Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold16
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: 5287347
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 8769 characters in sequence are not A, C, G, or T
File 4 of 35
Found at i:581743 original size:22 final size:22
Alignment explanation
Indices: 581718--581759 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
581708 ATTAAAAAAT
581718 TATTTTTAT-ATTAATATTTATA
1 TATTTTTATAATTAA-ATTTATA
581740 TATTTTTATAATTAAATTTA
1 TATTTTTATAATTAAATTTA
581760 AATAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTTTATAATTAAATTTATA
Found at i:585342 original size:177 final size:177
Alignment explanation
Indices: 585025--585382 Score: 438
Period size: 177 Copynumber: 2.0 Consensus size: 177
585015 CCATAATATT
* * **
585025 TAAGAAGATCATGAAAATAGGTAAACTTATATTGACTTTTAGAACTATGCTAAAAAACTTTGATA
1 TAAGAAGATCACGAAAATAGGTAAACTTATATTCACTTTTAGAACTATAATAAAAAACTTTGATA
* * * * *
585090 TGTTTGCTAAAATGTGTTAATGTCATAGTCGTGAAGGATATATATGCTTGGTAGACATAAGATTT
66 TGTTTACTAAAATGTGTCAATATCATAGTAGTAAAGGATATATA-GCTTGGTAGACATAAGATTT
* *
585155 CTTCTGAATAACATAAATCCAAGTATATCATGAAAAAACATTAATGAA
130 CTTATGAATAACATAAATCCAAGTATATCATGAAAAAACATAAATGAA
* **
585203 TAAGAAGGTCACGAAAATAGGTAGGCTTATATTCA-TCTTTAGAA-TCATAAT-AAAAACTTTGA
1 TAAGAAGATCACGAAAATAGGTAAACTTATATTCACT-TTTAGAACT-ATAATAAAAAACTTTGA
* *
585265 TATGTTTACTAAAATGTGTCAATATCATAGTAGTAAAGAGCATATATA-CTTGGT-GAACATCAT
64 TATGTTTACTAAAATGTGTCAATATCATAGTAGTAAAG-G-ATATATAGCTTGGTAG-ACATAAG
* * ** *
585328 ATTTTTTATGAATAACATAAATCTAAGTATATTGTGAAAAATCATAAATGAA
126 ATTTCTTATGAATAACATAAATCCAAGTATATCATGAAAAAACATAAATGAA
585380 TAA
1 TAA
585383 CACATAATAG
Statistics
Matches: 154, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
176 1 0.01
177 105 0.68
178 41 0.27
179 7 0.05
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.34
Consensus pattern (177 bp):
TAAGAAGATCACGAAAATAGGTAAACTTATATTCACTTTTAGAACTATAATAAAAAACTTTGATA
TGTTTACTAAAATGTGTCAATATCATAGTAGTAAAGGATATATAGCTTGGTAGACATAAGATTTC
TTATGAATAACATAAATCCAAGTATATCATGAAAAAACATAAATGAA
Found at i:587583 original size:19 final size:19
Alignment explanation
Indices: 587559--587614 Score: 76
Period size: 20 Copynumber: 2.9 Consensus size: 19
587549 TGTATCGATA
*
587559 CATTGTATTGATACATGTT
1 CATTGTATCGATACATGTT
*
587578 CATTGTATCGATACATACTT
1 CATTGTATCGATACAT-GTT
*
587598 AATTGTATCGATACATG
1 CATTGTATCGATACATG
587615 AAATTGGCAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (19 bp):
CATTGTATCGATACATGTT
Found at i:588810 original size:27 final size:28
Alignment explanation
Indices: 588756--588820 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 28
588746 AGAGTTTTTT
*
588756 ATAGAATTTTCAATTAAACTCTTTACAA
1 ATAGAATTTTCAATTAAACTCTTAACAA
*
588784 ATAGGATTTT-AATTAAACT-TTCAACAA
1 ATAGAATTTTCAATTAAACTCTT-AACAA
* *
588811 GTGGAATTTT
1 ATAGAATTTT
588821 AGATATTTAC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 2 0.06
27 20 0.65
28 9 0.29
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (28 bp):
ATAGAATTTTCAATTAAACTCTTAACAA
Found at i:590049 original size:147 final size:151
Alignment explanation
Indices: 589814--590193 Score: 393
Period size: 148 Copynumber: 2.5 Consensus size: 151
589804 TTTTCCTTTC
* * * * *
589814 ATTTCAAGTTTGATGATCTTAAGCTTTGGCTTAGGTGATTTGCTTGAGCTAAAGATTTTTAAACC
1 ATTTCAAGCTTGATGATCCTAAACTTTGGCTTAGGTGATTTGCTTAAGCTAAAGAGTTTTAAACC
* ** *
589879 TTTTTAGTGACCAAGCATGAGCAAAA-T-TTTT-TTTAATGTTTTTGGTAATTTATTTAATTTAT
66 TTTTTAGTGACCAAGCATAAGCAAAACTATTTTCTTTAATGTTCATGGTAAGTTATTTAATTTAT
589941 TATATTATTTACTTAGTTGAA
131 TATATTATTTACTTAGTTGAA
* * * *
589962 ATTTTAAGCTTGATGATCCTAAACTTTGGCTTAGGTGTTTTGTTTAAGCTAGAG-GTTTTAAACC
1 ATTTCAAGCTTGATGATCCTAAACTTTGGCTTAGGTGATTTGCTTAAGCTAAAGAGTTTTAAACC
* *
590026 TTTGTT-GTGGCCAAGCATAAGCAAAACTATTTTCTTTAATGTTCATGTTAAGTTATTTAATTTA
66 TTT-TTAGTGACCAAGCATAAGCAAAACTATTTTCTTTAATGTTCATGGTAAGTTATTTAATTTA
* * *
590090 CTACCA-TATTTACTTTAAGTTGTTA
130 TTA-TATTATTTAC-TT-AGTTG-AA
* * * * *
590115 ACTT-AAGGCTTGATAATCCTAAGA-TTGGGCTTAGGTGA-TTGCTTAAGTTAAAG-GTTCTTGA
1 ATTTCAA-GCTTGATGATCCTAA-ACTTTGGCTTAGGTGATTTGCTTAAGCTAAAGAGTT-TTAA
* *
590176 ACCTTTTTATTGGCCAAG
63 ACCTTTTTAGTGACCAAG
590194 GATGAGTAAA
Statistics
Matches: 193, Mismatches: 27, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
147 30 0.16
148 49 0.25
149 4 0.02
150 35 0.18
151 3 0.02
152 24 0.12
153 47 0.24
154 1 0.01
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (151 bp):
ATTTCAAGCTTGATGATCCTAAACTTTGGCTTAGGTGATTTGCTTAAGCTAAAGAGTTTTAAACC
TTTTTAGTGACCAAGCATAAGCAAAACTATTTTCTTTAATGTTCATGGTAAGTTATTTAATTTAT
TATATTATTTACTTAGTTGAA
Found at i:590240 original size:153 final size:147
Alignment explanation
Indices: 589823--590232 Score: 407
Period size: 153 Copynumber: 2.7 Consensus size: 147
589813 CATTTCAAGT
* * * *
589823 TTGATGATCTTAAGCTTTGGCTTAGGTGATTTGCTTGAGCTAAAGATTTTTAAACCTTTTTAGTG
1 TTGATGATCCTAAGATTTGGCTTAGGTGA-TTGCTTAAGCTAAAG-GTTTTAAACCTTTTTAGTG
* * * * *
589888 ACCAAGCATGAGCAAAA-TTTTTTTTAATGTTTTTGGTAATTTATTTAATTTATTATATTATTTA
64 GCCAAGCATGAGCAAAATTTTTTTTTAATGTTCTTGCTAATTTATTTAATTTACTACATTATTTA
*
589952 CTTAGTTGAAATTTTAAGC
129 CTTAGTTGAAATCTTAAGC
* * *
589971 TTGATGATCCTAA-ACTTTGGCTTAGGTGTTTTGTTTAAGCTAGAGGTTTTAAACCTTTGTT-GT
1 TTGATGATCCTAAGA-TTTGGCTTAGGTG-ATTGCTTAAGCTAAAGGTTTTAAACCTTT-TTAGT
* * * * *
590034 GGCCAAGCATAAGCAAAACTATTTTCTTTAATGTTCATGTTAAGTTATTTAATTTACTACCA-TA
63 GGCCAAGCATGAGCAAAA-T-TTTTTTTTAATGTTCTTGCTAATTTATTTAATTTACTA-CATTA
*
590098 TTTACTTTAAGTTGTTAA-CTTAAGGC
125 TTTAC-TT-AGTTG-AAATCTTAA-GC
* * * * *
590124 TTGATAATCCTAAGATTGGGCTTAGGTGATTGCTTAAGTTAAAGGTTCTTGAACCTTTTTATTGG
1 TTGATGATCCTAAGATTTGGCTTAGGTGATTGCTTAAGCTAAAGGTT-TTAAACCTTTTTAGTGG
* * *
590189 CCAAGGATGAGTAAAATGTTTCTTTTTAATGCTCTTGCTAATTT
65 CCAAGCATGAGCAAAAT-TTT-TTTTTAATGTTCTTGCTAATTT
590233 GTCTAATTAA
Statistics
Matches: 212, Mismatches: 35, Indels: 25
0.78 0.13 0.09
Matches are distributed among these distances:
147 30 0.14
148 39 0.18
150 39 0.18
151 3 0.01
152 30 0.14
153 70 0.33
154 1 0.00
ACGTcount: A:0.27, C:0.11, G:0.17, T:0.44
Consensus pattern (147 bp):
TTGATGATCCTAAGATTTGGCTTAGGTGATTGCTTAAGCTAAAGGTTTTAAACCTTTTTAGTGGC
CAAGCATGAGCAAAATTTTTTTTTAATGTTCTTGCTAATTTATTTAATTTACTACATTATTTACT
TAGTTGAAATCTTAAGC
Found at i:594249 original size:20 final size:21
Alignment explanation
Indices: 594210--594249 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
594200 TTAAGTATAG
594210 ATGTTTTTCAAGCATAAAAACA
1 ATGTTTTTCAAG-ATAAAAACA
594232 ATGTTTTTCAAG-TAAAAA
1 ATGTTTTTCAAGATAAAAA
594250 TAATTCAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
22 12 0.67
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (21 bp):
ATGTTTTTCAAGATAAAAACA
Found at i:594349 original size:21 final size:21
Alignment explanation
Indices: 594320--594360 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
594310 AAACGTTAAA
594320 ACCCTAGATTGTATCAATACAC
1 ACCCTAGA-TGTATCAATACAC
*
594342 ACCC-AGATGTATCGATACA
1 ACCCTAGATGTATCAATACA
594361 TATTGCTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
21 3 0.17
22 4 0.22
ACGTcount: A:0.37, C:0.27, G:0.12, T:0.24
Consensus pattern (21 bp):
ACCCTAGATGTATCAATACAC
Found at i:594388 original size:13 final size:13
Alignment explanation
Indices: 594370--594394 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
594360 ATATTGCTTA
594370 GTATCGATACATT
1 GTATCGATACATT
594383 GTATCGATACAT
1 GTATCGATACAT
594395 GTTCATTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:594391 original size:33 final size:32
Alignment explanation
Indices: 594349--594410 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
594339 CACACCCAGA
594349 TGTATCGATACATATTGC-TTAGTATCGATACAT
1 TGTATCGATACATATT-CATT-GTATCGATACAT
*
594382 TGTATCGATACATGTTCATTGTATCGATA
1 TGTATCGATACATATTCATTGTATCGATA
594411 TACCTTGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 10 0.37
33 17 0.63
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATATTCATTGTATCGATACAT
Found at i:594494 original size:20 final size:20
Alignment explanation
Indices: 594469--594506 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
594459 TTTGTATCGA
594469 TGAATTGTATCGATACATGG
1 TGAATTGTATCGATACATGG
594489 TGAATTGTATCGATACAT
1 TGAATTGTATCGATACAT
594507 TGAGCCTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.37
Consensus pattern (20 bp):
TGAATTGTATCGATACATGG
Found at i:595432 original size:90 final size:90
Alignment explanation
Indices: 595278--595446 Score: 243
Period size: 90 Copynumber: 1.9 Consensus size: 90
595268 TTTGAGCTAA
* *
595278 TAGAAATTTATGGAAGAACGGGGTTAGAGTATCCCTTCAGAGTAGTGGGGATGGAGTTTCCCCAA
1 TAGAAATTTATGGAAAAACGGGGTTAGAGTATCCCTTCAGAGTAGTGGAGATGGAGTTTCCCCAA
595343 -AGATAAAATTATACGAAGAGTAAAT
66 GA-ATAAAATTATACGAAGAGTAAAT
** * * *
595368 TAGAAATTTATGGAAAAATTGGGTTGGAGTATCCCCTT-GGAGTAGTGGAGATGGAGTTTTCCCA
1 TAGAAATTTATGGAAAAACGGGGTTAGAGTAT-CCCTTCAGAGTAGTGGAGATGGAGTTTCCCCA
595432 AGAATAAAATTATAC
65 AGAATAAAATTATAC
595447 AAAGGAAAAT
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
90 64 0.91
91 6 0.09
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.28
Consensus pattern (90 bp):
TAGAAATTTATGGAAAAACGGGGTTAGAGTATCCCTTCAGAGTAGTGGAGATGGAGTTTCCCCAA
GAATAAAATTATACGAAGAGTAAAT
Found at i:596039 original size:23 final size:24
Alignment explanation
Indices: 596002--596049 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
595992 TACCTTTTCG
*
596002 AAAAAAATTCATAAACTTTTTGAAA
1 AAAAAAATT-ATAAAATTTTTGAAA
596027 AAAAAAATT-TAAAATTTTTGAAA
1 AAAAAAATTATAAAATTTTTGAAA
596050 CATCATTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 13 0.59
25 9 0.41
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (24 bp):
AAAAAAATTATAAAATTTTTGAAA
Found at i:596045 original size:24 final size:24
Alignment explanation
Indices: 596002--596049 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
595992 TACCTTTTCG
596002 AAAAAAATTCATAAACTTTTTGAAA
1 AAAAAAATTCATAAA-TTTTTGAAA
*
596027 AAAAAAATTTA-AAATTTTTGAAA
1 AAAAAAATTCATAAATTTTTGAAA
596050 CATCATTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.41
24 3 0.14
25 10 0.45
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (24 bp):
AAAAAAATTCATAAATTTTTGAAA
Found at i:599101 original size:15 final size:14
Alignment explanation
Indices: 599078--599118 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
599068 GTTTTGGGAC
*
599078 AGAAAAAAAGAAGAA
1 AGAAGAAAA-AAGAA
599093 AGAAGAAAAAAGAA
1 AGAAGAAAAAAGAA
599107 AGGAAGAAAAAA
1 A-GAAGAAAAAA
599119 AGTACAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (14 bp):
AGAAGAAAAAAGAA
Found at i:599101 original size:18 final size:16
Alignment explanation
Indices: 599078--599120 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
599068 GTTTTGGGAC
599078 AGAAAAAAAGAAGAAAGA
1 AGAAAAAAAG-A-AAAGA
*
599096 AG-AAAAAAGAAAGGA
1 AGAAAAAAAGAAAAGA
599111 AGAAAAAAAG
1 AGAAAAAAAG
599121 TACAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 6 0.26
16 8 0.35
17 7 0.30
18 2 0.09
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (16 bp):
AGAAAAAAAGAAAAGA
Found at i:604242 original size:77 final size:77
Alignment explanation
Indices: 604011--604244 Score: 251
Period size: 77 Copynumber: 3.0 Consensus size: 77
604001 TTTAGTATCA
* * **
604011 CATT-AAACCGAGTCTTTAAGATCATATTAGCACTTTCATATTAAAATATGTGTCCATAGGCCAT
1 CATTAAAACTGAGTCCTTAAGATCATATTAGCACTTTCATATTAAAATA--TGTCCATAGATCAT
*
