Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 41 of 187
Found at i:12076092 original size:6 final size:5
Alignment explanation
Indices: 12076023--12076092 Score: 59
Period size: 6 Copynumber: 12.4 Consensus size: 5
12076013 TTGTAACATC
*
12076023 CATTT CATTT CTATTT CCATTTT CATAT CATTCT CATTTT CATTCT CATTT
1 CATTT CATTT C-ATTT -CA-TTT CATTT CATT-T CA-TTT CATT-T CATTT
12076074 CAATTT CATTT CATATT CA
1 C-ATTT CATTT CAT-TT CA
12076093 AGTCGTAAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
5 22 0.40
6 27 0.49
7 6 0.11
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (5 bp):
CATTT
Found at i:12076092 original size:17 final size:16
Alignment explanation
Indices: 12076024--12076093 Score: 68
Period size: 17 Copynumber: 4.1 Consensus size: 16
12076014 TGTAACATCC
12076024 ATTTCATTTCTATTTCCA
1 ATTTCATTTC-ATTT-CA
* *
12076042 TTTTCATATCATTCTCA
1 ATTTCATTTCATT-TCA
*
12076059 TTTTCATTCTCATTTCA
1 ATTTCATT-TCATTTCA
12076076 ATTTCATTTCATATTCA
1 ATTTCATTTCAT-TTCA
12076093 A
1 A
12076094 GTCGTAAATC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
16 4 0.09
17 27 0.60
18 14 0.31
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTTCATTTCATTTCA
Found at i:12077418 original size:16 final size:15
Alignment explanation
Indices: 12077393--12077423 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
12077383 ATAATTTTAA
12077393 TAACTAAAAATATAT
1 TAACTAAAAATATAT
12077408 TAACTTAAAAATATAT
1 TAAC-TAAAAATATAT
12077424 ATTTGAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (15 bp):
TAACTAAAAATATAT
Found at i:12077445 original size:3 final size:3
Alignment explanation
Indices: 12077437--12077466 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
12077427 TGAATAAATG
12077437 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12077467 TGAGTGGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:12087736 original size:75 final size:75
Alignment explanation
Indices: 12087642--12087790 Score: 280
Period size: 75 Copynumber: 2.0 Consensus size: 75
12087632 TTGCGATTTC
*
12087642 TTCATTTGATTTAAACAATTGAATATTCTTTTAGACTTCATTACACGAATCTTTTCAAACTCAAG
1 TTCATTTGATTTAAACAATTGAATATTCTTTTAAACTTCATTACACGAATCTTTTCAAACTCAAG
12087707 TTTTAAACGT
66 TTTTAAACGT
*
12087717 TTCATTTGATTTAATCAATTGAATATTCTTTTAAACTTCATTACACGAATCTTTTCAAACTCAAG
1 TTCATTTGATTTAAACAATTGAATATTCTTTTAAACTTCATTACACGAATCTTTTCAAACTCAAG
12087782 TTTTAAACG
66 TTTTAAACG
12087791 ATATCGAGAA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.34, C:0.16, G:0.07, T:0.43
Consensus pattern (75 bp):
TTCATTTGATTTAAACAATTGAATATTCTTTTAAACTTCATTACACGAATCTTTTCAAACTCAAG
TTTTAAACGT
Found at i:12093597 original size:22 final size:22
Alignment explanation
Indices: 12093558--12093599 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
12093548 AATCCTTATA
**
12093558 TTTTTATTTATTGGAATTTAGT
1 TTTTTATTTATTAAAATTTAGT
*
12093580 TTTTTATTTTTTAAAATTTA
1 TTTTTATTTATTAAAATTTA
12093600 AAATTAAGGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
TTTTTATTTATTAAAATTTAGT
Found at i:12106927 original size:17 final size:17
Alignment explanation
Indices: 12106907--12106941 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
12106897 TTTAAAATAT
* *
12106907 ATTTAGATTTAGATTTA
1 ATTTAAATTTAAATTTA
12106924 ATTTAAATTTAAATTTA
1 ATTTAAATTTAAATTTA
12106941 A
1 A
12106942 AATTTTTTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (17 bp):
ATTTAAATTTAAATTTA
Found at i:12107926 original size:48 final size:48
Alignment explanation
Indices: 12107874--12107987 Score: 228
Period size: 48 Copynumber: 2.4 Consensus size: 48
12107864 ATTCAGTCGG
12107874 TTAACCGAATTAACCGAAAATTATATATTTTTTATTTTTGATTAAAAA
1 TTAACCGAATTAACCGAAAATTATATATTTTTTATTTTTGATTAAAAA
12107922 TTAACCGAATTAACCGAAAATTATATATTTTTTATTTTTGATTAAAAA
1 TTAACCGAATTAACCGAAAATTATATATTTTTTATTTTTGATTAAAAA
12107970 TTAACCGAATTAACCGAA
