCCCGAGATTGTCGACCTTATAAACCTCTTCACAC
1 -CAATAATTTTCCTTCCTTTGTTGTTCTCTTCCCGAGATTGTCGACCTTATAAACCTCTTCACAC
35097759 CAAAATTGGGGGTCTTG
65 CAAAATTGGGGGTCTTG
35097776 TTAATTGAAT
Statistics
Matches: 80, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
81 74 0.93
82 6 0.08
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (81 bp):
CAATAATTTTCCTTCCTTTGTTGTTCTCTTCCCGAGATTGTCGACCTTATAAACCTCTTCACACC
AAAATTGGGGGTCTTG
Found at i:35099328 original size:22 final size:22
Alignment explanation
Indices: 35099303--35099382 Score: 65
Period size: 22 Copynumber: 3.7 Consensus size: 22
35099293 TAATCACCGG
35099303 GTGACTAATTTTTAATCATTAC
1 GTGACTAATTTTTAATCATTAC
*** ** *
35099325 GTGA-TTGGTTTTAGGCATTAT
1 GTGACTAATTTTTAATCATTAC
*
35099346 GTGACTAATTTTT-ATACATTGC
1 GTGACTAATTTTTAAT-CATTAC
*
35099368 GTGACTGATTTTTAA
1 GTGACTAATTTTTAA
35099383 ACAATGCCTA
Statistics
Matches: 41, Mismatches: 14, Indels: 5
0.68 0.23 0.08
Matches are distributed among these distances:
21 15 0.37
22 25 0.61
23 1 0.02
ACGTcount: A:0.26, C:0.10, G:0.17, T:0.46
Consensus pattern (22 bp):
GTGACTAATTTTTAATCATTAC
Found at i:35099486 original size:26 final size:26
Alignment explanation
Indices: 35099412--35099717 Score: 198
Period size: 26 Copynumber: 12.7 Consensus size: 26
35099402 ATACCTTACG
*
35099412 AACTAGTCACGCAATGCCTTA-C--T
1 AACTAGTCACGCAATGCCTTATCAGA
* *
35099435 AACAAGTCACACAATGCC-TATC---
1 AACTAGTCACGCAATGCCTTATCAGA
* *
35099457 AACTAGTCATGCAATACCTTATCAGA
1 AACTAGTCACGCAATGCCTTATCAGA
*
35099483 AACTAGTCACGCAATGCCTTATCAAA
1 AACTAGTCACGCAATGCCTTATCAGA
35099509 AACTAGTCACGCAATGCC----CA-A
1 AACTAGTCACGCAATGCCTTATCAGA
*** * *
35099530 GGTTAGTTACGCAATGTC-TATC---
1 AACTAGTCACGCAATGCCTTATCAGA
*
35099552 AACTAGTCACGCAATACCTTATCAGA
1 AACTAGTCACGCAATGCCTTATCAGA
35099578 AACTAGTCACGCAATGCCTTATC-GAA
1 AACTAGTCACGCAATGCCTTATCAG-A
*
35099604 AACTAGTCACGCAA-----TATC-CA
1 AACTAGTCACGCAATGCCTTATCAGA
* *
35099624 AAGTGAGTCACGCAATGCC-TAT---T
1 AACT-AGTCACGCAATGCCTTATCAGA
* *
35099647 AATTAGTCACGCAATGCTTTATCAGA
1 AACTAGTCACGCAATGCCTTATCAGA
* * * *
35099673 AACTATTCACGAAATGTCTTATCAAA
1 AACTAGTCACGCAATGCCTTATCAGA
* *
35099699 AATTAGTCACGTAATGCCT
1 AACTAGTCACGCAATGCCT
35099718 AAAGTCAGTC
Statistics
Matches: 224, Mismatches: 37, Indels: 41
0.74 0.12 0.14
Matches are distributed among these distances:
20 4 0.02
21 28 0.12
22 43 0.19
23 31 0.14
24 1 0.00
25 4 0.02
26 113 0.50
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (26 bp):
AACTAGTCACGCAATGCCTTATCAGA
Found at i:35099559 original size:95 final size:95
Alignment explanation
Indices: 35099439--35099734 Score: 412
Period size: 95 Copynumber: 3.1 Consensus size: 95
35099429 CTTACTAACA
* *
35099439 AGTCACACAATGCCTATCAACTAGTCATGCAATACCTTATCAGAAACTAGTCACGCAATGCCTTA
1 AGTCACGCAATGCCTATCAACTAGTCACGCAATACCTTATCAGAAACTAGTCACGCAATGCCTTA
* *
35099504 TCAAAAACTAGTCACGCAATGCCCAAGGTT
66 TCAAAAACTAGTCACGCAATGCCCAAAGTC
* *
35099534 AGTTACGCAATGTCTATCAACTAGTCACGCAATACCTTATCAGAAACTAGTCACGCAATGCCTTA
1 AGTCACGCAATGCCTATCAACTAGTCACGCAATACCTTATCAGAAACTAGTCACGCAATGCCTTA
* ** *
35099599 TCGAAAACTAGTCACGCAATATCCAAAGTG
66 TCAAAAACTAGTCACGCAATGCCCAAAGTC
* * * * * * *
35099629 AGTCACGCAATGCCTATTAATTAGTCACGCAATGCTTTATCAGAAACTATTCACGAAATGTCTTA