604075 TTTATTGATTTTTG
64 TTTAATGATTTTTG
* * * * * * *
604089 TATTAAAACTGAGT-CTTAAAGATTATATCAGCACTTTTATGTTGAAATATGTCTATAGAATCAT
1 CATTAAAACTGAGTCCTT-AAGATCATATTAGCACTTTCATATTAAAATATGTCCATAG-ATCAT
*
604153 TTTAAT-AATTTTG
64 TTTAATGATTTTTG
* *
604166 CATTAAAACTGAGTCCTTAAGATCATATTAGCAC-TTCATATCAAAATATGTCCATAAGATCGTT
1 CATTAAAACTGAGTCCTTAAGATCATATTAGCACTTTCATATTAAAATATGTCCAT-AGATCATT
*
604230 TTAGTGATTTTTG
65 TTAATGATTTTTG
604243 CA
1 CA
604245 AATAAATTGA
Statistics
Matches: 126, Mismatches: 24, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
76 25 0.20
77 51 0.40
78 16 0.13
79 34 0.27
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (77 bp):
CATTAAAACTGAGTCCTTAAGATCATATTAGCACTTTCATATTAAAATATGTCCATAGATCATTT
TAATGATTTTTG
Found at i:608524 original size:2 final size:2
Alignment explanation
Indices: 608517--608554 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
608507 CGGCGTGCCA
608517 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
608555 ACCAGTGTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:608723 original size:2 final size:2
Alignment explanation
Indices: 608716--608742 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
608706 AAACGATTAA
608716 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
608743 AAGTAGCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:609578 original size:12 final size:12
Alignment explanation
Indices: 609563--609597 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
609553 ATGAATATAC
609563 ATATATATTTTT
1 ATATATATTTTT
609575 ATATATATTTTT
1 ATATATATTTTT
*
609587 ACATA-ATTTTT
1 ATATATATTTTT
609598 TTATCCTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 6 0.27
12 16 0.73
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (12 bp):
ATATATATTTTT
Found at i:610156 original size:2 final size:2
Alignment explanation
Indices: 610149--610180 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
610139 TGTTTGAGTA
610149 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
610181 GCGTTTGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:610964 original size:2 final size:2
Alignment explanation
Indices: 610957--610982 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
610947 TAGCTGCTAC
610957 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
610983 CATACACGAA
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):
TA
Found at i:611069 original size:19 final size:21
Alignment explanation
Indices: 611021--611069 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
611011 GTGTAAATTA
*
611021 AATTATTTTTATAATATGTAT
1 AATTATTTATATAATATGTAT
611042 AAGTT-TTTATATAAT-T-TAT
1 AA-TTATTTATATAATATGTAT
611061 AATTATTTA
1 AATTATTTA
611070 ATCTTATGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 2 0.08
19 9 0.36
20 1 0.04
21 11 0.44
22 2 0.08
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (21 bp):
AATTATTTATATAATATGTAT
Found at i:611686 original size:5 final size:5
Alignment explanation
Indices: 611678--611702 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
611668 ATATGATTGA
611678 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
611703 GAATAAGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:612597 original size:3 final size:3
Alignment explanation
Indices: 612589--612622 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
612579 AACTAGATAG
612589 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
612623 CATAATAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:616604 original size:2 final size:2
Alignment explanation
Indices: 616597--616629 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
616587 CAAATATAAT
*
616597 TA TA TA TA TA TA TA TA GA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
616630 AAGCAATAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:617032 original size:44 final size:44
Alignment explanation
Indices: 616982--617083 Score: 177
Period size: 44 Copynumber: 2.3 Consensus size: 44
616972 TTAGATCTTA
616982 TAATCAAATTGGATCATATAATTAAGTTGGAGCTCTCCAGCCAT
1 TAATCAAATTGGATCATATAATTAAGTTGGAGCTCTCCAGCCAT
* *
617026 TAATCAAATTGGACCATATAATTAAGTTGGAGCTCTCCAGCTAT
1 TAATCAAATTGGATCATATAATTAAGTTGGAGCTCTCCAGCCAT
*
617070 TAATGAAATTGGAT
1 TAATCAAATTGGAT
617084 TTGGAGCTCT
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (44 bp):
TAATCAAATTGGATCATATAATTAAGTTGGAGCTCTCCAGCCAT
Found at i:619530 original size:2 final size:2
Alignment explanation
Indices: 619523--619556 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
619513 TAGATGGCAG
*
619523 CT CT CT CT CT CT CT CT CT CT CT CT CT CT TT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
619557 AATTGGCTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:620538 original size:21 final size:19
Alignment explanation
Indices: 620503--620555 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
620493 TTCTTTTATA
*
620503 TTTTTC-TACTTTTTTCTG
1 TTTTTCATATTTTTTTCTG
*
620521 ATTTTTCTTTATTTTTTTCTG
1 -TTTTTC-ATATTTTTTTCTG
620542 TTTTTCATATTTTT
1 TTTTTCATATTTTT
620556 CTTAATTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 13 0.43
20 6 0.20
21 11 0.37
ACGTcount: A:0.09, C:0.11, G:0.04, T:0.75
Consensus pattern (19 bp):
TTTTTCATATTTTTTTCTG
Found at i:620545 original size:29 final size:31
Alignment explanation
Indices: 620491--620576 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 31
620481 TTTGTTTGTG
620491 TTTTCTTTTATATTTTTCTACTTTTTTC-TGAT
1 TTTTC-TTTATATTTTTCTACTTTTTTCAT-AT
620523 TTTTCTTTAT-TTTTT-T-CTGTTTTTCATAT
1 TTTTCTTTATATTTTTCTACT-TTTTTCATAT
*
620552 TTTTC-TTA-ATTATTTCTAATTTTTT
1 TTTTCTTTATATT-TTTCTACTTTTTT
620577 TATTTTATAT
Statistics
Matches: 47, Mismatches: 1, Indels: 14
0.76 0.02 0.23
Matches are distributed among these distances:
28 7 0.15
29 17 0.36
30 12 0.26
31 6 0.13
32 5 0.11
ACGTcount: A:0.14, C:0.10, G:0.02, T:0.73
Consensus pattern (31 bp):
TTTTCTTTATATTTTTCTACTTTTTTCATAT
Found at i:620552 original size:19 final size:19
Alignment explanation
Indices: 620502--620577 Score: 66
Period size: 21 Copynumber: 3.8 Consensus size: 19
620492 TTTCTTTTAT
*
620502 ATTTTTCTACTTTTTTCTG
1 ATTTTTCTATTTTTTTCTG
620521 ATTTTTCTTTATTTTTTTCTG
1 ATTTTTC--TATTTTTTTCTG
* *
620542 -TTTTTC-ATATTTTTCTTA
1 ATTTTTCTATTTTTTTC-TG
620560 ATTATTTCTAATTTTTTT
1 ATT-TTTCT-ATTTTTTT
620578 ATTTTATATA
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
17 8 0.17
18 1 0.02
19 9 0.20
20 10 0.22
21 11 0.24
22 7 0.15
ACGTcount: A:0.14, C:0.11, G:0.03, T:0.72
Consensus pattern (19 bp):
ATTTTTCTATTTTTTTCTG
Found at i:620580 original size:28 final size:29
Alignment explanation
Indices: 620491--620582 Score: 73
Period size: 28 Copynumber: 3.1 Consensus size: 29
620481 TTTGTTTGTG
*
620491 TTTTCTTTTATATT-TTTCTACTTTTTTCTGAT
1 TTTTC-TTTA-ATTATTTCTAATTTTTT-T-AT
* * * *
620523 TTTTCTTTATTTTTTTCT-GTTTTTCATAT
1 TTTTCTTTAATTATTTCTAATTTTT-TTAT
620552 TTTTC-TTAATTATTTCTAATTTTTTTAT
1 TTTTCTTTAATTATTTCTAATTTTTTTAT
620580 TTT
1 TTT
620583 ATATAATTGC
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
28 16 0.32
29 12 0.24
30 8 0.16
31 9 0.18
32 5 0.10
ACGTcount: A:0.14, C:0.10, G:0.02, T:0.74
Consensus pattern (29 bp):
TTTTCTTTAATTATTTCTAATTTTTTTAT
Found at i:629288 original size:34 final size:34
Alignment explanation
Indices: 629248--629320 Score: 146
Period size: 34 Copynumber: 2.1 Consensus size: 34
629238 CTTCGACTTT
629248 AAAAAAATGATCAGGTGTTTAAGCTTCAACTTCA
1 AAAAAAATGATCAGGTGTTTAAGCTTCAACTTCA
629282 AAAAAAATGATCAGGTGTTTAAGCTTCAACTTCA
1 AAAAAAATGATCAGGTGTTTAAGCTTCAACTTCA
629316 AAAAA
1 AAAAA
629321 CTTTAAGTGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (34 bp):
AAAAAAATGATCAGGTGTTTAAGCTTCAACTTCA
Found at i:629319 original size:33 final size:33
Alignment explanation
Indices: 629238--629320 Score: 139
Period size: 34 Copynumber: 2.5 Consensus size: 33
629228 GGGTATTACA
* *
629238 CTTCGACTTTAAAAAAATGATCAGGTGTTTAAG
1 CTTCAACTTCAAAAAAATGATCAGGTGTTTAAG
629271 CTTCAACTTCAAAAAAAATGATCAGGTGTTTAAG
1 CTTCAACTTC-AAAAAAATGATCAGGTGTTTAAG
629305 CTTCAACTTCAAAAAA
1 CTTCAACTTCAAAAAA
629321 CTTTAAGTGC
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
33 14 0.30
34 33 0.70
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (33 bp):
CTTCAACTTCAAAAAAATGATCAGGTGTTTAAG
Found at i:629335 original size:31 final size:33
Alignment explanation
Indices: 629248--629337 Score: 94
Period size: 34 Copynumber: 2.7 Consensus size: 33
629238 CTTCGACTTT
* *
629248 AAAAAAATGATCAGGTGTTTAAGCTTCAACTTCA
1 AAAAAAAT-ATCAAGTGCTTAAGCTTCAACTTCA
* *
629282 AAAAAAATGATCAGGTGTTTAAGCTTCAACTTC-
1 AAAAAAAT-ATCAAGTGCTTAAGCTTCAACTTCA
* *
629315 AAAAAACT-TTAAGTGCTTAAGCT
1 AAAAAAATATCAAGTGCTTAAGCT
629338 CTATTTTAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
31 12 0.23
33 7 0.13
34 33 0.63
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.30
Consensus pattern (33 bp):
AAAAAAATATCAAGTGCTTAAGCTTCAACTTCA
Found at i:629785 original size:99 final size:100
Alignment explanation
Indices: 629613--629808 Score: 349
Period size: 99 Copynumber: 2.0 Consensus size: 100
629603 TACATACCTT
*
629613 TAAAGGATCAAGTCATAAAGTAGTTCATTTTTTTCTTAAGTTGTCCTAAAAAGGATTTTCAACAT
1 TAAAGGATCAAGTCATAAAGTAGTTCATTTTTTTCCTAAGTTGTCCTAAAAAGGATTTTCAACAT
629678 AATAGGCATTTTGAATGTGCAACTTTAGTTCAGGC
66 AATAGGCATTTTGAATGTGCAACTTTAGTTCAGGC
*
629713 TAAAGGATCAAGTCATAAAGTAGTTCA-TTTTTTCCTAAGTTGTCCTAAAAAGGATTTTCAACTT
1 TAAAGGATCAAGTCATAAAGTAGTTCATTTTTTTCCTAAGTTGTCCTAAAAAGGATTTTCAACAT
* *
629777 AGTAGGCATTTTGAATGTGCAACTTTATTTCA
66 AATAGGCATTTTGAATGTGCAACTTTAGTTCA
629809 TGCTTAGGAG
Statistics
Matches: 92, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
99 65 0.71
100 27 0.29
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (100 bp):
TAAAGGATCAAGTCATAAAGTAGTTCATTTTTTTCCTAAGTTGTCCTAAAAAGGATTTTCAACAT
AATAGGCATTTTGAATGTGCAACTTTAGTTCAGGC
Found at i:630038 original size:31 final size:31
Alignment explanation
Indices: 630003--630134 Score: 120
Period size: 31 Copynumber: 4.3 Consensus size: 31
629993 AAGCTAGTGC
* *
630003 TTAGGAGCATTATAACAATTTAAACTCTTGT
1 TTAGGAGCAATACAACAATTTAAACTCTTGT
* * * *
630034 TTAGGAGTAATACAATAATTTAAGCTTTTGT
1 TTAGGAGCAATACAACAATTTAAACTCTTGT
* ** *
630065 TTAGGAGCAATACAACAGTTTATGCTCGTGT
1 TTAGGAGCAATACAACAATTTAAACTCTTGT
* * * * * *
630096 TTAGAAACAATACAATAGTTTAAGCTCTTGC
1 TTAGGAGCAATACAACAATTTAAACTCTTGT
630127 TTAGGAGC
1 TTAGGAGC
630135 TTTTTTCAAG
Statistics
Matches: 81, Mismatches: 20, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 81 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (31 bp):
TTAGGAGCAATACAACAATTTAAACTCTTGT
Found at i:630071 original size:62 final size:62
Alignment explanation
Indices: 629985--630134 Score: 174
Period size: 62 Copynumber: 2.4 Consensus size: 62
629975 TTTATGGAGG
* * * * * **
629985 AATAGTTTAAGCTAGTGCTTAGGAGCATTATAACAATTTAAACTCTTGTTTAGGAGTAATAC
1 AATAGTTTAAGCTATTGCTTAGGAGCAATACAACAATTTAAACTCGTGTTTAGAAACAATAC
* * * * **
630047 AATAATTTAAGCTTTTGTTTAGGAGCAATACAACAGTTTATGCTCGTGTTTAGAAACAATAC
1 AATAGTTTAAGCTATTGCTTAGGAGCAATACAACAATTTAAACTCGTGTTTAGAAACAATAC
*
630109 AATAGTTTAAGCTCTTGCTTAGGAGC
1 AATAGTTTAAGCTATTGCTTAGGAGC
630135 TTTTTTCAAG
Statistics
Matches: 72, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
62 72 1.00
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (62 bp):
AATAGTTTAAGCTATTGCTTAGGAGCAATACAACAATTTAAACTCGTGTTTAGAAACAATAC
Found at i:632681 original size:155 final size:151