1 TTAACCGAATTAACCGAA
12107988 TTACCCGAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 66 1.00
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (48 bp):
TTAACCGAATTAACCGAAAATTATATATTTTTTATTTTTGATTAAAAA
Found at i:12108000 original size:9 final size:9
Alignment explanation
Indices: 12107968--12107999 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
12107958 TTTGATTAAA
12107968 AATTAACCG
1 AATTAACCG
12107977 AATTAACCG
1 AATTAACCG
*
12107986 AATTACCCG
1 AATTAACCG
12107995 AATTA
1 AATTA
12108000 CTCGAATTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.44, C:0.22, G:0.09, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:12108133 original size:18 final size:18
Alignment explanation
Indices: 12108110--12108153 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
12108100 AATTTTTATG
*
12108110 ATTGGGTTGGGCTGAGTA
1 ATTGGGTTGGGCTGAATA
*
12108128 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGCTGAATA
*
12108146 CTTGGGTT
1 ATTGGGTT
12108154 TGGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.05, G:0.41, T:0.39
Consensus pattern (18 bp):
ATTGGGTTGGGCTGAATA
Found at i:12111043 original size:5 final size:5
Alignment explanation
Indices: 12111033--12111057 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
12111023 GCGTTCAACT
12111033 TTCTC TTCTC TTCTC TTCTC TTCTC
1 TTCTC TTCTC TTCTC TTCTC TTCTC
12111058 CTCTTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (5 bp):
TTCTC
Found at i:12111963 original size:53 final size:54
Alignment explanation
Indices: 12111883--12111999 Score: 202
Period size: 53 Copynumber: 2.2 Consensus size: 54
12111873 TACTGTAAAA
*
12111883 TAATATTAATTGAAAGACGAATGACCTAGATAATGTTCAAACTTTTATTT-ATT
1 TAATATTAATTGAAAGACGAACGACCTAGATAATGTTCAAACTTTTATTTAATT
*
12111936 TAATATTAATTGAAAGACGAACGACCTAGATAATGTTCTAACTTTTATTTAATT
1 TAATATTAATTGAAAGACGAACGACCTAGATAATGTTCAAACTTTTATTTAATT
12111990 TAAT-TTAATT
1 TAATATTAATT
12112000 TATTTTAGTG
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
53 54 0.89
54 7 0.11
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.41
Consensus pattern (54 bp):
TAATATTAATTGAAAGACGAACGACCTAGATAATGTTCAAACTTTTATTTAATT
Found at i:12113226 original size:16 final size:17
Alignment explanation
Indices: 12113201--12113238 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
12113191 AAATAATTTC
*
12113201 AATTTCAAATTTGTGTT
1 AATTTCAAATTTGTATT
*
12113218 AATTT-AAATTTTTATT
1 AATTTCAAATTTGTATT
12113234 AATTT
1 AATTT
12113239 TATTTTTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (17 bp):
AATTTCAAATTTGTATT
Found at i:12118086 original size:21 final size:20
Alignment explanation
Indices: 12118049--12118101 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
12118039 AACACACATT
12118049 TCACTATA-AAT-TTTAATC
1 TCACTATACAATATTTAATC
*
12118067 TCACTATTACAATATTTAATT
1 TCACTA-TACAATATTTAATC
*
12118088 TCACCACTACAATA
1 TCACTA-TACAATA
12118102 ACGAGTCTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 6 0.21
19 2 0.07
20 3 0.10
21 18 0.62
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.40
Consensus pattern (20 bp):
TCACTATACAATATTTAATC
Found at i:12118184 original size:16 final size:16
Alignment explanation
Indices: 12118163--12118241 Score: 83
Period size: 16 Copynumber: 4.9 Consensus size: 16
12118153 CTTTTTCCCT
12118163 TTTTCT-TTTTGTTTCC
1 TTTTCTATTTTGTTT-C
*
12118179 TTTTCTATTCTGTTTC
1 TTTTCTATTTTGTTTC
* *
12118195 GTTTCTATCTTGTTTC
1 TTTTCTATTTTGTTTC
12118211 TTTTACTATTTCT-TTTC
1 TTTT-CTATTT-TGTTTC
12118228 TTTT-TATTTTGTTT
1 TTTTCTATTTTGTTT
12118242 TATTATACAT
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
14 1 0.02
15 8 0.15
16 23 0.43
17 20 0.38
18 1 0.02
ACGTcount: A:0.06, C:0.15, G:0.06, T:0.72
Consensus pattern (16 bp):
TTTTCTATTTTGTTTC
Found at i:12119128 original size:20 final size:20
Alignment explanation