1 AGTCACGCAATGCCTATCAACTAGTCACGCAATACCTTATCAGAAACTAGTCACGCAATGCCTTA
* * *
35099694 TCAAAAATTAGTCACGTAATGCCTAAAGTC
66 TCAAAAACTAGTCACGCAATGCCCAAAGTC
35099724 AGTCACGCAAT
1 AGTCACGCAAT
35099735 ATCCAAAGTC
Statistics
Matches: 176, Mismatches: 25, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
95 176 1.00
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (95 bp):
AGTCACGCAATGCCTATCAACTAGTCACGCAATACCTTATCAGAAACTAGTCACGCAATGCCTTA
TCAAAAACTAGTCACGCAATGCCCAAAGTC
Found at i:35119894 original size:62 final size:62
Alignment explanation
Indices: 35119788--35119971 Score: 210
Period size: 62 Copynumber: 3.0 Consensus size: 62
35119778 AGACATCATC
* * * * *
35119788 ACCTACTCGTGGAAATTTTCCACTTCACCATATATAAATCGGGGCTTCAACTCCCCCTTTTT
1 ACCTACTCGTGGAAATTATCCACGTCACCAAATATAAATCGGGGCTTCAAGTCCCCCTTTAT
** * * * *
35119850 ATTTACTCGTGGGAATTATCCACGTCACCAAATATAAGTGGGGGCTTTAAGTCCCCC--TAT
1 ACCTACTCGTGGAAATTATCCACGTCACCAAATATAAATCGGGGCTTCAAGTCCCCCTTTAT
* * * * *
35119910 ACCTACTCGTGGAAACTACCCACGCCACCCAATATAAATCGGGGCTTCAGGTCCCCCTTTAT
1 ACCTACTCGTGGAAATTATCCACGTCACCAAATATAAATCGGGGCTTCAAGTCCCCCTTTAT
35119972 TACAATCAAA
Statistics
Matches: 98, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
60 48 0.49
62 50 0.51
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.29
Consensus pattern (62 bp):
ACCTACTCGTGGAAATTATCCACGTCACCAAATATAAATCGGGGCTTCAAGTCCCCCTTTAT
Found at i:35119945 original size:60 final size:60
Alignment explanation
Indices: 35119788--35119967 Score: 171
Period size: 60 Copynumber: 3.0 Consensus size: 60
35119778 AGACATCATC
* ** ** * * *
35119788 ACCTACTCGTGGAAATTTTCCACTTCACCATATATAAATCGGGGCTTCAACTCCCCCTTTTT
1 ACCTACTCGTGGAAACTACCCACGCCACCAAATATAAATCGGGGCTTCAAGTCCCCC--TAT
** * * * * * * *
35119850 ATTTACTCGTGGGAATTATCCACGTCACCAAATATAAGTGGGGGCTTTAAGTCCCCCTAT
1 ACCTACTCGTGGAAACTACCCACGCCACCAAATATAAATCGGGGCTTCAAGTCCCCCTAT
* *
35119910 ACCTACTCGTGGAAACTACCCACGCCACCCAATATAAATCGGGGCTTCAGGTCCCCCT
1 ACCTACTCGTGGAAACTACCCACGCCACCAAATATAAATCGGGGCTTCAAGTCCCCCT
35119968 TTATTACAAT
Statistics
Matches: 96, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
60 49 0.51
62 47 0.49
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.28
Consensus pattern (60 bp):
ACCTACTCGTGGAAACTACCCACGCCACCAAATATAAATCGGGGCTTCAAGTCCCCCTAT
Found at i:35120650 original size:30 final size:30
Alignment explanation
Indices: 35120593--35120648 Score: 89
Period size: 28 Copynumber: 1.9 Consensus size: 30
35120583 ATTTATTTCT
35120593 TTCTCTTTCCTGCTTCTTCTTTTTTTTTAA
1 TTCTCTTTCCTGCTTCTTCTTTTTTTTTAA
*
35120623 TTCTCTTT-CT-CTTTTTCTTTTTTTTT
1 TTCTCTTTCCTGCTTCTTCTTTTTTTTT
35120649 TTCTTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 15 0.60
29 2 0.08
30 8 0.32
ACGTcount: A:0.04, C:0.21, G:0.02, T:0.73
Consensus pattern (30 bp):
TTCTCTTTCCTGCTTCTTCTTTTTTTTTAA
Found at i:35120711 original size:15 final size:15
Alignment explanation
Indices: 35120691--35120733 Score: 86
Period size: 15 Copynumber: 2.9 Consensus size: 15
35120681 TCCTTCTCTC
35120691 TTTCTTCTTCTTTTT
1 TTTCTTCTTCTTTTT
35120706 TTTCTTCTTCTTTTT
1 TTTCTTCTTCTTTTT
35120721 TTTCTTCTTCTTT
1 TTTCTTCTTCTTT
35120734 CCCTCTCCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTCTTCTTCTTTTT
Done.