Alignment explanation
Indices: 632490--633200 Score: 759
Period size: 155 Copynumber: 4.6 Consensus size: 151
632480 AACAGACTCG
* * * * * * * **
632490 GTGATAACCTGAGACTTGGTTTTAGGAAAATTATTAAAATGTCCCTTGGGGTATATCTTCGACAT
1 GTGATAACCTAAGACTCGGTTCTA-AAAAATTACTAAAATGCCCCTTGAGGTATA-CTTCGATGT
* * ** * * **
632555 GAAAGTACCCCGACAACCCTAAAAAACTTAAAAAAGAAAAAAGATGAACCTATCCTAAAGGTACA
64 GAAAGTATCCCGATAACCCTAAAGGACTTAAAAATGAAAAAGGATGAACCTATCCTAAACATACA
* * * *
632620 CCTTTGGCATATAAGCATACCCG
129 CCTTCGACATAGAAGCATACCCA
* * * * **
632643 GTGATAACATAGGACTCGGTTCTAGAATAAAATTATTAAAAGGCCCCTAAAGGTATACCTTCGAT
1 GTGATAACCTAAGACTCGGTTCT--AA-AAAATTACTAAAATGCCCCTTGAGGTATA-CTTCGAT
* * * * *
632708 GTGAAAGTATCCTGGTAACACTAAAGGACTTAAAAACGAAAAGGGATGAACCTATCCTAAACATA
62 GTGAAAGTATCCCGATAACCCTAAAGGACTTAAAAATGAAAAAGGATGAACCTATCCTAAACATA
*
632773 CACCTTC-ATCATAGAAGCATACCTA
127 CACCTTCGA-CATAGAAGCATACCCA
* * *
632798 GTGATAACCTAAGACTCAGTTCTAAAAAAATTACTAAAAT-ACCCTTAGAGGTATACTTTCGACG
1 GTGATAACCTAAGACTCGGTTCT-AAAAAATTACTAAAATGCCCCTT-GAGGTATAC-TTCGATG
* * *
632862 TGAAAGTATCCCGATAACCCTAAAAGAATTAAAAATGAAAAAGGGATGAACCTATCCTAAACGTA
63 TGAAAGTATCCCGATAACCCTAAAGGACTTAAAAATGAAAAA-GGATGAACCTATCCTAAACATA
*
632927 CACCTTTGACATAGAAGCATACCCA
127 CACCTTCGACATAGAAGCATACCCA
* * * * *
632952 GTGATAACCTAAGACTCGATTCTATACAAATTACTAAAATGCCCCTAG-GGGATACCTTTGATGT
1 GTGATAACCTAAGACTCGGTTCTA-AAAAATTACTAAAATGCCCCTTGAGGTATA-CTTCGATGT
* * * *
633016 AAAAGTATCTC-AGTAACCCTAAAGGACTTAAAAATGGAAAAGGATGAACCTATCCTAAACATAT
64 GAAAGTATCCCGA-TAACCCTAAAGGACTTAAAAATGAAAAAGGATGAACCTATCCTAAACATAC
* *
633080 ACCTTCGACATAAAAGCATACCCG
128 ACCTTCGACATAGAAGCATACCCA
*
633104 GTGATAACCTAGGACTCGGTTCTAAAAAATTACTAAAATG-CCCTT-AGGTGATACGTTCGATGT
1 GTGATAACCTAAGACTCGGTTCTAAAAAATTACTAAAATGCCCCTTGAGGT-ATAC-TTCGATGT
*
633167 AAAAGTATCCCGATAACCCTAAAGGACTTAAAAA
64 GAAAGTATCCCGATAACCCTAAAGGACTTAAAAA
633201 GATAAATAAT
Statistics
Matches: 466, Mismatches: 76, Indels: 34
0.81 0.13 0.06
Matches are distributed among these distances:
150 7 0.02
151 56 0.12
152 71 0.15
153 124 0.27
154 81 0.17
155 127 0.27
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (151 bp):
GTGATAACCTAAGACTCGGTTCTAAAAAATTACTAAAATGCCCCTTGAGGTATACTTCGATGTGA
AAGTATCCCGATAACCCTAAAGGACTTAAAAATGAAAAAGGATGAACCTATCCTAAACATACACC
TTCGACATAGAAGCATACCCA
Found at i:632958 original size:154 final size:153
Alignment explanation
Indices: 632490--633200 Score: 783
Period size: 153 Copynumber: 4.6 Consensus size: 153
632480 AACAGACTCG
* * * ** * * *
632490 GTGATAACCTGAGACTTGGTTTTAGGAAAATTATTAAAATGTCCCTT-GGGGTATA-TCTTCGAC
1 GTGATAACCTAAGACTCGGTTCTAAAAAAATTACTAAAATG-CCCTTAGAGGTATACT-TTCGAT
* * * ** * * **
632553 ATGAAAGTACCCCGACAACCCTAAAAAACTTAAAAAAGAAAAAAGATGAACCTATCCTAAAGGTA
64 GTGAAAGTATCCCGATAACCCTAAAGGACTTAAAAATGAAAAAGGATGAACCTATCCTAAACATA
* * *
632618 CACCTTTGGCATATAAGCATACCCG
129 CACCTTTGACATAGAAGCATACCCA
* * * * * * *
632643 GTGATAACATAGGACTCGGTTCTAGAATAAAATTATTAAAAGGCCCCTAAAGGTATACCTTCGAT
1 GTGATAACCTAAGACTCGGTTCTA-AA-AAAATTACTAAAATGCCCTTAGAGGTATACTTTCGAT
* * * * *
632708 GTGAAAGTATCCTGGTAACACTAAAGGACTTAAAAACGAAAAGGGATGAACCTATCCTAAACATA
64 GTGAAAGTATCCCGATAACCCTAAAGGACTTAAAAATGAAAAAGGATGAACCTATCCTAAACATA
* *
632773 CACC-TTCATCATAGAAGCATACCTA
129 CACCTTTGA-CATAGAAGCATACCCA
* * *
632798 GTGATAACCTAAGACTCAGTTCTAAAAAAATTACTAAAATACCCTTAGAGGTATACTTTCGACGT
1 GTGATAACCTAAGACTCGGTTCTAAAAAAATTACTAAAATGCCCTTAGAGGTATACTTTCGATGT
* * *
632863 GAAAGTATCCCGATAACCCTAAAAGAATTAAAAATGAAAAAGGGATGAACCTATCCTAAACGTAC
66 GAAAGTATCCCGATAACCCTAAAGGACTTAAAAATGAAAAA-GGATGAACCTATCCTAAACATAC
632928 ACCTTTGACATAGAAGCATACCCA
130 ACCTTTGACATAGAAGCATACCCA
* * * * *
632952 GTGATAACCTAAGACTCGATTCTATACAAATTACTAAAATGCCCCTAG-GGGATACCTTT-GATG
1 GTGATAACCTAAGACTCGGTTCTAAAAAAATTACTAAAATGCCCTTAGAGGTATA-CTTTCGATG
* * *
633015 TAAAAGTATCTC-AGTAACCCTAAAGGACTTAAAAATGGAAAAGGATGAACCTATCCTAAACATA
65 TGAAAGTATCCCGA-TAACCCTAAAGGACTTAAAAATGAAAAAGGATGAACCTATCCTAAACATA
* * * *
633079 TACCTTCGACATAAAAGCATACCCG
129 CACCTTTGACATAGAAGCATACCCA
* *
633104 GTGATAACCTAGGACTCGGTTCT-AAAAAATTACTAAAATGCCCTT--AGGTGATACGTTCGATG
1 GTGATAACCTAAGACTCGGTTCTAAAAAAATTACTAAAATGCCCTTAGAGGT-ATACTTTCGATG
*
633166 TAAAAGTATCCCGATAACCCTAAAGGACTTAAAAA
65 TGAAAGTATCCCGATAACCCTAAAGGACTTAAAAA
633201 GATAAATAAT
Statistics
Matches: 468, Mismatches: 77, Indels: 28
0.82 0.13 0.05
Matches are distributed among these distances:
150 5 0.01
151 58 0.12
152 65 0.14
153 128 0.27
154 94 0.20
155 118 0.25
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.24
Consensus pattern (153 bp):
GTGATAACCTAAGACTCGGTTCTAAAAAAATTACTAAAATGCCCTTAGAGGTATACTTTCGATGT
GAAAGTATCCCGATAACCCTAAAGGACTTAAAAATGAAAAAGGATGAACCTATCCTAAACATACA
CCTTTGACATAGAAGCATACCCA
Found at i:633071 original size:306 final size:304
Alignment explanation
Indices: 632516--633200 Score: 873
Period size: 306 Copynumber: 2.2 Consensus size: 304
632506 TGGTTTTAGG
* * * * * *
632516 AAAATTATTAAAATGTCCCTTGGGGTATA-TCTTCGACATGAAAGTACCCCGACAACCCTAAAA-
1 AAAATTACTAAAAT-ACCCTTGAGGTATACT-TTCGACGTGAAAGTATCCCGATAACCCTAAAAG
* * * *
632579 AACTTAAAAAAGAAAAAAGATGAACCTATCCTAAAGGTACACCTTTGGCATATAAGCATACCCGG
64 AA-TTAAAAAAGAAAAAAGATGAACCTATCCTAAACGTACACCTTTGACATAGAAGCATACCCAG
* * * *
632644 TGATAACATAGGACTCGGTTCTAGAATAAAATTATTAAAAGGCCCCTAAAGGTATACCTTCGATG
128 TGATAACATAAGACTCGATTCT--AATAAAATTACTAAAAGGCCCCTAAAGGGATACCTTCGATG
* *
632709 TGAAAGTATCCTGGTAACACTAAAGGACTTAAAAACGAAAAGGGATGAACCTATCCTAAACATAC
191 TAAAAGTATCCTAGTAACACTAAAGGACTTAAAAACGAAAAGGGATGAACCTATCCTAAACATAC
* *
632774 ACCTTC-ATCATAGAAGCATACCTAGTGATAACCTAAGACTCAGTTCTAAA
256 ACCTTCGA-CATAAAAGCATACCCAGTGATAACCTAAGACTCAGTTCT-AA
632824 AAAATTACTAAAATACCCTTAGAGGTATACTTTCGACGTGAAAGTATCCCGATAACCCTAAAAGA
1 AAAATTACTAAAATACCCTT-GAGGTATACTTTCGACGTGAAAGTATCCCGATAACCCTAAAAGA
* *
632889 ATTAAAAATGAAAAAGGGATGAACCTATCCTAAACGTACACCTTTGACATAGAAGCATACCCAGT
65 ATTAAAAAAGAAAAA-AGATGAACCTATCCTAAACGTACACCTTTGACATAGAAGCATACCCAGT
* * * *
632954 GATAACCTAAGACTCGATTCT-ATACAAATTACTAAAATGCCCCT-AGGGGATACCTTTGATGTA
129 GATAACATAAGACTCGATTCTAATA-AAATTACTAAAAGGCCCCTAAAGGGATACCTTCGATGTA
* * *
633017 AAAGTAT-CTCAGTAACCCTAAAGGACTTAAAAATGGAAAA-GGATGAACCTATCCTAAACATAT
193 AAAGTATCCT-AGTAACACTAAAGGACTTAAAAA-CGAAAAGGGATGAACCTATCCTAAACATAC
* * *
633080 ACCTTCGACATAAAAGCATACCCGGTGATAACCTAGGACTCGGTTCTAA
256 ACCTTCGACATAAAAGCATACCCAGTGATAACCTAAGACTCAGTTCTAA
* * * * *
633129 AAAATTACTAAAATGCCCTT-AGGTGATACGTTCGATGTAAAAGTATCCCGATAACCCTAAAGGA
1 AAAATTACTAAAATACCCTTGAGGT-ATACTTTCGACGTGAAAGTATCCCGATAACCCTAAAAGA
*
633193 CTTAAAAA
65 ATTAAAAA
633201 GATAAATAAT
Statistics
Matches: 332, Mismatches: 36, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
303 4 0.01
304 42 0.13
305 23 0.07
306 108 0.33
307 28 0.08
308 62 0.19
309 65 0.20
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.24
Consensus pattern (304 bp):
AAAATTACTAAAATACCCTTGAGGTATACTTTCGACGTGAAAGTATCCCGATAACCCTAAAAGAA
TTAAAAAAGAAAAAAGATGAACCTATCCTAAACGTACACCTTTGACATAGAAGCATACCCAGTGA
TAACATAAGACTCGATTCTAATAAAATTACTAAAAGGCCCCTAAAGGGATACCTTCGATGTAAAA
GTATCCTAGTAACACTAAAGGACTTAAAAACGAAAAGGGATGAACCTATCCTAAACATACACCTT
CGACATAAAAGCATACCCAGTGATAACCTAAGACTCAGTTCTAA
Found at i:644547 original size:80 final size:80
Alignment explanation
Indices: 644408--644858 Score: 387
Period size: 80 Copynumber: 5.6 Consensus size: 80
644398 TCTCCGAAGG
* * * * * * **
644408 TTCATCTTCGAAGATATTCCAACCTCACCATCTCTG-AGTGGATACTCTAA-TCTAAATTTTACT
1 TTCATCTTCGGAGATACTCCAACCCCACCATCTCCGAAG-AGATACTCCAACT-TCGATTTTACT
**
644471 TTTAGAACACCGAATTT
64 TCCAGAACACCGAATTT
* *
644488 TTCATCTTCGGAGATACTCCAACCCCACCATCTCCGAAGCGATACTCCAACTTTGATTTTACTTC
1 TTCATCTTCGGAGATACTCCAACCCCACCATCTCCGAAGAGATACTCCAACTTCGATTTTACTTC
*
644553 CAGAACACCAAATTT
66 CAGAACACCGAATTT
* * * * * *
644568 TTCATCTTCGGAGATACTTCAACCTCACCATTTCCAAAGAGATACTCCAA-TCCCATTTTTACTT
1 TTCATCTTCGGAGATACTCCAACCCCACCATCTCCGAAGAGATACTCCAACTTCGA-TTTTACTT
*
644632 CCAGAACACTGAATTT
65 CCAGAACACCGAATTT
* * * * ** *
644648 TTCATC-TCCGAGGATACTCAAACCCCACCATCTTCG-AGAAGATACTTCAACCCCGTTTTTACT
1 TTCATCTTCGGA-GATACTCCAACCCCACCATCTCCGAAG-AGATACTCCAACTTCGATTTTACT
* * *
644711 TTCAGAACATCAAATTT
64 TCCAGAACACCGAATTT
* * * *
644728 TTCATCTTC-GAGGATAATCCAACCCCACCATCTCCGAGGAGATACTCAAACCTT-GTTTTTACT
1 TTCATCTTCGGA-GATACTCCAACCCCACCATCTCCGAAGAGATACTCCAA-CTTCGATTTTACT
* *
644791 TCCAAAACATCGAATTT
64 TCCAGAACACCGAATTT
* * * * * * *
644808 TTAATCTTTGG-GAATACTCCAACTCTACCATCTCTGAGGAGGTACTCCAAC
1 TTCATCTTCGGAG-ATACTCCAACCCCACCATCTCCGAAGAGATACTCCAAC
644859 CTCGTCTTTA
Statistics
Matches: 305, Mismatches: 55, Indels: 23
0.80 0.14 0.06
Matches are distributed among these distances:
79 10 0.03
80 285 0.93
81 10 0.03
ACGTcount: A:0.29, C:0.29, G:0.11, T:0.31
Consensus pattern (80 bp):
TTCATCTTCGGAGATACTCCAACCCCACCATCTCCGAAGAGATACTCCAACTTCGATTTTACTTC
CAGAACACCGAATTT
Found at i:648874 original size:10 final size:10
Alignment explanation
Indices: 648856--648889 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
648846 AAGGTCGACA
*
648856 TTTGCTTTGC
1 TTTGATTTGC
*
648866 TTTGATTTGA
1 TTTGATTTGC
648876 TTTGATTTGC
1 TTTGATTTGC
648886 TTTG
1 TTTG
648890 CTCCTCTCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.09, C:0.09, G:0.21, T:0.62
Consensus pattern (10 bp):
TTTGATTTGC
Found at i:649250 original size:24 final size:23
Alignment explanation
Indices: 649223--649291 Score: 59
Period size: 24 Copynumber: 2.8 Consensus size: 23
649213 ATATGATTTT
*
649223 TTTTAATTAAAATAAAAAAGGTAG
1 TTTT-ATTAAAATAAAAAAGATAG
*
649247 TTTT-TTCAAAAATAAAAAATGATATT
1 TTTTATT--AAAATAAAAAA-GATA-G
*
649273 TTTTATTAAAATATAAAAG
1 TTTTATTAAAATAAAAAAG
649292 TTTTTTATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
22 2 0.05
24 16 0.43
25 13 0.35
26 4 0.11
27 2 0.05
ACGTcount: A:0.52, C:0.01, G:0.07, T:0.39
Consensus pattern (23 bp):
TTTTATTAAAATAAAAAAGATAG
Found at i:649250 original size:25 final size:23
Alignment explanation
Indices: 649197--649305 Score: 66
Period size: 25 Copynumber: 4.6 Consensus size: 23
649187 GTTTTTATCG
649197 ATTTTT-TTAAAA-AAAAATATGATT
1 ATTTTTATTAAAATAAAAA-A-GA-T
* *
649221 TTTTTTAATTAAAATAAAAAAGGT
1 ATTTTT-ATTAAAATAAAAAAGAT
*
649245 AGTTTTT-TCAAAAATAAAAAATGAT
1 A-TTTTTAT-TAAAATAAAAAA-GAT
*
649270 ATTTTTTATTAAAATATAAAAG-T
1 A-TTTTTATTAAAATAAAAAAGAT
649293 -TTTTTATATAAAA
1 ATTTTTAT-TAAAA
649306 ATAATAATTT
Statistics
Matches: 69, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
21 7 0.10
22 5 0.07
23 2 0.03
24 18 0.26
25 24 0.35
26 8 0.12
27 5 0.07
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.44
Consensus pattern (23 bp):
ATTTTTATTAAAATAAAAAAGAT
Found at i:649251 original size:49 final size:49
Alignment explanation
Indices: 649198--649291 Score: 136
Period size: 49 Copynumber: 1.9 Consensus size: 49
649188 TTTTTATCGA
* * *
649198 TTTTTTTAAAAA-AAAATATGATTTTTTTTAATTAAAATAAAAAAGGTAG
1 TTTTTTCAAAAATAAAAAATGATATTTTTT-ATTAAAATAAAAAAGGTAG
*
649247 TTTTTTCAAAAATAAAAAATGATATTTTTTATTAAAATATAAAAG
1 TTTTTTCAAAAATAAAAAATGATATTTTTTATTAAAATAAAAAAG
649292 TTTTTTATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 25 0.62
50 15 0.38
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.43
Consensus pattern (49 bp):
TTTTTTCAAAAATAAAAAATGATATTTTTTATTAAAATAAAAAAGGTAG
Found at i:649297 original size:21 final size:21
Alignment explanation
Indices: 649261--649317 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
649251 TTCAAAAATA