Indices: 12119086--12119138 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
12119076 TTTACCCTTA
*
12119086 TTATAATTTTTAAAATAATTT
1 TTAT-ATTTTTTAAATAATTT
*
12119107 TTCTATTATTTTAAAT-ATTT
1 TTATATT-TTTTAAATAATTT
12119127 TTATATTTTTTA
1 TTATATTTTTTA
12119139 TAATCTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 5 0.18
20 13 0.46
21 10 0.36
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
TTATATTTTTTAAATAATTT
Found at i:12123838 original size:13 final size:13
Alignment explanation
Indices: 12123820--12123846 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12123810 AAACACTCAA
12123820 ATTTCTCAAAAGT
1 ATTTCTCAAAAGT
12123833 ATTTCTCAAAAGT
1 ATTTCTCAAAAGT
12123846 A
1 A
12123847 ATGAAGAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (13 bp):
ATTTCTCAAAAGT
Found at i:12125393 original size:21 final size:22
Alignment explanation
Indices: 12125360--12125402 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
12125350 AAGGAAAATT
12125360 TTTTTCATCATTAA-AATACTAA
1 TTTTTCATCATTAATAAT-CTAA
*
12125382 TTTTTCGT-ATTAATAATCTAA
1 TTTTTCATCATTAATAATCTAA
12125403 AATATTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.37, C:0.12, G:0.02, T:0.49
Consensus pattern (22 bp):
TTTTTCATCATTAATAATCTAA
Found at i:12126416 original size:19 final size:20
Alignment explanation
Indices: 12126367--12126416 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
12126357 TATATAAAAA
*
12126367 ATTAAATATCTTTAATTATTT
1 ATTAAA-ATATTTAATTATTT
* *
12126388 -TTATATTATTTAATT-TTT
1 ATTAAAATATTTAATTATTT
12126406 ATTAAAATATT
1 ATTAAAATATT
12126417 ATTCTAATAT
Statistics
Matches: 23, Mismatches: 5, Indels: 4
0.72 0.16 0.12
Matches are distributed among these distances:
18 3 0.13
19 16 0.70
20 4 0.17
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTAAAATATTTAATTATTT
Found at i:12131642 original size:17 final size:18
Alignment explanation
Indices: 12131607--12131643 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
12131597 TGTTTGGACT
*
12131607 TTTATCCAACACTTATAA
1 TTTATCCAACACCTATAA
12131625 TTTATCCAAC-CCTATAA
1 TTTATCCAACACCTATAA
12131642 TT
1 TT
12131644 ATTTTCTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (18 bp):
TTTATCCAACACCTATAA
Found at i:12131686 original size:5 final size:5
Alignment explanation
Indices: 12131672--12131710 Score: 71
Period size: 5 Copynumber: 8.0 Consensus size: 5
12131662 TATTAATTAG
12131672 TTAA- TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT
1 TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT
12131711 AATTAAATCA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.12
5 30 0.88
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TTAAT
Found at i:12136733 original size:49 final size:50
Alignment explanation
Indices: 12136641--12136738 Score: 135
Period size: 49 Copynumber: 2.0 Consensus size: 50
12136631 ATCTATATAT
* * * *
12136641 AGGTTGAAAAAACCTTATTCTAATCAATGTCAAATAGATGAAGTGTAGTA
1 AGGTTGAAAAAACCTTATTCTAATCAATGTAAAATAAAAGAAGTATAGTA
**
12136691 AGGTTG-AAAAATTTTATTCTAATCAATGTAAAATAAAAGAAGTATAGT
1 AGGTTGAAAAAACCTTATTCTAATCAATGTAAAATAAAAGAAGTATAGT
12136739 TTTATATGGA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
49 36 0.86
50 6 0.14
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.32
Consensus pattern (50 bp):
AGGTTGAAAAAACCTTATTCTAATCAATGTAAAATAAAAGAAGTATAGTA
Found at i:12136862 original size:29 final size:29
Alignment explanation
Indices: 12136812--12136870 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
12136802 TCCACCTTGA
* * * *
12136812 CACGAATTCTCAATGAACAAGTTCTTCAC
1 CACGAACTCTAAACGAACAAGTTCTCCAC
*
12136841 CACGAACTCTAAACGAATAAGTTCTCCAC
1 CACGAACTCTAAACGAACAAGTTCTCCAC
12136870 C
1 C
12136871 TATTCCACGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.36, C:0.31, G:0.10, T:0.24
Consensus pattern (29 bp):
CACGAACTCTAAACGAACAAGTTCTCCAC