*
649261 AAAAATGAT-ATTTTTTAT-T
1 AAAAATAATAATTTTTTATAT
649280 AAAATATAA-AAGTTTTTTATAT
1 AAAA-ATAATAA-TTTTTTATAT
649302 AAAAATAATAATTTTT
1 AAAAATAATAATTTTT
649318 ATTTAATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
19 4 0.12
20 4 0.12
21 17 0.53
22 7 0.22
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (21 bp):
AAAAATAATAATTTTTTATAT
Found at i:649335 original size:20 final size:20
Alignment explanation
Indices: 649293--649332 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
649283 ATATAAAAGT
*
649293 TTTTTATATAAAAATAATAA
1 TTTTTATATAAAAAAAATAA
*
649313 TTTTTATTTAATAAAAAATA
1 TTTTTATATAA-AAAAAATA
649333 TTTAATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTTTATATAAAAAAAATAA
Found at i:649371 original size:34 final size:35
Alignment explanation
Indices: 649323--649390 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 35
649313 TTTTTATTTA
*
649323 ATAAAAAATATTTAATTATT-ATTTTTAGTTAAATG
1 ATAAAAAATATTTAATT-TTAATATTTAGTTAAATG
* *
649358 ATAAAAAA-GTTTAATTTTAATATTTATTTAAAT
1 ATAAAAAATATTTAATTTTAATATTTAGTTAAAT
649391 AATTTTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 2 0.07
34 19 0.66
35 8 0.28
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (35 bp):
ATAAAAAATATTTAATTTTAATATTTAGTTAAATG
Found at i:649399 original size:14 final size:15
Alignment explanation
Indices: 649375--649404 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
649365 AGTTTAATTT
649375 TAATATTTATTTAAA
1 TAATATTTATTTAAA
649390 TAAT-TTTATTTAAA
1 TAATATTTATTTAAA
649404 T
1 T
649405 TTTTATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TAATATTTATTTAAA
Found at i:649664 original size:31 final size:31
Alignment explanation
Indices: 649619--649681 Score: 101
Period size: 31 Copynumber: 2.0 Consensus size: 31
649609 CCCGCGTTTT
*
649619 TTTTTTTTCTTTTTTTATTTAATTACAAGATA
1 TTTTTTTTCTTTTTTTATCTAATTA-AAGATA
649651 TTTTTTTTC-TTTTTTATCTAATTAAAGATA
1 TTTTTTTTCTTTTTTTATCTAATTAAAGATA
649681 T
1 T
649682 AAACTCTTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 7 0.23
31 14 0.47
32 9 0.30
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.65
Consensus pattern (31 bp):
TTTTTTTTCTTTTTTTATCTAATTAAAGATA
Found at i:649784 original size:19 final size:21
Alignment explanation
Indices: 649747--649794 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
649737 TGAGTGATAT
649747 TAAT-ATTTATTTAATG-AAA
1 TAATAATTTATTTAATGAAAA
649766 TAATAATTTATTTAA-GAAAA
1 TAATAATTTATTTAATGAAAA
*
649786 TGATAATTT
1 TAATAATTT
649795 TTTGAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (21 bp):
TAATAATTTATTTAATGAAAA
Found at i:649805 original size:20 final size:20
Alignment explanation
Indices: 649747--649805 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
649737 TGAGTGATAT
**
649747 TAAT-ATTTATTTAATGAAA
1 TAATAATTTATTTAAAAAAA
*
649766 TAATAATTTATTTAAGAAAA
1 TAATAATTTATTTAAAAAAA
*
649786 TGATAATTT-TTTGAAAAAAA
1 TAATAATTTATTT-AAAAAAA
649806 AGGGTATTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 7 0.21
20 27 0.79
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (20 bp):
TAATAATTTATTTAAAAAAA
Found at i:650782 original size:23 final size:25
Alignment explanation
Indices: 650743--650789 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
650733 CATTTTTTAA
650743 ATTTTATTTATTCTAAAT-ATATAC
1 ATTTTATTTATTCTAAATGATATAC
650767 ATTTTA-TTATAT-TAAATGATATA
1 ATTTTATTTAT-TCTAAATGATATA
650790 GTTATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (25 bp):
ATTTTATTTATTCTAAATGATATAC
Found at i:651972 original size:32 final size:33
Alignment explanation
Indices: 651936--652004 Score: 97
Period size: 32 Copynumber: 2.1 Consensus size: 33
651926 TTATATATTT
*
651936 TTATATAAATTTT-ATAATATTTAT-AATTTATA
1 TTATATAAATTTTAAT-ATATTAATGAATTTATA
*
651968 TTATATAAATTTTAATATATTAATGAATTTATG
1 TTATATAAATTTTAATATATTAATGAATTTATA
652001 TTAT
1 TTAT
652005 TTTTATATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
32 20 0.61
33 13 0.39
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (33 bp):
TTATATAAATTTTAATATATTAATGAATTTATA
Found at i:651983 original size:21 final size:21
Alignment explanation
Indices: 651923--651987 Score: 62
Period size: 23 Copynumber: 3.1 Consensus size: 21
651913 TATATTTAAA
*
651923 ATATTATAT--ATTTTTATAT
1 ATATTATATAAATTTTAATAT
* * *
651942 AAATTTTATAATATTTATAATTT
1 ATATTATATAA-ATTT-TAATAT
651965 ATATTATATAAATTTTAATAT
1 ATATTATATAAATTTTAATAT
651986 AT
1 AT
651988 TAATGAATTT
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
19 7 0.20
21 7 0.20
22 8 0.23
23 13 0.37
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATATTATATAAATTTTAATAT
Found at i:652015 original size:8 final size:8
Alignment explanation
Indices: 652002--652054 Score: 61
Period size: 8 Copynumber: 6.4 Consensus size: 8
651992 GAATTTATGT
652002 TATTTTTA
1 TATTTTTA
652010 TATTTTTA
1 TATTTTTA
652018 TATTATATTA
1 TATT-T-TTA
*
652028 TATTTTAA
1 TATTTTTA
*
652036 TTTTTTTA
1 TATTTTTA
*
652044 TTTTTTTA
1 TATTTTTA
652052 TAT
1 TAT
652055 AAATAATTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
8 30 0.77
9 2 0.05
10 7 0.18
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
TATTTTTA
Found at i:652020 original size:33 final size:31
Alignment explanation
Indices: 651983--652073 Score: 87
Period size: 34 Copynumber: 2.8 Consensus size: 31
651973 TAAATTTTAA
651983 TATATTAATGAATTTATGTTATTTTTATATTTT
1 TATATTAAT-AATTTAT-TTATTTTTATATTTT
* *
652016 TATATTATATTATATTTTAATT-TTTTTATTTTTT
1 TATATTA-A-TA-A-TTTATTTATTTTTATATTTT
*
652050 TATATAAATAA-TTATTTATTTTTA
1 TATATTAATAATTTATTTATTTTTA
652074 AAATTATTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
29 5 0.10
30 6 0.12
31 1 0.02
32 2 0.04
33 8 0.16
34 19 0.39
35 4 0.08
36 4 0.08
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (31 bp):
TATATTAATAATTTATTTATTTTTATATTTT
Found at i:652028 original size:24 final size:24
Alignment explanation
Indices: 651996--652054 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
651986 ATTAATGAAT
*
651996 TTATGTTAT-TTTTATATTTTTATA
1 TTATATTATATTTTA-ATTTTTATA
*
652020 TTATATTATATTTTAATTTTTTTA
1 TTATATTATATTTTAATTTTTATA
* *
652044 TTTTTTTATAT
1 TTATATTATAT
652055 AAATAATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 25 0.83
25 5 0.17
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (24 bp):
TTATATTATATTTTAATTTTTATA
Found at i:652066 original size:20 final size:19
Alignment explanation
Indices: 652041--652094 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 19
652031 TTTAATTTTT
652041 TTATTT-TTTTATATAAATAA
1 TTATTTATTTT-TA-AAATAA
*
652061 TTATTTATTTTTAAAATTAT
1 TTATTTATTTTTAAAA-TAA
652081 TATATTTATTTTTA
1 T-TATTTATTTTTA
652095 TTAATTCAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 3 0.10
20 11 0.37
21 16 0.53
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTATTTATTTTTAAAATAA
Found at i:655586 original size:20 final size:20
Alignment explanation
Indices: 655536--655578 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
655526 TTTAAAAAAT
* *
655536 TCATTTATTTTCATGAGTTTT
1 TCATTT-TTTTCATGAGATTC
655557 TCATTTTTTTCATGAGATTC
1 TCATTTTTTTCATGAGATTC
655577 TC
1 TC
655579 TTGTTTTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.19, C:0.14, G:0.09, T:0.58
Consensus pattern (20 bp):
TCATTTTTTTCATGAGATTC
Found at i:655611 original size:166 final size:164
Alignment explanation
Indices: 655350--655880 Score: 506
Period size: 166 Copynumber: 3.2 Consensus size: 164
655340 TTATTTTTCG
* * *
655350 TTAAATCAGTTTTGAAAAATTTATTT-TTTTCATGAGTTTTTTTATTTTCTTT-TGAAATTCCTC
1 TTAAATCAGTTTTAAAAAATTCATTTATTTTCATGAG-TTTTTCATTTT-TTTCTGAAATT-CTC
* *
655413 TTG-TTTTCAAAATACAGAGTTTTCTT-TTCCATAAATTTTTTTGAGAGGATTTTCATCGGATTA
63 TTGTTTTTGAAAA-ACATAGTTTT-TTATTCCATAAATTTTTTTGAGAGGATTTTC-TCGGATTA
*
655476 AAATTTTTAAAATTCATCAAATATTATTATCT-CATCACCA
125 AAATTTTTAAAATTCATCAAATATTATTAT-TAAATCACCA
* *
655516 TTTAATCAGTTTTAAAAAATTCATTTATTTTCATGAGTTTTTCATTTTTTTCATGAGATTCTCTT
1 TTAAATCAGTTTTAAAAAATTCATTTATTTTCATGAGTTTTTCATTTTTTTC-TGAAATTCTCTT
* * * * * *
655581 GTTTTTGAAAAACCTAGTTTTTTATTCCATAAATGTTTTCGAGGGTGGTTTTCTCGGATCAAAAT
65 GTTTTTGAAAAACATAGTTTTTTATTCCATAAATTTTTTTGAGAG-GATTTTCTCGGATTAAAAT
* * *
655646 TTTTAATATTCATCAAATATTATCATTTAAATCA-TA
129 TTTTAAAATTCATCAAATATTATTA-TTAAATCACCA
* * * *
655682 GTAAATTAGTTTTGAAATATTCATTTATTTTCATGAGTTTTTCATTTTTTTCTTTGAAATTC-CT
1 TTAAATCAGTTTTAAAAAATTCATTTATTTTCATGAGTTTTTCATTTTTTTC--TGAAATTCTCT
* * * * * * * * *
655746 CTATTTTCGAAAAA-ATGAATTTTCTATTCCATAAA-TATTTTCAAAGGGATTTTTCTTGGCTTA
64 -TGTTTTTGAAAAACAT-AGTTTTTTATTCCATAAATTTTTTTGAGA-GGA-TTTTCTCGGATTA
* * * * *
655809 AAATTTTTACATTTCATCTAATATTGTTATTGAAT-ACCCA
125 AAATTTTTAAAATTCATCAAATATTATTATTAAATCA-CCA
*
655849 TTAAATCAGTTTCAAAAAATTCAATTTATTTT
1 TTAAATCAGTTTTAAAAAATTC-ATTTATTTT
655881 GAGTTTTGAT
Statistics
Matches: 297, Mismatches: 52, Indels: 30
0.78 0.14 0.08
Matches are distributed among these distances:
165 6 0.02
166 161 0.54
167 121 0.41
168 9 0.03
ACGTcount: A:0.31, C:0.12, G:0.09, T:0.49
Consensus pattern (164 bp):
TTAAATCAGTTTTAAAAAATTCATTTATTTTCATGAGTTTTTCATTTTTTTCTGAAATTCTCTTG
TTTTTGAAAAACATAGTTTTTTATTCCATAAATTTTTTTGAGAGGATTTTCTCGGATTAAAATTT
TTAAAATTCATCAAATATTATTATTAAATCACCA
Found at i:656404 original size:10 final size:10
Alignment explanation
Indices: 656391--656446 Score: 64
Period size: 9 Copynumber: 5.7 Consensus size: 10
656381 TAGAAAAGTG
656391 GAGAAAAAAA
1 GAGAAAAAAA
656401 GAGAGAAAAAA
1 GAGA-AAAAAA
*
656412 -AGAAAGAAA
1 GAGAAAAAAA
656421 GA-AAAAAAA
1 GAGAAAAAAA
656430 -AGAAAAAAGA
1 GAGAAAAAA-A
656440 GAGAAAA
1 GAGAAAA
656447 TAGAAAAAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
8 1 0.03
9 17 0.44
10 9 0.23
11 12 0.31
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
GAGAAAAAAA
Found at i:656406 original size:12 final size:12
Alignment explanation
Indices: 656391--656446 Score: 60
Period size: 12 Copynumber: 4.6 Consensus size: 12
656381 TAGAAAAGTG
656391 GAGAAAAAAAGA
1 GAGAAAAAAAGA
656403 GAGAAAAAAAGA
1 GAGAAAAAAAGA
*
656415 AAGAAAGAAAA-A
1 GAGAAA-AAAAGA
* *
656427 AAAAGAAAAAAGA
1 GAGA-AAAAAAGA
656440 GAGAAAA
1 GAGAAAA
656447 TAGAAAAAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
12 28 0.76
13 9 0.24
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (12 bp):
GAGAAAAAAAGA
Found at i:656423 original size:16 final size:15
Alignment explanation
Indices: 656394--656434 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
656384 AAAAGTGGAG
*
656394 AAAAAAAGAGAGAAA
1 AAAAAAAGAAAGAAA
656409 AAAAGAAAGAAAG-AA
1 AAAA-AAAGAAAGAAA
656424 AAAAAAAGAAA
1 AAAAAAAGAAA
656435 AAAGAGAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 7 0.29
15 10 0.42
16 7 0.29
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAGAAA
Found at i:656438 original size:21 final size:20
Alignment explanation
Indices: 656406--656446 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
656396 AAAAAGAGAG
*
656406 AAAAAAAGAAAGAAAGAAAA
1 AAAAAAAAAAAGAAAGAAAA
*
656426 AAAAAGAAAAAAGAGAGAAAA
1 AAAAA-AAAAAAGAAAGAAAA
656447 TAGAAAAAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAAGAAAGAAAA
Found at i:656446 original size:18 final size:18
Alignment explanation
Indices: 656395--656455 Score: 79
Period size: 18 Copynumber: 3.3 Consensus size: 18
656385 AAAGTGGAGA
656395 AAAAAAGAGAGAAAAAAAG
1 AAAAAAGAGAG-AAAAAAG
*
656414 AAAGAAAGA-AAAAAAAAG
1 AAA-AAAGAGAGAAAAAAG
*
656432 AAAAAAGAGAGAAAATAG