Found at i:12143392 original size:13 final size:13
Alignment explanation
Indices: 12143376--12143400 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12143366 TTCATTTTGG
12143376 TATTTTATTTACT
1 TATTTTATTTACT
12143389 TATTTTATTTAC
1 TATTTTATTTAC
12143401 ATTTATAATT
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:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTTTATTTACT
Found at i:12143481 original size:352 final size:347
Alignment explanation
Indices: 12142841--12143539 Score: 1062
Period size: 352 Copynumber: 2.0 Consensus size: 347
12142831 TCGGGATAGG
* * *
12142841 GAATAATTTCCCAGTTAGTCCCTCATCCTTTACATGTGTTTTATTTTGGTCTTAATGTCAGCCTT
1 GAATAATTTCCCAGTTAGTCCCTCATCCTTTACACGTGTTTTATTTTGGTCCTAAAGTCAGCCTT
*
12142906 TTTCTTTTTTTTTAAAAAAAATTTATCCATTAAAGTTTATTTTTTTTATTTCGATCCTTTAACCA
66 TTTCTTTTTTTTTAAAAAAAATTTATCCATTAAAGTTTATTTTTTTTATTTCGATCCTTTAACAA
* * **
12142971 TTGAGTCCTTTTTTCTTTTTTTCTTTTTAATTTTTTTGCATTTTTGTTTTAGCATTTTATTTACT
131 TTGAGTCCTTTTTTCTTTTTTTATTTTTAATATTTTTGCATTTTCATTTTAGCATTTTATTTACT
* *
12143036 TATTTTATTTACATTTATAATTTTAATTTCATTCTAATTTCGATTTAGCCCTCGGTTTATTTAAT
196 TATTTTATTTACATTTATAATTTTAATTTCATTCTAATTCCGATTTAGCCCTCGATTTATTTAAT
* * *
12143101 TTTAATCTTTTATAATTCTCATTTTATTTATTTACGCAATTATCTATTTACTTATTTTTTACAAT
261 TTCAATCTTTTATAATTCTCATTTTATTTATTTAAGCAATTAACTATTTACTTA-TTTTTACAAT
12143166 TTATGCCCTTAATTTCATTTTAA
325 TTATGCCCTTAATTTCATTTTAA
* * *
12143189 GAATAATTTCCCAGTTAGTCCCTCCTCCTTTACGCGTGTTTTATTTTGGTCCTAAAG-CAAGTCT
1 GAATAATTTCCCAGTTAGTCCCTCATCCTTTACACGTGTTTTATTTTGGTCCTAAAGTC-AGCCT
*****
12143253 TTTTCTTTTTCTTTTTTTTTTAAATTTATCCATTAAAGTTTA-TTTTTTTATTTCGATCCTTTAA
65 TTTTC-TTTT-TTTTTAAAAAAAATTTATCCATTAAAGTTTATTTTTTTTATTTCGATCCTTTAA
* * *
12143317 CAATTTAGTCCTTTTTTCTTTTTTTTTTTATTTTTAATATTTTTGCATTTTCATTTTGGTATTTT
128 CAATTGAGTCCTTTTTTC----TTTTTTTATTTTTAATATTTTTGCATTTTCATTTTAGCATTTT
12143382 ATTTACTTATTTTATTTACATTTATAATTTTAA-TTCATTCTAATTCCGATTTAGCCCTCGATTT
189 ATTTACTTATTTTATTTACATTTATAATTTTAATTTCATTCTAATTCCGATTTAGCCCTCGATTT
* * *
12143446 ATTTAATTTCAATCTTTTATAATTCTCATTTTATTTATTTAAGTATTTAAGTATTTACTTATTTT
254 ATTTAATTTCAATCTTTTATAATTCTCATTTTATTTATTTAAGCAATTAACTATTTACTTATTTT
12143511 TACAATTTATGCCCTTAATTTCATTTTAA
319 TACAATTTATGCCCTTAATTTCATTTTAA
12143540 TTCCAATTGA
Statistics
Matches: 317, Mismatches: 27, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
347 1 0.00
348 61 0.19
349 42 0.13
350 26 0.08
351 33 0.10
352 84 0.26
353 70 0.22
ACGTcount: A:0.23, C:0.14, G:0.06, T:0.57
Consensus pattern (347 bp):
GAATAATTTCCCAGTTAGTCCCTCATCCTTTACACGTGTTTTATTTTGGTCCTAAAGTCAGCCTT
TTTCTTTTTTTTTAAAAAAAATTTATCCATTAAAGTTTATTTTTTTTATTTCGATCCTTTAACAA
TTGAGTCCTTTTTTCTTTTTTTATTTTTAATATTTTTGCATTTTCATTTTAGCATTTTATTTACT
TATTTTATTTACATTTATAATTTTAATTTCATTCTAATTCCGATTTAGCCCTCGATTTATTTAAT
TTCAATCTTTTATAATTCTCATTTTATTTATTTAAGCAATTAACTATTTACTTATTTTTACAATT
TATGCCCTTAATTTCATTTTAA
Found at i:12160165 original size:17 final size:16
Alignment explanation
Indices: 12160131--12160175 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
12160121 AATAAATACT
*
12160131 ATTAAAATAATTTTTAA
1 ATTAAAAT-ATATTTAA
12160148 ATATAAAATATATTTAA
1 AT-TAAAATATATTTAA
*
12160165 ATCAAAATATA
1 ATTAAAATATA
12160176 AAATATTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 8 0.32
17 11 0.44
18 6 0.24
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
ATTAAAATATATTTAA
Found at i:12164728 original size:50 final size:49
Alignment explanation
Indices: 12164637--12164828 Score: 215
Period size: 50 Copynumber: 3.9 Consensus size: 49
12164627 CATTTGGGTA
12164637 AAGAGGTCCCATGTAAGA-CATGTCTGGGACATGGCATTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA-TGGCACCGAGAT
* * *
12164686 AAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGCTGGCACAGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGC-ATGGCACCGAGAT