1 AAAAAAGAGAGAAAAAAG
656450 AAAAAA
1 AAAAAA
656456 CAAGCTAAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 5 0.14
18 23 0.62
19 4 0.11
20 5 0.14
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (18 bp):
AAAAAAGAGAGAAAAAAG
Found at i:656455 original size:25 final size:25
Alignment explanation
Indices: 656392--656445 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 25
656382 AGAAAAGTGG
656392 AGAAAAAAAGAGAGAAAAAAAGAAAGAA
1 AGAAAAAAA-A-AG-AAAAAAGAAAGAA
*
656420 AGAAAAAAAAAGAAAAAAGAGAGAA
1 AGAAAAAAAAAGAAAAAAGAAAGAA
656445 A
1 A
656446 ATAGAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
25 13 0.52
26 2 0.08
27 1 0.04
28 9 0.36
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (25 bp):
AGAAAAAAAAAGAAAAAAGAAAGAA
Found at i:660505 original size:13 final size:13
Alignment explanation
Indices: 660487--660512 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
660477 TACAGCAAGT
660487 ATGTATCGATACA
1 ATGTATCGATACA
660500 ATGTATCGATACA
1 ATGTATCGATACA
660513 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:661704 original size:84 final size:84
Alignment explanation
Indices: 661532--661705 Score: 192
Period size: 84 Copynumber: 2.1 Consensus size: 84
661522 ACTCAAAGAA
* * * * * *
661532 GAAAATAAATCAATAAGTGTAGAGAATGATTTTCTTGAAAAGAAATTAAGTGAATTAGAGAAGAA
1 GAAAATAAATCAATAAGTGTAGAAAATAATTTTCTTAAAAAGAAAATAAATGAAATAGAGAAGAA
* *
661597 TATGAAAGAGTTACAAAAT
66 TAAGAAAAAGTTACAAAAT
* * *
661616 GAAAATAAATCAATGAGTTTAGAAAATAATTCTT-TTAAAAAGAAAATAAATGAAATAGAGGAGA
1 GAAAATAAATCAATAAGTGTAGAAAATAATT-TTCTTAAAAAGAAAATAAATGAAATAGAGAAGA
*
661680 A-AAGAAATAAGTTGC-AAAT
65 ATAAGAAA-AAGTTACAAAAT
661699 GGAAAAT
1 -GAAAAT
661706 GATGAATTGG
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
83 9 0.12
84 64 0.85
85 2 0.03
ACGTcount: A:0.54, C:0.03, G:0.18, T:0.25
Consensus pattern (84 bp):
GAAAATAAATCAATAAGTGTAGAAAATAATTTTCTTAAAAAGAAAATAAATGAAATAGAGAAGAA
TAAGAAAAAGTTACAAAAT
Found at i:666306 original size:13 final size:13
Alignment explanation
Indices: 666288--666313 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
666278 TACACCAAGT
666288 ATGTATCGATACA
1 ATGTATCGATACA
666301 ATGTATCGATACA
1 ATGTATCGATACA
666314 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:666311 original size:32 final size:33
Alignment explanation
Indices: 666270--666333 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
666260 TAGCCAAACT
**
666270 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
666302 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
666334 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:670734 original size:52 final size:52
Alignment explanation
Indices: 670586--670714 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
670576 CGAAATATGA
*
670586 AAATTTGCCTGCATGTATCGATATATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
670638 AAATTTGCCTGCATGTATCGATACATTTCATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
670690 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
670715 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:670741 original size:13 final size:13
Alignment explanation
Indices: 670723--670747 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
670713 CAAAGATCAG
670723 TGTATCGATACAA
1 TGTATCGATACAA
670736 TGTATCGATACA
1 TGTATCGATACA
670748 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:670810 original size:13 final size:13
Alignment explanation
Indices: 670792--670843 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
670782 AGCTTCGTAG
670792 CGATACATTGTAT
1 CGATACATTGTAT
670805 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
670824 CGATACATTGTAT
1 CGATACATTGTAT
670837 CGATACA
1 CGATACA
670844 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:670824 original size:19 final size:19
Alignment explanation
Indices: 670800--670864 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
670790 AGCGATACAT
670800 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
670819 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
*
670832 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
670851 TGTATCGATACAAA
1 TGTATCGATACAAA
670865 TCGTTGAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
18 1 0.03
19 24 0.62
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:670833 original size:32 final size:32
Alignment explanation
Indices: 670792--670862 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
670782 AGCTTCGTAG
670792 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
670824 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
670856 CGATACA
1 CGATACA
670863 AATCGTTGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:671789 original size:32 final size:33
Alignment explanation
Indices: 671743--671833 Score: 98
Period size: 32 Copynumber: 2.8 Consensus size: 33
671733 CAACACTATC
671743 TTTC-AAGGCTAAGATAGAAACCTCCCTATC-T
1 TTTCAAAGGCTAAGATAGAAACCTCCCTATCTT
** *
671774 TTTCACGGGCTAAGATAGAACCTCTCTCCCTATCTT
1 TTTCAAAGGCTAAGATAGAA--AC-CTCCCTATCTT
*
671810 TTTTAAAGGCTAAGATAG-AACCTC
1 TTTCAAAGGCTAAGATAGAAACCTC
671834 TCAATCACTT
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
31 4 0.08
32 16 0.33
33 1 0.02
34 1 0.02
35 10 0.21
36 16 0.33
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (33 bp):
TTTCAAAGGCTAAGATAGAAACCTCCCTATCTT
Found at i:671828 original size:36 final size:35
Alignment explanation
Indices: 671738--671835 Score: 116
Period size: 36 Copynumber: 2.9 Consensus size: 35
671728 CCTTACAACA
*
671738 CTATC-TTTC-AAGGCTAAGATAGAA--AC-CTCC
1 CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCC
**
671768 CTATCTTTTCACGGGCTAAGATAGAACCTCTCTCC
1 CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCC
*
671803 CTATCTTTTTTAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
671836 AATCACTTCG
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
30 5 0.09
31 4 0.07
32 13 0.23
34 1 0.02
35 9 0.16
36 24 0.43
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.32
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCC
Found at i:672549 original size:81 final size:82
Alignment explanation
Indices: 672410--672598 Score: 240
Period size: 81 Copynumber: 2.3 Consensus size: 82
672400 CACAAGAATA
* * * *
672410 TAAATTCAAGATTTTTTCATAAGAAAAATAGTGTTGGAGTATCTCTTTTTTGGAGAGATAGGGTT
1 TAAATTCAAGATTTTTT-GTAAGAAAAATAGGGTTAGAATATCTCTTTTTTGGAGAGATAGGGTT
*
672475 AGAGTATCCCAAAAATG-
65 AAAGTATCCCAAAAATGC
* * *
672492 TAAATTCAAGATTTTCTGTAAGAATAATGGGGTTAGAATATC-CTTTTTTTGGAGAGATAGGGTT
1 TAAATTCAAGATTTTTTGTAAGAAAAATAGGGTTAGAATATCTC-TTTTTTGGAGAGATAGGGTT
* *
672556 AAAGTATCCCGAGAATGC
65 AAAGTATCCCAAAAATGC
*
672574 T-AATTCAAGATTTTTTGTTAGAAAA
1 TAAATTCAAGATTTTTTGTAAGAAAA
672599 GTCGGGCTAG
Statistics
Matches: 92, Mismatches: 13, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
80 1 0.01
81 74 0.80
82 17 0.18
ACGTcount: A:0.35, C:0.08, G:0.21, T:0.36
Consensus pattern (82 bp):
TAAATTCAAGATTTTTTGTAAGAAAAATAGGGTTAGAATATCTCTTTTTTGGAGAGATAGGGTTA
AAGTATCCCAAAAATGC
Found at i:674947 original size:22 final size:21
Alignment explanation
Indices: 674922--674965 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
674912 AATTTTGAAT
*
674922 TTCAATAATTTGTATCGATACA
1 TTCAATAA-ATGTATCGATACA
*
674944 TTCAGTAAATGTATCGATACA
1 TTCAATAAATGTATCGATACA
674965 T
1 T
674966 AAGTTTTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (21 bp):
TTCAATAAATGTATCGATACA
Found at i:674977 original size:19 final size:21
Alignment explanation
Indices: 674929--674983 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
674919 AATTTCAATA
*
674929 ATTTGTATCGATACATTCAGT
1 ATTTGTATCGATACATTAAGT
**
674950 AAATGTATCGATACA-TAAGT
1 ATTTGTATCGATACATTAAGT
674970 -TTTGTATCGATACA
1 ATTTGTATCGATACA
674984 ATGTATCGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
19 12 0.41
20 4 0.14
21 13 0.45
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (21 bp):
ATTTGTATCGATACATTAAGT
Found at i:675034 original size:21 final size:21
Alignment explanation
Indices: 675008--675049 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
674998 AGCTACTGCC
675008 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
675029 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
675050 GTATCGATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:675054 original size:13 final size:13
Alignment explanation
Indices: 675036--675061 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
675026 ATTAAGGAAA
675036 TGTATCGATACAT
1 TGTATCGATACAT
675049 TGTATCGATACAT
1 TGTATCGATACAT
675062 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:677488 original size:52 final size:51
Alignment explanation
Indices: 677420--677816 Score: 289
Period size: 52 Copynumber: 7.6 Consensus size: 51
677410 GTTAAGTTTC
*
677420 CCAATTGTT-CATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACA
1 CCAATT-TTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACA
* * *
677471 CCAATTTTCCTTTAATCGGGGATACTCCGACTCCGATTTTATTTCCAAAAACA
1 CCAATTTTCC-ATAATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAACA
* * * * * * *** * *
677524 CCAATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCTGGGATACT
1 CCAATTTTCCATAATCGGGGATACTCCAACCCCG--ATTTTATTTCCAAAACA
* ** * * ** * *
677577 CTAA--CCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATA
1 CCAATTTTCC-ATA-AT-C--GGGGATACTCCAACCCCGATTTTATTTCCAAAACA
*** * * *
677631 TTGA-TTTCTCATAATCGAGGATACTCCAACCCCGGTTTTATTTCTAAAACA
1 CCAATTTTC-CATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACA
* * * *
677682 CTAATTTTCCACAATCAGGGATACTCCAACCCCGATTTTATTTTCAAAACA
1 CCAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACA
* * *
677733 CCAATTTTCCTTTAATCGGGGATACACCAACTCCGATTTTATTTCCAAAAACA
1 CCAATTTTCC-ATAATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAACA
* * *
677786 CCAATTTTTCACAATCGAGGATACTCCAACC
1 CCAATTTTCCATAATCGGGGATACTCCAACC
677817 TCGTTATTTC
Statistics
Matches: 261, Mismatches: 70, Indels: 29
0.73 0.19 0.08
Matches are distributed among these distances:
50 2 0.01
51 85 0.33
52 99 0.38
53 38 0.15
54 17 0.07
55 3 0.01
56 17 0.07
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.31
Consensus pattern (51 bp):
CCAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACA
Found at i:677769 original size:262 final size:262
Alignment explanation
Indices: 677432--677926 Score: 882
Period size: 262 Copynumber: 1.9 Consensus size: 262
677422 AATTGTTCAT
* *
677432 AATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1 AATCAGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACA
*
677497 CCGACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
66 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
* * *
677562 TTCATCTGGGATACTCTAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAA
131 TTCATCGGGGATACTCCAACCCCGTTACCTCCAAGGGGATACTCCAACCCCGGCTTTATTCCCAA
677627 AATATTGATTTCTCATAATCGAGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCC
196 AATATTGATTTCTCATAATCGAGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCC
677692 AC
261 AC
677694 AATCAGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACA
1 AATCAGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACA
677759 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
66 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
* * **
677824 TTCATCGGGGATACTCCAACCCCGTTACTTCCAAGGGGATACTCCAATCGTGGCTTTATTCCCAA
131 TTCATCGGGGATACTCCAACCCCGTTACCTCCAAGGGGATACTCCAACCCCGGCTTTATTCCCAA
* *
677889 AATATTGATTTCTCATAATTGGGGATACTCCAACCCCG
196 AATATTGATTTCTCATAATCGAGGATACTCCAACCCCG
677927 TTATTTCCGA
Statistics
Matches: 221, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
262 221 1.00
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.31
Consensus pattern (262 bp):
AATCAGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACA
CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
TTCATCGGGGATACTCCAACCCCGTTACCTCCAAGGGGATACTCCAACCCCGGCTTTATTCCCAA
AATATTGATTTCTCATAATCGAGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTCC
AC
Found at i:677835 original size:28 final size:29
Alignment explanation
Indices: 677799--677870 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 29
677789 ATTTTTCACA
* * *
677799 ATCGAGGATACTCCAACCTCGTTA-TTTC
1 ATCGGGGATACTCCAACCCCGTTACTTCC
677827 ATCGGGGATACTCCAACCCCGTTACTTCC
1 ATCGGGGATACTCCAACCCCGTTACTTCC
*
677856 A-AGGGGATACTCCAA
1 ATCGGGGATACTCCAA
677871 TCGTGGCTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 35 0.90
29 4 0.10
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (29 bp):
ATCGGGGATACTCCAACCCCGTTACTTCC
Found at i:677978 original size:79 final size:79
Alignment explanation
Indices: 677829--678028 Score: 233
Period size: 79 Copynumber: 2.5 Consensus size: 79
677819 GTTATTTCAT
* ** *
677829 CGGGGATACTCCAACCCCGTTACTTCCAAGGGGATACTCCAATCGTGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAATCGCCGATTTATTCCCAAAATAT
* * *
677894 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * ** *
677908 TGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAATC-CCGATTCTATTTTC-TAATC
1 CGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAATCGCCGATT-TATTCCCAAAAT-
*
677971 ATCGATTTTTCACAAC
64 ATCGATTTCTCACAAC
* *
677987 CGGGGATACCCCAACCCCGTTATTTTCAAGGGGATACTCCAA
1 CGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAA
678029 CCCCATTGTT
Statistics
Matches: 102, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
78 6 0.06
79 96 0.94
ACGTcount: A:0.26, C:0.28, G:0.17, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAATCGCCGATTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:679737 original size:155 final size:153
Alignment explanation
Indices: 679450--679905 Score: 497
Period size: 155 Copynumber: 2.9 Consensus size: 153
679440 AGGAAAAATC
** * *
679450 AAACTTATCCCTAAATACCCA-CTTTC-GACATAAAAGCGGACCCCGTGACAACCTAAGACTCAA
1 AAAC-TAT-CCTAAATACCCATC-TTCAG-CATAAAAG-AAACCCAGTGACAACCTAAGACTCGA
* *
679513 TTTTAAAAAATTACAAAAATACCTTTATA-GGATACCTTCGACTTAGAAGTGCCCGATACCTCCA
61 TTTTAAAAAATTACAAAAATACCCTTA-AGGGATACCTTCGACTTAGAAGTGTCCGATACCTCCA
*
679577 AAGGACTTAAAAGTATTATAGATGGAATG
125 AAGGACTTAAAAGGATTATAGATGGAATG
* * * * * *
679606 AACCTATCCTAAATACTCATCTTCAGCATAGAAGCAAACTCAGTGACAACCTAGGACTTGATTTT
1 AAACTATCCTAAATACCCATCTTCAGCATAAAAG-AAACCCAGTGACAACCTAAGACTCGATTTT
* * *
679671 AAAAAAATTACAAAAATACCCCTAAGGGATACCTTCGACTTAGAAGTGTCCAATAACCT-TAAAG
65 -AAAAAATTACAAAAATACCCTTAAGGGATACCTTCGACTTAGAAGTGTCCGAT-ACCTCCAAAG
*
679735 GACTTAAAAAGGATTATAGATGGGATG
128 GACTT-AAAAGGATTATAGATGGAATG
* * * * *
679762 AAACTATCCTAAATACCCATCTTCGGCATAAAAGAGACCCGGTGACAACCTACGACTCGGTTTTG
1 AAACTATCCTAAATACCCATCTTCAGCATAAAAGAAACCCAGTGACAACCTAAGACTCGATTTT-
** *** * * *
679827 AAAAAATTATGAAAATGTTCTTATGGGATACCTTCGACTTAAAAGTGTCCGATACCTCGAAAGGA
65 AAAAAATTACAAAAATACCCTTAAGGGATACCTTCGACTTAGAAGTGTCCGATACCTCCAAAGGA
*
679892 TTTAAAAAGGATTA
130 CTT-AAAAGGATTA
679906 GCAAACCTAT
Statistics
Matches: 254, Mismatches: 39, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
154 50 0.20
155 148 0.58
156 56 0.22
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.25
Consensus pattern (153 bp):
AAACTATCCTAAATACCCATCTTCAGCATAAAAGAAACCCAGTGACAACCTAAGACTCGATTTTA
AAAAATTACAAAAATACCCTTAAGGGATACCTTCGACTTAGAAGTGTCCGATACCTCCAAAGGAC
TTAAAAGGATTATAGATGGAATG
Found at i:680443 original size:140 final size:140
Alignment explanation
Indices: 680146--680923 Score: 865
Period size: 140 Copynumber: 5.7 Consensus size: 140
680136 ACAGAAAACA
* * * * * *
680146 GAAAGGATATGAAAGGTTTTGAGAATATCTATATCCTTAC-GAAAACCTATAGGAATGA-TAGAA
1 GAAAAGATATGAAAAGTTTTGAAAATTTCTATACCCCTACGGAAAACC-ATAGGAAT-ATTAGAA
* * * * * * *
680209 ATATTGGAAAATTAAGATTATAATTTTTATTTAATTTTTTAATTTCCAAAAATTCAATTTGTATC
64 ATCTTGAAAAATTAAGATAATAATTTTTATTTAA-TTTTTAATTTCTAAAAATTTATTTTGTACC
*
680274 TTAATGGAGAACT
128 TTAATGGAGAACC
* * *
680287 GAAAAGATACGAAAAGTTTTGAAAATTTCTATACCTCTATGGAAAACCATAGGAATATTAGAAAT
1 GAAAAGATATGAAAAGTTTTGAAAATTTCTATACCCCTACGGAAAACCATAGGAATATTAGAAAT
* * * * *
680352 ATTAAAAAATAAAAATAATAATTTTTATTTATTTTTTAATTTCTAAAAATTTATTTTGTACCTTA
66 CTTGAAAAATTAAGATAATAATTTTTATTTAATTTTTAATTTCTAAAAATTTATTTTGTACCTTA
680417 ATGGAGAACC
131 ATGGAGAACC
* * * * *
680427 AAAAAGATACGAAAAGTTTTAAAAATTTTTATACCCCTACAGAAAACCATAGGAATATTAGAAAT
1 GAAAAGATATGAAAAGTTTTGAAAATTTCTATACCCCTACGGAAAACCATAGGAATATTAGAAAT
* *** *
680492 CTTGAAAAATTAAGATAATAATTTTTATTTAATTTTTAATTTTTAAAAATTTATTTCACACTTTA
66 CTTGAAAAATTAAGATAATAATTTTTATTTAATTTTTAATTTCTAAAAATTTATTTTGTACCTTA
* *
680557 ATAGAAAACC
131 ATGGAGAACC
* * * *
680567 GAAAAGATATGAAAAGTTTTGAAGATTTCTGTACCCCTACAGAAAAGCATAGGAATATTAGAAAT
1 GAAAAGATATGAAAAGTTTTGAAAATTTCTATACCCCTACGGAAAACCATAGGAATATTAGAAAT
* * *
680632 TTTGAAAAATTAAGATAATAATTTTTATTTAATTTGTAATTT-TCAAAAATTCATTTTGTACCTT
66 CTTGAAAAATTAAGATAATAATTTTTATTTAATTTTTAATTTCT-AAAAATTTATTTTGTACCTT
**
680696 AATGGAGAATA
130 AATGGAGAACC
* ** * *
680707 AAAAAGATATGAAAAGTTTTGAAGGTTTCTATACCTCTACGGAAAACCATAGGAACATTAGAAAT
1 GAAAAGATATGAAAAGTTTTGAAAATTTCTATACCCCTACGGAAAACCATAGGAATATTAGAAAT
* **
680772 CTTGAAAAATTAAGATAATAA---TT-TTTAA----T--TTTC-AAAAATTTATTTCG-TACCTT
66 CTTGAAAAATTAAGATAATAATTTTTATTTAATTTTTAATTTCTAAAAATTT-ATTTTGTACCTT
680825 AATGGAGAACC
130 AATGGAGAACC
* * * * *
680836 GAATATATATGAAAAGTTTTGAAGATTTTTATACCCCTACGGAAAATC--A--AATATTAGAAAT
1 GAAAAGATATGAAAAGTTTTGAAAATTTCTATACCCCTACGGAAAACCATAGGAATATTAGAAAT
680897 CTTGAAAAATTAAGATAATAAATTTTT
66 CTTGAAAAATTAAGATAAT-AATTTTT
680924 TTCAACGATA
Statistics
Matches: 550, Mismatches: 78, Indels: 30
0.84 0.12 0.05
Matches are distributed among these distances:
125 30 0.05
126 2 0.00
127 1 0.00
129 65 0.12
130 5 0.01
132 1 0.00
136 5 0.01
137 2 0.00
139 1 0.00
140 359 0.65
141 72 0.13
142 7 0.01
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (140 bp):
GAAAAGATATGAAAAGTTTTGAAAATTTCTATACCCCTACGGAAAACCATAGGAATATTAGAAAT
CTTGAAAAATTAAGATAATAATTTTTATTTAATTTTTAATTTCTAAAAATTTATTTTGTACCTTA
ATGGAGAACC
Found at i:680832 original size:129 final size:125
Alignment explanation
Indices: 680661--680923 Score: 364
Period size: 129 Copynumber: 2.1 Consensus size: 125
680651 AATTTTTATT
* * *
680661 TAATTTGTAATTTTCAAAAATTCATTTTGTACCTTAATGGAGAATAAAAAAGATATGAAAAGTTT
1 TAATTTTTAATTTTCAAAAATTCATTTCGTACCTTAATGGAGAACAAAAAAGATATGAAAAGTTT
* *
680726 TGAAGGTTTCTATACCTCTACGGAAAACCATAGGAACATTAGAAATCTTGAAAAATTAAGATAA
66 TGAAGATTTCTATACCCCTACGGAAAACC--A--AACATTAGAAATCTTGAAAAATTAAGATAA
* ** * *
680790 TAATTTTTAATTTTCAAAAATTTATTTCGTACCTTAATGGAGAACCGAATATATATGAAAAGTTT
1 TAATTTTTAATTTTCAAAAATTCATTTCGTACCTTAATGGAGAACAAAAAAGATATGAAAAGTTT
* * *
680855 TGAAGATTTTTATACCCCTACGGAAAATCAAATATTAGAAATCTTGAAAAATTAAGATAA
66 TGAAGATTTCTATACCCCTACGGAAAACCAAACATTAGAAATCTTGAAAAATTAAGATAA
680915 TAAATTTTT
1 T-AATTTTT
680924 TTCAACGATA
Statistics
Matches: 120, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
125 30 0.25
126 7 0.06
127 1 0.01
129 82 0.68
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (125 bp):
TAATTTTTAATTTTCAAAAATTCATTTCGTACCTTAATGGAGAACAAAAAAGATATGAAAAGTTT
TGAAGATTTCTATACCCCTACGGAAAACCAAACATTAGAAATCTTGAAAAATTAAGATAA
Found at i:681655 original size:62 final size:62
Alignment explanation
Indices: 681589--681720 Score: 237
Period size: 62 Copynumber: 2.1 Consensus size: 62
681579 CACACAAAAA
*
681589 TCATCATCATTAGGATAAAATCAGGTTTAACAAAACGGGATTTCTCAAGCAAACAACAATTT
1 TCATCATCATTAGGATAAAATCAGGTTCAACAAAACGGGATTTCTCAAGCAAACAACAATTT
* *
681651 TCATCATCATTAGGATAAAATCATGTTCAACAAAATGGGATTTCTCAAGCAAACAACAATTT
1 TCATCATCATTAGGATAAAATCAGGTTCAACAAAACGGGATTTCTCAAGCAAACAACAATTT
681713 TCATCATC
1 TCATCATC
681721 TAAATCCTAT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 67 1.00
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (62 bp):
TCATCATCATTAGGATAAAATCAGGTTCAACAAAACGGGATTTCTCAAGCAAACAACAATTT
Found at i:682604 original size:167 final size:168
Alignment explanation
Indices: 682325--682748 Score: 486
Period size: 168 Copynumber: 2.5 Consensus size: 168
682315 ATGGGAGTTT
* ** * * *
682325 AATAATAATATTAGATGAATTTTAAAAATTTTAAACCGAGAAAAAT-CCCTCCCAAAATATTTAT
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCCAAAAACATTTA-
* * * *** *
682389 GGAA-TAGAAAAC-TCGATTTTTTGGAAATGGGAAAATTTCAAAG-AAAAAATAAAAAACTGATA
65 CGAAGTAGAAAACTTCG--TATTTCGAAAACAGAAAATTTCAAAGAAAAAAATAAAAAACTCATA
*
682451 AAAATGAATGA-TTTTTTGAAAAATGATTTACTAT-ATATTA
128 AAAATGAATGATTTTTTTGAAAAATGATTTAATATGA-ATTA
*
682491 AATAATAATATTTTATGAATTTTAAAAAATTAAAAACCAAGAAAAATCCCCTCCAAAAACATTTA
1 AATAATAATATTTGATGAATTTT-AAAAATTAAAAACCAAGAAAAATCCCCTCCAAAAACATTTA
* * *
682556 CGAAGTAGAAAACTTCGTATTTCGAAAACATAAGAATTTC-AAGAAAAAAATGAAAAACTCATGA
65 CGAAGTAGAAAACTTCGTATTTCGAAAACAGAA-AATTTCAAAGAAAAAAATAAAAAACTCATAA
*
682620 AAATGAATGATTTTTTTGAAAACTGATTTAATATGAATTA
129 AAATGAATGATTTTTTTGAAAAATGATTTAATATGAATTA
* * * ** *
682660 AATAATAATATTTGATGAATTTTAAAATTTAAAAACTAAGAAAAAACCCCT-TGAAAACATTTAT
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCCAAAAACATTTAC
* **
682724 GGAGTAGAAAACTTTATATTTCGAA
66 GAAGTAGAAAACTTCGTATTTCGAA
682749 GATAGGAGGG
Statistics
Matches: 221, Mismatches: 29, Indels: 15
0.83 0.11 0.06
Matches are distributed among these distances:
166 21 0.10
167 68 0.31
168 81 0.37
169 50 0.23
170 1 0.00
ACGTcount: A:0.49, C:0.09, G:0.10, T:0.31
Consensus pattern (168 bp):
AATAATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCTCCAAAAACATTTAC
GAAGTAGAAAACTTCGTATTTCGAAAACAGAAAATTTCAAAGAAAAAAATAAAAAACTCATAAAA
ATGAATGATTTTTTTGAAAAATGATTTAATATGAATTA
Found at i:683502 original size:31 final size:33
Alignment explanation
Indices: 683453--683550 Score: 121
Period size: 36 Copynumber: 2.9 Consensus size: 33
683443 CCTTACAACA
*
683453 CTATCTTTTGAAAGCTAAGATAGAA-C-CTC-C
1 CTATCTTTTCAAAGCTAAGATAGAACCTCTCTC
683483 CTATCTTTTCACAAGCTAAGATAGAACCTCTCTC
1 CTATCTTTTCA-AAGCTAAGATAGAACCTCTCTC
*
683517 CTTATCTTTTTCAAAGGCTAAGATAGAATCTCTC
1 C-TATC-TTTTCAAA-GCTAAGATAGAACCTCTC
683551 AATCACTTCG
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
30 10 0.17
31 14 0.24
32 1 0.02
33 3 0.05
34 2 0.03
35 6 0.10
36 23 0.39
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (33 bp):
CTATCTTTTCAAAGCTAAGATAGAACCTCTCTC
Found at i:684872 original size:61 final size:60
Alignment explanation
Indices: 684777--684897 Score: 190
Period size: 61 Copynumber: 2.0 Consensus size: 60
684767 TTGTGTGATT
*
684777 TTTATGAAATGCTTCCCCTTAATAAAACATTTATTAACAACTTCTCCCCCCTAATCTATTC
1 TTTATGAAATGC-TCCCCTTAACAAAACATTTATTAACAACTTCTCCCCCCTAATCTATTC
*
684838 TTTATGAAATAG-TCCCCTTTAACAAAACATTTATTAACAACTTCTCCCCCTTAATCTATT
1 TTTATGAAAT-GCTCCCC-TTAACAAAACATTTATTAACAACTTCTCCCCCCTAATCTATT
684898 TTTCCCAACT
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
60 5 0.09
61 50 0.89
62 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.03, T:0.38
Consensus pattern (60 bp):
TTTATGAAATGCTCCCCTTAACAAAACATTTATTAACAACTTCTCCCCCCTAATCTATTC