* ** *
12164736 GAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCAT-GGCACCGAGAT
* ** * * * *
12164786 GAGAACTCCCATGTAAGAACATATCTAGGATATGGCATTGGCA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA-TGGCA
12164829 GTACAAAAAA
Statistics
Matches: 121, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
49 19 0.16
50 101 0.83
51 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.30, T:0.20
Consensus pattern (49 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGCACCGAGAT
Found at i:12164821 original size:100 final size:99
Alignment explanation
Indices: 12164638--12164821 Score: 251
Period size: 100 Copynumber: 1.8 Consensus size: 99
12164628 ATTTGGGTAA
* * **
12164638 AGAGGTCCCATGTAAGACATGTCTGGGACATGGCATTGGCACCGAGATAAGAGGTCCCATGTAAG
1 AGAGGTCCCACGTAAGACATGTCTGGGACATGGCATGGGCACCGAGATAAGAACTCCCATGTAAG
* * * *
12164703 ACCATGTTTGGGACATGGCGCTGGCACAGAGATG
66 AACATATCTAGGACATGGCGCTGGCACAGAGATG
* * *
12164737 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAA
1 AGAGGTCCCACGTAAGA-CATGTCTGGGACATGGCATGGGCACCGAGATAAGAACTCCCATGTAA
*
12164802 GAACATATCTAGGATATGGC
65 GAACATATCTAGGACATGGC
12164822 ATTGGCAGTA
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
99 15 0.21
100 57 0.79
ACGTcount: A:0.28, C:0.22, G:0.30, T:0.20
Consensus pattern (99 bp):
AGAGGTCCCACGTAAGACATGTCTGGGACATGGCATGGGCACCGAGATAAGAACTCCCATGTAAG
AACATATCTAGGACATGGCGCTGGCACAGAGATG
Found at i:12166809 original size:21 final size:22
Alignment explanation
Indices: 12166784--12166839 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 22
12166774 TGGGCAGTAA
12166784 AAGAA-AAAAGAGAAGAGGA-AG
1 AAGAAGAAAA-AGAAGAGGAGAG
12166805 AAGAAGAAAAAGAAGAGGAGGAG
1 AAGAAGAAAAAGAAGAGGA-GAG
12166828 AAGAAGAGAAAA
1 AAGAAGA-AAAA
12166840 ATTCTAGGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
21 14 0.45
22 4 0.13
23 9 0.29
24 4 0.13
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (22 bp):
AAGAAGAAAAAGAAGAGGAGAG
Found at i:12177116 original size:38 final size:40
Alignment explanation
Indices: 12177044--12177118 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
12177034 ACAAAAAAAA
12177044 TATTTTAAAAATAAAAAAAATAAAAAATATATATTTAAAG
1 TATTTTAAAAATAAAAAAAATAAAAAATATATATTTAAAG
*
12177084 TATTTTAAAATTAAAAAATAA-AAAAAA-A-ATATTTA
1 TATTTTAAAAATAAAAAA-AATAAAAAATATATATTTA
12177119 TTATATTCGG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
38 7 0.21
39 1 0.03
40 23 0.70
41 2 0.06
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (40 bp):
TATTTTAAAAATAAAAAAAATAAAAAATATATATTTAAAG
Found at i:12179507 original size:8 final size:9
Alignment explanation
Indices: 12179477--12179506 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
12179467 CTAAAATTTT
12179477 AAAATTCAA
1 AAAATTCAA
12179486 AAAATTCAA
1 AAAATTCAA
*
12179495 AAAATTTAA
1 AAAATTCAA
12179504 AAA
1 AAA
12179507 TGACCAAACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (9 bp):
AAAATTCAA
Found at i:12181517 original size:23 final size:22
Alignment explanation
Indices: 12181477--12181528 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
12181467 ATTTTTTAAG
*
12181477 AATAATAAAAAAACAAAAAACA
1 AATATTAAAAAAACAAAAAACA
* * *
12181499 AATATTAAAAATAATAAAACATA
1 AATATTAAAAA-AACAAAAAACA
12181522 AATATTA
1 AATATTA
12181529 TTAATTATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 10 0.40
23 15 0.60
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (22 bp):
AATATTAAAAAAACAAAAAACA
Found at i:12182889 original size:22 final size:22
Alignment explanation
Indices: 12182861--12182918 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
12182851 AACTTATAAA
*
12182861 ATATCATATCATATCAGATTTC
1 ATATCATATCATATCAGATCTC
* * *
12182883 ATATCATATTATGTCATATCTC
1 ATATCATATCATATCAGATCTC
12182905 ATATCATATCATAT
1 ATATCATATCATAT
12182919 TTTAGTATAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.36, C:0.17, G:0.03, T:0.43