Found at i:686989 original size:21 final size:21
Alignment explanation
Indices: 686947--686985 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
686937 AAATTCATAT
*
686947 ACAATTAAGCACATAACATCA
1 ACAATTAAGCACAAAACATCA
686968 ACAATTAA-CACAAAACAT
1 ACAATTAAGCACAAAACAT
686986 TCAAGATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.56, C:0.23, G:0.03, T:0.18
Consensus pattern (21 bp):
ACAATTAAGCACAAAACATCA
Found at i:687926 original size:21 final size:22
Alignment explanation
Indices: 687905--687959 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
687895 AGTTAATTCA
687905 TCATTTTCTTCTTGCAACTCATT
1 TCATTTTCTTCTTGCAACTCA-T
**
687928 TC-TTTTCTT-TTTTAACTCAT
1 TCATTTTCTTCTTGCAACTCAT
687948 TCATTTTCTTCT
1 TCATTTTCTTCT
687960 CTAGTTCACT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 3 0.11
21 15 0.54
22 8 0.29
23 2 0.07
ACGTcount: A:0.15, C:0.24, G:0.02, T:0.60
Consensus pattern (22 bp):
TCATTTTCTTCTTGCAACTCAT
Found at i:689624 original size:31 final size:32
Alignment explanation
Indices: 689585--689670 Score: 93
Period size: 36 Copynumber: 2.6 Consensus size: 32
689575 CTATCTTTTG
689585 AAGGCTAAGATAAAACCTCCCTATC-CTTTCA
1 AAGGCTAAGATAAAACCTCCCTATCTCTTTCA
* * *
689616 TAGGCTAAGATAGAACCTTTCTCCCTATCTTTTTCA
1 AAGGCTAAGATA-AAAC---CTCCCTATCTCTTTCA
*
689652 AAGGCTAAGATAGAACCTC
1 AAGGCTAAGATAAAACCTC
689671 TCAATCACTT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
31 11 0.25
32 6 0.14
35 11 0.25
36 16 0.36
ACGTcount: A:0.33, C:0.26, G:0.13, T:0.29
Consensus pattern (32 bp):
AAGGCTAAGATAAAACCTCCCTATCTCTTTCA
Found at i:689657 original size:36 final size:35
Alignment explanation
Indices: 689601--689669 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 35
689591 AAGATAAAAC
*
689601 CTCCCTATCCTTTCATAGGCTAAGATAGAACCTTT
1 CTCCCTATCCTTTCAAAGGCTAAGATAGAACCTTT
*
689636 CTCCCTATCTTTTTCAAAGGCTAAGATAGAACCT
1 CTCCCTATC-CTTTCAAAGGCTAAGATAGAACCT
689670 CTCAATCACT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 9 0.29
36 22 0.71
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.33
Consensus pattern (35 bp):
CTCCCTATCCTTTCAAAGGCTAAGATAGAACCTTT
Found at i:691017 original size:35 final size:35
Alignment explanation
Indices: 690971--691139 Score: 180
Period size: 35 Copynumber: 4.8 Consensus size: 35
690961 ACTAAAACAA
* *
690971 CCAAACGATGATGAGAAGAGTTTTACTAGATATAG
1 CCAAACGATGATGAGAAGAGTTTGACCAGATATAG
* *
691006 CCAAACGATGATGAAAAGAGTTTAACCAGATATA-
1 CCAAACGATGATGAGAAGAGTTTGACCAGATATAG
* * * *
691040 CCTAAATGATGA-CAGAAAAAGTTTGACCAGATATAA
1 CC-AAACGATGATGAG-AAGAGTTTGACCAGATATAG
* *
691076 CCAAACGATGATGAAAAGAGTTTGACCAGATGTAG
1 CCAAACGATGATGAGAAGAGTTTGACCAGATATAG
* * * *
691111 CTAAATGATGATGAGAAGGGTTTAACCAG
1 CCAAACGATGATGAGAAGAGTTTGACCAG
691140 GTCCTAATGC
Statistics
Matches: 111, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
34 3 0.03
35 105 0.95
36 3 0.03
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (35 bp):
CCAAACGATGATGAGAAGAGTTTGACCAGATATAG
Found at i:691139 original size:70 final size:70
Alignment explanation
Indices: 690977--691139 Score: 220
Period size: 70 Copynumber: 2.3 Consensus size: 70
690967 ACAACCAAAC
* * *
690977 GATGATGAGAAGAGTTTTACTAGATATAGCCAAACGATGATGAAAAGAGTTTAACCAGATATACC
1 GATGATGAGAAGAGTTTAACCAGATATAACCAAACGATGATGAAAAGAGTTTAACCAGATATACC
691042 TAAAT
66 TAAAT
* * * * * *
691047 GATGA-CAGAAAAAGTTTGACCAGATATAACCAAACGATGATGAAAAGAGTTTGACCAGATGTAG
1 GATGATGAG-AAGAGTTTAACCAGATATAACCAAACGATGATGAAAAGAGTTTAACCAGATATAC
691111 CTAAAT
65 CTAAAT
*
691117 GATGATGAGAAGGGTTTAACCAG
1 GATGATGAGAAGAGTTTAACCAG
691140 GTCCTAATGC
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
69 2 0.03
70 75 0.95
71 2 0.03
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (70 bp):
GATGATGAGAAGAGTTTAACCAGATATAACCAAACGATGATGAAAAGAGTTTAACCAGATATACC
TAAAT
Found at i:691244 original size:45 final size:45
Alignment explanation
Indices: 691176--691392 Score: 184
Period size: 45 Copynumber: 4.8 Consensus size: 45
691166 CATTGAGAAG
* *
691176 AGTTTGACCAAGTCCTAATGCCAATACAGCCAAATGAGGGAAGAC
1 AGTTTGACCAGGTCCTAATGCCAATACAACCAAATGAGGGAAGAC
* * * * * * * *
691221 CGTTTGACCAGGTCCTAACGCCAATACAGTCAAAACGGGGGTGAAAAG
1 AGTTTGACCAGGTCCTAATGCCAATACA-ACCAAA-TGAGG-GAAGAC
* * ** * ** *
691269 AGTTTGACTAGATTTTAATGCCAATACAATCAAACAAGGGTAA-AG
1 AGTTTGACCAGGTCCTAATGCCAATACAACCAAATGAGGG-AAGAC
* *
691314 AGTTTGACCAGGTCCTAATGCCAATACAATCAAATGAAGGAAGAC
1 AGTTTGACCAGGTCCTAATGCCAATACAACCAAATGAGGGAAGAC
* * *
691359 AGTTTGACTAGGTCCTAATACCAATACAATCAAA
1 AGTTTGACCAGGTCCTAATGCCAATACAACCAAA
691393 CGAAATTAAA
Statistics
Matches: 136, Mismatches: 31, Indels: 10
0.77 0.18 0.06
Matches are distributed among these distances:
44 2 0.01
45 94 0.69
46 8 0.06
47 6 0.04
48 26 0.19
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (45 bp):
AGTTTGACCAGGTCCTAATGCCAATACAACCAAATGAGGGAAGAC
Found at i:691292 original size:48 final size:46
Alignment explanation
Indices: 691130--691392 Score: 166
Period size: 45 Copynumber: 5.7 Consensus size: 46
691120 GATGAGAAGG
* * * **
691130 GTTTAACCAGGTCCTAATGCCAATACATTC-AAACGACATTG-AGAAGA
1 GTTTGACCAGATCCTAATGCCAATACAATCAAAAC-A-AGGGTA-AAGA
* * **
691177 GTTTGACCA-AGTCCTAATGCCAATAC-AGCCAAATGAGGG--AAGA
1 GTTTGACCAGA-TCCTAATGCCAATACAATCAAAACAAGGGTAAAGA
* * * **
691220 CCGTTTGACCAGGTCCTAACGCCAATACAGTCAAAACGGGGGTGAAAAGA
1 --GTTTGACCAGATCCTAATGCCAATACAATCAAAACAAGGGT--AAAGA
* **
691270 GTTTGACTAGATTTTAATGCCAATACAATC-AAACAAGGGTAAAGA
1 GTTTGACCAGATCCTAATGCCAATACAATCAAAACAAGGGTAAAGA
* ** *
691315 GTTTGACCAGGTCCTAATGCCAATACAATCAAATGAA-GG-AAGACA
1 GTTTGACCAGATCCTAATGCCAATACAATCAAAACAAGGGTAA-AGA
* * *
691360 GTTTGACTAGGTCCTAATACCAATACAATCAAA
1 GTTTGACCAGATCCTAATGCCAATACAATCAAA
691393 CGAAATTAAA
Statistics
Matches: 172, Mismatches: 32, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
43 4 0.02
44 2 0.01
45 91 0.53
46 13 0.08
47 34 0.20
48 24 0.14
50 4 0.02
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (46 bp):
GTTTGACCAGATCCTAATGCCAATACAATCAAAACAAGGGTAAAGA
Found at i:691293 original size:93 final size:92
Alignment explanation
Indices: 691130--691393 Score: 243
Period size: 93 Copynumber: 2.9 Consensus size: 92
691120 GATGAGAAGG
* * * *
691130 GTTTAACCAGGTCCTAATGCCAATACATTC-AAACGACATTGAGAAGAGTTTGACCAAGTCCTAA
1 GTTTGACCAGGTCCTAATGCCAATACAATCAAAACGACAGTGAAAAGAGTTTGACCAAGTCCTAA
* **
691194 TGCCAATACAGCCAAATGAGGG-AAGA
66 TGCCAATACAACCAAACAAGGGAAAGA
* * *** * **
691220 CCGTTTGACCAGGTCCTAACGCCAATACAGTCAAAACGGGGGTGAAAAGAGTTTGA-CTAGATTT
1 --GTTTGACCAGGTCCTAATGCCAATACAATCAAAACGACAGTGAAAAGAGTTTGACCAAG-TCC
*
691284 TAATGCCAATACAATCAAACAAGGGTAAAGA
63 TAATGCCAATACAACCAAACAAGGG-AAAGA
* * * * *
691315 GTTTGACCAGGTCCTAATGCCAATACAATC-AAATGA-AG-GAAGACAGTTTGACTAGGTCCTAA
1 GTTTGACCAGGTCCTAATGCCAATACAATCAAAACGACAGTGAAAAGAGTTTGACCAAGTCCTAA
* *
691377 TACCAATACAATCAAAC
66 TGCCAATACAACCAAAC
691394 GAAATTAAAA
Statistics
Matches: 139, Mismatches: 28, Indels: 12
0.78 0.16 0.07
Matches are distributed among these distances:
90 31 0.22
91 2 0.01
92 34 0.24
93 68 0.49
95 4 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (92 bp):
GTTTGACCAGGTCCTAATGCCAATACAATCAAAACGACAGTGAAAAGAGTTTGACCAAGTCCTAA
TGCCAATACAACCAAACAAGGGAAAGA
Found at i:691963 original size:89 final size:89
Alignment explanation
Indices: 691846--692012 Score: 255
Period size: 89 Copynumber: 1.9 Consensus size: 89
691836 CTAAAAGAAA
* * *
691846 GGGATATGATTTGGAATGAGTGGGCTGCACCCTACCCT-AAGGAAATTAGGCTTTGTGATGCATC
1 GGGATATGATTGGGAATGAGTGGGCTGCACCCT-CCCTCAAGGAAACTAAGCTTTGTGATGCATC
*
691910 AATGCCATCTAGTGGTTGGATAAAG
65 AATACCATCTAGTGGTTGGATAAAG
* *
691935 GGGATATGATTGGGAATGTGTGGGCTGCACCCTGCCTCAAGGAAACTAAGCTTTGTGATGCATCA
1 GGGATATGATTGGGAATGAGTGGGCTGCACCCTCCCTCAAGGAAACTAAGCTTTGTGATGCATCA
*
692000 ATACTATCTAGTG
66 ATACCATCTAGTG
692013 ATTGAAGGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
88 3 0.04
89 67 0.96
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (89 bp):
GGGATATGATTGGGAATGAGTGGGCTGCACCCTCCCTCAAGGAAACTAAGCTTTGTGATGCATCA
ATACCATCTAGTGGTTGGATAAAG
Found at i:692032 original size:89 final size:89
Alignment explanation
Indices: 691808--692040 Score: 240
Period size: 89 Copynumber: 2.6 Consensus size: 89
691798 GCGGTTCCCC
* * ** * * *
691808 CTTT-TGATGCTTCAATACCCTCTAGTGGCT-AAAAGAAAGGGATATGATTTGGAATGAGTGGGC
1 CTTTGTGATGCATCAATACCATCTAGTGATTGAAGA-AAAGAGATATGATTGGGAATGAGTGGGC
* *
691871 TGCACCCTACCCTAAGGAAATTAGG
65 TGCACCCTACCCTAAGGAAACTAAG
* * * * * * *
691896 CTTTGTGATGCATCAATGCCATCTAGTGGTTGGATAAAGGGGATATGATTGGGAATGTGTGGGCT
1 CTTTGTGATGCATCAATACCATCTAGTGATTGAAGAAAAGAGATATGATTGGGAATGAGTGGGCT
*
691961 GCACCCT-GCCTCAAGGAAACTAAG
66 GCACCCTACCCT-AAGGAAACTAAG
* *
691985 CTTTGTGATGCATCAATACTATCTAGTGATTGAAGGAAAATAG-TATGATTGGGAAT
1 CTTTGTGATGCATCAATACCATCTAGTGATTGAA-GAAAAGAGATATGATTGGGAAT
692041 ATCTGGGCAG
Statistics
Matches: 121, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
88 7 0.06
89 108 0.89
90 6 0.05
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (89 bp):
CTTTGTGATGCATCAATACCATCTAGTGATTGAAGAAAAGAGATATGATTGGGAATGAGTGGGCT
GCACCCTACCCTAAGGAAACTAAG
Found at i:692818 original size:88 final size:82
Alignment explanation
Indices: 692621--692819 Score: 211
Period size: 82 Copynumber: 2.4 Consensus size: 82
692611 AAATGGTTAG
* *
692621 TGCATATGAAATGATGCAAATACTCATGTCATCTAAAGTGCGAATATGCGTGTAATAATGAAGCC
1 TGCATATGAAATGATGCAAATACTAATGTCATCTAAAGTGCGAATATGCGTGAAATAATGAAGCC
** *
692686 ATTAATAAAGTGGCAAA
66 ATTAATAAAAAGGAAAA
** * * *
692703 TGCATATGAAAT-ATTGCAAATGTTAATGTCATCTGAAGTGCTAATGTGCGTGAAATAATGCAAA
1 TGCATATGAAATGA-TGCAAATACTAATGTCATCTAAAGTGCGAATATGCGTGAAATAATG--AA
*
692767 TGCAAGGATTAATAAAAAGGAAAA
63 -GC---CATTAATAAAAAGGAAAA
* *
692791 TGCGTATGGAATGATGCAAATACTAATGT
1 TGCATATGAAATGATGCAAATACTAATGT
692820 TATTTAAAAT
Statistics
Matches: 94, Mismatches: 15, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
81 1 0.01
82 51 0.54
84 2 0.02
85 2 0.02
88 37 0.39
89 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.21, T:0.28
Consensus pattern (82 bp):
TGCATATGAAATGATGCAAATACTAATGTCATCTAAAGTGCGAATATGCGTGAAATAATGAAGCC
ATTAATAAAAAGGAAAA
Found at i:693654 original size:20 final size:20
Alignment explanation
Indices: 693616--693655 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
693606 ATTCTTTCTA
* *
693616 TTTTTTTGCTTTTTCCTCTT
1 TTTTTTTGCTTTATACTCTT
*
693636 TTTTTTTTCTTTATACTCTT
1 TTTTTTTGCTTTATACTCTT
693656 AAGAAAAGCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.05, C:0.17, G:0.03, T:0.75
Consensus pattern (20 bp):
TTTTTTTGCTTTATACTCTT
Found at i:693963 original size:22 final size:25
Alignment explanation
Indices: 693938--693995 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
693928 TATCTACACT
693938 TTTTTC-ATTTCATGTTT-TT-TTC
1 TTTTTCTATTTCATGTTTCTTCTTC
* *
693960 TTTTTCTTTTTCATTTTTCTTCTTC
1 TTTTTCTATTTCATGTTTCTTCTTC
*
693985 TTTTTTTATTT
1 TTTTTCTATTT
693996 AAAGGAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 6 0.21
23 9 0.31
24 2 0.07
25 12 0.41
ACGTcount: A:0.07, C:0.14, G:0.02, T:0.78
Consensus pattern (25 bp):
TTTTTCTATTTCATGTTTCTTCTTC
Found at i:693965 original size:6 final size:6
Alignment explanation
Indices: 693954--693989 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
693944 ATTTCATGTT
*
693954 TTTTTC TTTTTC TTTTTC ATTTTTC TTCTTC TTTTT
1 TTTTTC TTTTTC TTTTTC -TTTTTC TTTTTC TTTTT
693990 TTATTTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTTC
Found at i:694906 original size:23 final size:23
Alignment explanation
Indices: 694876--694920 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
694866 ATTTATCTCA
*
694876 TCAAAATATTCA-ATATTCAAAAT
1 TCAAAATATACATAT-TTCAAAAT
694899 TCAAAATATACATATTTCAAAA
1 TCAAAATATACATATTTCAAAA
694921 AAAGATGTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.33
Consensus pattern (23 bp):
TCAAAATATACATATTTCAAAAT
Found at i:697707 original size:80 final size:79
Alignment explanation
Indices: 697600--697867 Score: 251
Period size: 79 Copynumber: 3.4 Consensus size: 79
697590 AGAGATGTGG
* *
697600 GGTTGGAGTATCCTTAAGAT-GAAAAAAATTTAATATTTTGGAAGTAAAAACAGGGTTAGAGTAT
1 GGTTGGAGTATCC-T--GATGGTAAAAAATTCAATATTTTGGAAGTAAAAACAGGGTTAGAGTAT
* *
697664 CCTCTTGAAAATGGTGA
63 CCTCTTAAAAATGATGA
* * * * * * *
697681 GGTTGGAGCATCCCTAATGGTGAAAAA-TCGATATTTTGAAAATAAGAAC-GAGGTT-GAAGTAT
1 GGTTGGAGTAT-CCTGATGGTAAAAAATTCAATATTTTGGAAGTAAAAACAG-GGTTAG-AGTAT
* *
697743 CTTCTCAAAAATGAT-A
63 CCTCTTAAAAATGATGA
* * *
697759 GGGTTGGAGTATCCTCGATGGTAAAAAATTCAATATTTGGGAAGTAAAAATAGGTTTAGAGTATC
1 -GGTTGGAGTATCCT-GATGGTAAAAAATTCAATATTTTGGAAGTAAAAACAGGGTTAGAGTATC
* *
697824 C-CTTCAAAAATTATGG
64 CTCTT-AAAAATGATGA
697840 GGTTGGAGTATCCTGATGGTAAAAAATT
1 GGTTGGAGTATCCTGATGGTAAAAAATT
697868 TGATGTTTGA
Statistics
Matches: 149, Mismatches: 27, Indels: 24
0.75 0.14 0.12
Matches are distributed among these distances:
78 6 0.04
79 75 0.50
80 53 0.36
81 13 0.09
82 2 0.01
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (79 bp):
GGTTGGAGTATCCTGATGGTAAAAAATTCAATATTTTGGAAGTAAAAACAGGGTTAGAGTATCCT
CTTAAAAATGATGA
Found at i:697907 original size:80 final size:80
Alignment explanation
Indices: 697747--697907 Score: 182
Period size: 80 Copynumber: 2.0 Consensus size: 80
697737 AAGTATCTTC
** *
697747 TCAAAAATGATAGGGTTGGAGTATCCTCGATGGTAAAAAATTCAATATTTGGGAAGTAAAAATAG
1 TCAAAAATGATAGGGTTGGAGTATCCTCGATGGTAAAAAATTCAATATTTGAAAAGGAAAAATAG
* *
697812 GTTTAGAGTATCCCT
66 GGTTAGAGTACCCCT
* * ** * * *
697827 TCAAAAATTATGGGGTTGGAGTATCCT-GATGGTAAAAAATTTGATGTTTGAAAAGGGAAAATTG
1 TCAAAAATGATAGGGTTGGAGTATCCTCGATGGTAAAAAATTCAATATTTGAAAA-GGAAAAATA
697891 GGGTT-GATGTACCCCT
65 GGGTTAGA-GTACCCCT
697907 T
1 T
697908 TGGATGTTTT
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
79 24 0.36
80 43 0.64
ACGTcount: A:0.35, C:0.09, G:0.25, T:0.31
Consensus pattern (80 bp):
TCAAAAATGATAGGGTTGGAGTATCCTCGATGGTAAAAAATTCAATATTTGAAAAGGAAAAATAG
GGTTAGAGTACCCCT
Found at i:706266 original size:52 final size:51
Alignment explanation
Indices: 706204--706342 Score: 199
Period size: 51 Copynumber: 2.7 Consensus size: 51
706194 AATAGCCTGT
* * *
706204 ATGTATCGATACATTGAAGAATGAATCGATACATTTGGGTCAAAAACCCAGA
1 ATGTATCGATACAATGAAGAATGTATAGATACATTTGGGT-AAAAACCCAGA
* * *
706256 ATGTATCGATAAAATGAAGAATGTATTA-ATACATTTGGGTTAAAACCTAGA
1 ATGTATCGATACAATGAAGAATGTA-TAGATACATTTGGGTAAAAACCCAGA
706307 ATGTATCGATACAATGAAGAATGTATAGATACATTT
1 ATGTATCGATACAATGAAGAATGTATAGATACATTT
706343 TCATTCTAGA
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
50 2 0.03
51 41 0.53
52 34 0.44
53 1 0.01
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.29
Consensus pattern (51 bp):
ATGTATCGATACAATGAAGAATGTATAGATACATTTGGGTAAAAACCCAGA
Found at i:706404 original size:21 final size:21
Alignment explanation
Indices: 706378--706433 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
706368 GAGGTGGTCC
*
706378 TGTATTGATATATTTCAAACA
1 TGTATTGATACATTTCAAACA
706399 TGTATTGATACATTTCAAACA
1 TGTATTGATACATTTCAAACA
*
706420 TGTATCGATACATT
1 TGTATTGATACATT
706434 CACTTATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (21 bp):
TGTATTGATACATTTCAAACA
Found at i:707835 original size:18 final size:18
Alignment explanation
Indices: 707812--707849 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
707802 GGATGGAAAA
707812 AATTTCACGTACTATTCT
1 AATTTCACGTACTATTCT
707830 AATTTCACGTACTATTCT
1 AATTTCACGTACTATTCT
707848 AA
1 AA
707850 CTCTGAGACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.21, G:0.05, T:0.42
Consensus pattern (18 bp):
AATTTCACGTACTATTCT
Found at i:708276 original size:157 final size:155
Alignment explanation
Indices: 707985--708443 Score: 568
Period size: 157 Copynumber: 2.9 Consensus size: 155
707975 GGAAAAATCA
* * * *
707985 AACCTATCCCTAAATACACACCTTCGACATAAAAG-TGAACTCGGTGACAACCTAAGACTTGATT
1 AACCTAT-CCTAAATACCCACCTTCGGCATAAAAGCAG-ACCCGGTGACAACCTAAGACTTGATT
* * * *
708049 -TTGAAAAATTA-CAAATATGCCCCTAATGGGATACCTTCGACTTAAAAGTGCCTGATACGCC-T
64 CTAGAAAAATTATGAAA-ATGCCCCT-AGGGGATACCTTCGACTTAAAAGT-TCTGATAC-CCTT
*
708111 AAAGGACTTAAAAAGTATTATAAAT-GGAATG
125 AAAGGACTTAAAAAGGATTATAAATAGG-ATG
* * *
708142 AACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACCCGATGATAACCTAACACTTGATTCT
1 AACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACCCGGTGACAACCTAAGACTTGATTCT
* * * *
708207 AGAAAAAAGTATGAAAATGCCTCTAGGGGATACCTTTGACTTAAAAGTATCTGATACCCTTAAAA
66 AG-AAAAATTATGAAAATGCCCCTAGGGGATACCTTCGACTTAAAAGT-TCTGATACCCTTAAAG
708272 GACTTAAAAAGGATTATAAATAGGATG
129 GACTTAAAAAGGATTATAAATAGGATG
** * * * *
708299 AACCTATCCTAAATACCCATTTTTGGCATAAAAGCGGACCTGGTGACAACCTAAGACTCGATTCT
1 AACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACCCGGTGACAACCTAAGACTTGATTCT
* * *
708364 AGAAAAATTATGAAAATGCCCCTAGGAGATACCTTCGACTTAGAAGTTCTCGATACCCTGAAAGG
66 AGAAAAATTATGAAAATGCCCCTAGGGGATACCTTCGACTTAAAAGTTCT-GATACCCTTAAAGG
708429 ACTTAAAAAGGATTA
130 ACTTAAAAAGGATTA
708444 GCAAAGCTAC
Statistics
Matches: 262, Mismatches: 33, Indels: 15
0.85 0.11 0.05
Matches are distributed among these distances:
155 3 0.01
156 116 0.44
157 124 0.47
158 16 0.06
159 3 0.01
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (155 bp):
AACCTATCCTAAATACCCACCTTCGGCATAAAAGCAGACCCGGTGACAACCTAAGACTTGATTCT
AGAAAAATTATGAAAATGCCCCTAGGGGATACCTTCGACTTAAAAGTTCTGATACCCTTAAAGGA
CTTAAAAAGGATTATAAATAGGATG
Found at i:708877 original size:141 final size:140
Alignment explanation
Indices: 708744--709505 Score: 1048
Period size: 141 Copynumber: 5.4 Consensus size: 140
708734 TCTATATCTT
* * *
708744 TACGG-AAACCGATAGGAATGA-AAGAAATATTGGAAAATTAAGATAATAATTTTTATTTAATTT
1 TACGGAAAACC-ATAGGAAT-ATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAA-TT
* *
708807 TTTAATTTTTAAAAACTCATTTCGTACCTTAATGGAGAACCGAAAAGATATGAAAAGTTTTGAAG
63 TTTAATTTTCAAAAATTCATTTCGTACCTTAATGGAGAACCGAAAAGATATGAAAAGTTTTGAAG
708872 ATTTCTATACCCC
128 ATTTCTATACCCC
* * * * * *
708885 TATGGAAAACCATAAGAATGTTAGAAATCTTCAAAAATTAAGATAATAATTTTTATATAATTTTA
1 TACGGAAAACCATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTTTT
* * * * * * * * * *
708950 AATTTTTAAAAATTTATTTTGTGCCTTAATGAAAAACTGAAAAAATACGAAAAGTTTTAAAGATT
66 AATTTTCAAAAATTCATTTCGTACCTTAATGGAGAACCGAAAAGATATGAAAAGTTTTGAAGATT
709015 TCTATACCCC
131 TCTATACCCC
709025 TACGGAAAACCATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTTTT
1 TACGGAAAACCATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTTTT
* * * ** *
709090 AATTTTCAAAAATTCATTTCGTTCCTTAATAGAAAATTGAAAAGATATGAAAAGTTTTAAAGGAT
66 AATTTTCAAAAATTCATTTCGTACCTTAATGGAGAACCGAAAAGATATGAAAAGTTTTGAA-GAT
* *
709155 TTTTGTACCCC
130 TTCTATACCCC
*
709166 TACGGAAAACCATATGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTTTT
1 TACGGAAAACCATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTTTT
* * **
709231 AATTTCCAAAAATTCATTTCGTACTTTAATGGAGAACCGAAAAGATACAAAAAGTTTTGAAGGAT
66 AATTTTCAAAAATTCATTTCGTACCTTAATGGAGAACCGAAAAGATATGAAAAGTTTTGAA-GAT
709296 TT-TATACCCCC
130 TTCTATA-CCCC
709307 TAC-GAAAACCATAGGAATATTAGAAATCTTGAAAAAATTAAGATAATAATTTTTATTTAATTTT
1 TACGGAAAACCATAGGAATATTAGAAATCTTG-AAAAATTAAGATAATAATTTTTATTTAATTTT
*
709371 TAATTTTCAAAAATTCATTTCGTACCTTAATGGAGAATCGAAAAGATATGAAAAGTTTTGAAGAT
65 TAATTTTCAAAAATTCATTTCGTACCTTAATGGAGAACCGAAAAGATATGAAAAGTTTTGAAGAT
* *
709436 TTTTATACCTC
130 TTCTATACCCC
* * * *
709447 TACGAAAAATCATAAGAATATT-GAAAATCTTGAAAAATTAAGATAATAAATTTTATTTA
1 TACGGAAAACCATAGGAATATTAG-AAATCTTGAAAAATTAAGATAATAATTTTTATTTA
709506 GTGATAAAAT
Statistics
Matches: 554, Mismatches: 59, Indels: 17
0.88 0.09 0.03
Matches are distributed among these distances:
140 248 0.45
141 301 0.54
142 5 0.01
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (140 bp):
TACGGAAAACCATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTTTT
AATTTTCAAAAATTCATTTCGTACCTTAATGGAGAACCGAAAAGATATGAAAAGTTTTGAAGATT
TCTATACCCC
Found at i:709503 original size:281 final size:280
Alignment explanation
Indices: 708744--709505 Score: 1102
Period size: 281 Copynumber: 2.7 Consensus size: 280
708734 TCTATATCTT
* * *
708744 TACGG-AAACCGATAGGAATGA-AAGAAATATTGGAAAATTAAGATAATAATTTTTATTTAATTT
1 TACGGAAAACC-ATAGGAAT-ATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAA-TT
* * *
708807 TTTAATTTTTAAAAACTCATTTCGTACCTTAATGGAGAACCGAAAAGATATGAAAAGTTTTGAAG
63 TTTAATTTTCAAAAATTCATTTCGTACCTTAATGGAGAATCGAAAAGATATGAAAAGTTTTGAAG
* * * *
708872 ATTTCTATACCCCTATGGAAAACCATAAGAATGTTAGAAATCTTCAAAAATTAAGATAATAATTT
128 ATTTTTATACCCCTACGGAAAACCATAAGAATATTAGAAATCTTGAAAAATTAAGATAATAATTT
* ** * * * * *
708937 TTATATAATTTTAAATTTTTAAAAATTTATTTTGTGCCTTAATGAAAAACTGAAAAAATACGAAA
193 TTATTTAATTTTAAATTTCCAAAAATTCATTTCGTACCTTAATGAAAAACCGAAAAAATACAAAA
709002 AGTTTTAAAGATTTCTATACCCC
258 AGTTTTAAAGATTTCTATACCCC
709025 TACGGAAAACCATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTTTT
1 TACGGAAAACCATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTTTT
* * * * *
709090 AATTTTCAAAAATTCATTTCGTTCCTTAATAGAAAATTGAAAAGATATGAAAAGTTTTAAAGGAT
66 AATTTTCAAAAATTCATTTCGTACCTTAATGGAGAATCGAAAAGATATGAAAAGTTTTGAA-GAT
* *
709155 TTTTGTACCCCTACGGAAAACCATATGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTT
130 TTTTATACCCCTACGGAAAACCATAAGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTT
* * * * *
709220 ATTTAATTTTTAATTTCCAAAAATTCATTTCGTACTTTAATGGAGAACCGAAAAGATACAAAAAG
195 ATTTAATTTTAAATTTCCAAAAATTCATTTCGTACCTTAATGAAAAACCGAAAAAATACAAAAAG
*
709285 TTTTGAAGGATTT-TATACCCCC
260 TTTT-AAAGATTTCTATA-CCCC
709307 TAC-GAAAACCATAGGAATATTAGAAATCTTGAAAAAATTAAGATAATAATTTTTATTTAATTTT
1 TACGGAAAACCATAGGAATATTAGAAATCTTG-AAAAATTAAGATAATAATTTTTATTTAATTTT
709371 TAATTTTCAAAAATTCATTTCGTACCTTAATGGAGAATCGAAAAGATATGAAAAGTTTTGAAGAT
65 TAATTTTCAAAAATTCATTTCGTACCTTAATGGAGAATCGAAAAGATATGAAAAGTTTTGAAGAT
* * * *
709436 TTTTATACCTCTACGAAAAATCATAAGAATATT-GAAAATCTTGAAAAATTAAGATAATAAATTT
130 TTTTATACCCCTACGGAAAACCATAAGAATATTAG-AAATCTTGAAAAATTAAGATAATAATTTT
709500 TATTTA
194 TATTTA
709506 GTGATAAAAT
Statistics
Matches: 432, Mismatches: 42, Indels: 14
0.89 0.09 0.03
Matches are distributed among these distances:
280 60 0.14
281 264 0.61
282 108 0.25
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (280 bp):
TACGGAAAACCATAGGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTATTTAATTTTT
AATTTTCAAAAATTCATTTCGTACCTTAATGGAGAATCGAAAAGATATGAAAAGTTTTGAAGATT
TTTATACCCCTACGGAAAACCATAAGAATATTAGAAATCTTGAAAAATTAAGATAATAATTTTTA
TTTAATTTTAAATTTCCAAAAATTCATTTCGTACCTTAATGAAAAACCGAAAAAATACAAAAAGT
TTTAAAGATTTCTATACCCC
Found at i:710209 original size:11 final size:11
Alignment explanation
Indices: 710193--710220 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
710183 ATTTTCATGG
710193 TGAAAATCATA
1 TGAAAATCATA
710204 TGAAAATCATA
1 TGAAAATCATA
710215 TGAAAA
1 TGAAAA
710221 CTTGATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.07, G:0.11, T:0.25
Consensus pattern (11 bp):
TGAAAATCATA
Done.