Consensus pattern (22 bp):
ATATCATATCATATCAGATCTC
Found at i:12182934 original size:5 final size:5
Alignment explanation
Indices: 12182861--12182918 Score: 53
Period size: 5 Copynumber: 10.8 Consensus size: 5
12182851 AACTTATAAA
* * *
12182861 ATATC ATATC ATATC AGATTTC ATATC ATATT ATGTC ATATCTC ATATC
1 ATATC ATATC ATATC --ATATC ATATC ATATC ATATC ATA--TC ATATC
12182910 ATATC ATAT
1 ATATC ATAT
12182919 TTTAGTATAT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
5 34 0.79
7 9 0.21
ACGTcount: A:0.36, C:0.17, G:0.03, T:0.43
Consensus pattern (5 bp):
ATATC
Found at i:12183218 original size:4 final size:4
Alignment explanation
Indices: 12183209--12183233 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
12183199 GTCCTATGGG
12183209 ATGC ATGC ATGC ATGC ATGC ATGC A
1 ATGC ATGC ATGC ATGC ATGC ATGC A
12183234 CACACACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (4 bp):
ATGC
Found at i:12185799 original size:111 final size:111
Alignment explanation
Indices: 12185615--12185830 Score: 360
Period size: 111 Copynumber: 1.9 Consensus size: 111
12185605 AAAGAGGGCT
* *
12185615 CATATCTCGAGATTAGGTTTCTTAAGAGAGTTCATAGGTTGATTGACAAGAGTATGGGGAATGTA
1 CATATCTCGAGATTAGGTTTCTTAAGAGAGTTCACAGGTTGATTGACAAGAGTATGGAGAATGTA
* *
12185680 GTGGTATTTAGACTGTTAGGGAGAAGTATCGGTTATAAAGTTGTCC
66 ATGATATTTAGACTGTTAGGGAGAAGTATCGGTTATAAAGTTGTCC
* * *
12185726 CATATCTCGAGATTAGGTTTCTTGATAGAGTTCACAGTTTGATTGACAAGAGTATGGAGAATGTA
1 CATATCTCGAGATTAGGTTTCTTAAGAGAGTTCACAGGTTGATTGACAAGAGTATGGAGAATGTA
*
12185791 ATGATATTTAGACTGTTAGGGAGAAGTATTGGTTATAAAG
66 ATGATATTTAGACTGTTAGGGAGAAGTATCGGTTATAAAG
12185831 CTTTCGGGAT
Statistics
Matches: 97, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
111 97 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.34
Consensus pattern (111 bp):
CATATCTCGAGATTAGGTTTCTTAAGAGAGTTCACAGGTTGATTGACAAGAGTATGGAGAATGTA
ATGATATTTAGACTGTTAGGGAGAAGTATCGGTTATAAAGTTGTCC
Found at i:12187669 original size:101 final size:101
Alignment explanation
Indices: 12187494--12187755 Score: 334
Period size: 101 Copynumber: 2.6 Consensus size: 101
12187484 AATTATTCAA
*
12187494 ACGTAAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGAGCTATGGCATTC
1 ACGTAAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGAGCTATGACATTC
*
12187559 TGATGATAAGATCATAACTGGGTTATGACACTATGG
66 TGATGATAAGACCATAACTGGGTTATGACACTATGG
* * *
12187595 ACGTAGGACTATGGTTGGACCATGGCAGTGTTTATATGTAATACCATAGCTTG-GCTATGACATT
1 ACGTAAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGC-TGAGCTATGACATT
* * *
12187659 TTGATGATAAGACCATAACTGGGTTATGACACAATGA
65 CTGATGATAAGACCATAACTGGGTTATGACACTATGG
* * ** ** * *
12187696 ATGTAAGATCATGGCAGGGTCATGGCAATG--TATATGTAAGACCATAGTTG-GACTATGACA
1 ACGTAAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGAG-CTATGACA
12187756 GAAAAGAAAC
Statistics
Matches: 140, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
98 3 0.02
99 24 0.17
101 111 0.79
102 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (101 bp):
ACGTAAGACCATGGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGAGCTATGACATTC
TGATGATAAGACCATAACTGGGTTATGACACTATGG
Found at i:12188934 original size:17 final size:17
Alignment explanation
Indices: 12188912--12188963 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
12188902 ATGGAAACAT
* *
12188912 AATCTTCAAGGATATGC
1 AATCTTAAAAGATATGC
*
12188929 AATCTTAGATATGATATGC
1 AATCTTA-A-AAGATATGC
12188948 AATCTTAAAAGATATG
1 AATCTTAAAAGATATG
12188964 ATATGCAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 13 0.43
18 2 0.07
19 15 0.50
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (17 bp):
AATCTTAAAAGATATGC
Found at i:12188963 original size:22 final size:21
Alignment explanation
Indices: 12188922--12188987 Score: 100
Period size: 22 Copynumber: 3.1 Consensus size: 21
12188912 AATCTTCAAG
12188922 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTAAAGATAT
12188941 GATATGCAATCTTAAAAGATAT
1 GATATGCAATCTT-AAAGATAT
12188963 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTA-AAGATAT
12188985 GAT
1 GAT
12188988 TTTGTAATCT
Statistics
Matches: 43, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
19 13 0.30
21 1 0.02
22 29 0.67
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (21 bp):
GATATGCAATCTTAAAGATAT
Found at i:12189004 original size:22 final size:21
Alignment explanation
Indices: 12188922--12189004 Score: 98
Period size: 22 Copynumber: 3.9 Consensus size: 21
12188912 AATCTTCAAG
12188922 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTAGAGATAT
*
12188941 GATATGCAATCTTAAAAGATAT
1 GATATGCAATCTT-AGAGATAT
12188963 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAG-AGATAT
* *
12188985 GATTTTGTAATCTTAGAGAT
1 GA-TATGCAATCTTAGAGAT
12189005 TTAATTTGTA
Statistics
Matches: 56, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
19 13 0.23
21 1 0.02
22 31 0.55
23 11 0.20
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.36
Consensus pattern (21 bp):
GATATGCAATCTTAGAGATAT
Found at i:12189439 original size:23 final size:23
Alignment explanation
Indices: 12189394--12189440 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
12189384 TTATTTTAGT
* *
12189394 TTTTATTATTATTAAATTAATTA
1 TTTTAATATTATTAAACTAATTA
12189417 TTTTAATATTATTAACACT-ATTA
1 TTTTAATATTATTAA-ACTAATTA
12189440 T
1 T
12189441 GTGACATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTTAATATTATTAAACTAATTA
Found at i:12189608 original size:36 final size:36
Alignment explanation
Indices: 12189533--12189608 Score: 84
Period size: 36 Copynumber: 2.1 Consensus size: 36
12189523 CATACATACG
*
12189533 TTTTATAATATATACATATACGTACACATTTTTTAAT
1 TTTTATAATATATACATATACG-ACACATTTTATAAT
* *
12189570 TTTTATAA-ATATATATATAC-ACATACTTTTATATAT
1 TTTTATAATATATACATATACGACACA-TTTTATA-AT
12189606 TTT
1 TTT
12189609 CTATGTTTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
34 4 0.12
35 6 0.18
36 16 0.47
37 8 0.24
ACGTcount: A:0.38, C:0.09, G:0.01, T:0.51
Consensus pattern (36 bp):
TTTTATAATATATACATATACGACACATTTTATAAT
Found at i:12194575 original size:18 final size:19
Alignment explanation
Indices: 12194536--12194580 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
12194526 TTTAGATCTT
12194536 AAATTAATGTGGTCCAAAA
1 AAATTAATGTGGTCCAAAA
12194555 AAATTAATGTGGTCC-AAA
1 AAATTAATGTGGTCCAAAA
12194573 AAATTAAT
1 AAATTAAT
12194581 TAGTACATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.49, C:0.09, G:0.13, T:0.29
Consensus pattern (19 bp):
AAATTAATGTGGTCCAAAA
Found at i:12201661 original size:29 final size:29
Alignment explanation
Indices: 12201597--12201671 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 29
12201587 AATTTTTAAA
* * * *
12201597 TTAATAAATGATAAAATTATATTTTATCT
1 TTAAAAAATAATAAAATAATAATTTATCT
* * *
12201626 CTCAAAAATAATAAAATAATAATTTATTT
1 TTAAAAAATAATAAAATAATAATTTATCT
*
12201655 TTAAAAAATTA-AAAATA
1 TTAAAAAATAATAAAATA
12201672 TAACCTATTA
Statistics
Matches: 36, Mismatches: 10, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
28 6 0.17
29 30 0.83
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (29 bp):
TTAAAAAATAATAAAATAATAATTTATCT
Found at i:12202301 original size:19 final size:19
Alignment explanation
Indices: 12202257--12202303 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
12202247 AAAAACATAT
*
12202257 AAATTATAAAACTTATCAA
1 AAATTATAAAACTTATAAA
*
12202276 TAATTATAAAACTT-TAAA
1 AAATTATAAAACTTATAAA
12202294 AAATTTATAA
1 AAA-TTATAA
12202304 TAAGTTGCGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.36
Consensus pattern (19 bp):
AAATTATAAAACTTATAAA
Found at i:12204189 original size:10 final size:10
Alignment explanation
Indices: 12204171--12204221 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
12204161 TTTATATTAG
*
12204171 TTATAAATTT
1 TTATGAATTT
12204181 TTATGAATTT
1 TTATGAATTT
12204191 TTAT-AAGTTT
1 TTATGAA-TTT
12204201 TTATG-ATTT
1 TTATGAATTT
*
12204210 TTA-CAATTT
1 TTATGAATTT
12204219 TTA
1 TTA
12204222 CTATTTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
9 15 0.42
10 21 0.58
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (10 bp):
TTATGAATTT
Found at i:12204287 original size:19 final size:18
Alignment explanation
Indices: 12204150--12204292 Score: 85
Period size: 19 Copynumber: 7.4 Consensus size: 18
12204140 TTCTATAAAA
12204150 TTTTAATAATTTTTATAT
1 TTTTAATAATTTTTATAT
*
12204168 TAGTT-ATAAATTTTTATGAAT
1 T-TTTAAT-AATTTTTAT--AT
12204189 TTTT-ATAAGTTTTTATGAT
1 TTTTAATAA-TTTTTAT-AT
*
12204208 TTTT-ACAATTTTTACTAT
1 TTTTAATAATTTTTA-TAT
*
12204226 TTTTAATTAATTATAATATAT
1 TTTTAA-TAATT-T-TTATAT
* * *
12204247 CTTAAATATATTTTATTTAT
1 TTTTAATA-ATTTT-TATAT
*
12204267 TTTTAATAATTTTCATGAT
1 TTTTAATAATTTTTAT-AT
12204286 TTTTAAT
1 TTTTAAT
12204293 GAGAATATTA
Statistics
Matches: 98, Mismatches: 14, Indels: 25
0.72 0.10 0.18
Matches are distributed among these distances:
18 16 0.16
19 38 0.39
20 28 0.29
21 14 0.14
22 2 0.02
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTTAATAATTTTTATAT
Found at i:12206943 original size:13 final size:11
Alignment explanation
Indices: 12206891--12206935 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
12206881 AGATATATAA
12206891 AAATAAAA-AT
1 AAATAAAATAT
*
12206901 AAATAAATAAAT
1 AAATAAA-ATAT
12206913 AAATAAAATAT
1 AAATAAAATAT
*
12206924 AAGTAAAATAT
1 AAATAAAATAT
12206935 A
1 A
12206936 TTAATAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
10 7 0.23
11 15 0.48
12 9 0.29
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (11 bp):
AAATAAAATAT
Found at i:12207088 original size:3 final size:3
Alignment explanation
Indices: 12207080--12207120 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
12207070 GCATATGAAT
*
12207080 ATA ATA ATA ATA ATA ATA GTAA ATA ATA AT- ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
12207121 CAATAATGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 4 0.12
3 27 0.82
4 2 0.06
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:12207127 original size:13 final size:13
Alignment explanation
Indices: 12207083--12207120 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
12207073 TATGAATATA
12207083 ATAATAATAATAAT
1 ATAAT-ATAATAAT
12207097 AGTAA-ATAATAAT
1 A-TAATATAATAAT
12207110 ATAATATAATA
1 ATAATATAATA
12207121 CAATAATGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 3 0.14
13 15 0.68
14 1 0.05
15 3 0.14
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (13 bp):
ATAATATAATAAT
Found at i:12207556 original size:4 final size:4
Alignment explanation
Indices: 12207536--12207569 Score: 50
Period size: 4 Copynumber: 8.2 Consensus size: 4
12207526 TATTTGCAAC
*
12207536 ATAA AGTAA AAAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA A-TAA ATAA ATAA ATAA ATAA ATAA ATAA A
12207570 AGGAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (4 bp):
ATAA
Found at i:12208564 original size:44 final size:44
Alignment explanation
Indices: 12208457--12208879 Score: 250
Period size: 44 Copynumber: 9.8 Consensus size: 44
12208447 ATTTGCTATC
* * *
12208457 TTTAATCCACTCCACTGCAACTTCAGGGAGATAAGA-C--TGGA
1 TTTAATCCGCTCTACTGCAACTTCAGGGAGATAAGATCTGTGGT
*** *
12208498 TGCGATCCGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGT
1 TTTAATCCGCTCTACTGCAACTTCAGGGAGATAAGATCTGTGGT
* *
12208542 TTTAATCCGCTCTACTGCAACTTTAGGGAGATAGGAT-TGAT--T
1 TTTAATCCGCTCTACTGCAACTTCAGGGAGATAAGATCTG-TGGT
** * * *
12208584 TCTTCTGTCTGCTCTACTACAACTTCAGGGAGATAAGA-C--TGGA
1 T-TT-AATCCGCTCTACTGCAACTTCAGGGAGATAAGATCTGTGGT
*** * * *
12208627 TGCGATCCGCTCTTCTGTAACTTCAGAGAGATAAGATCTGTGGT
1 TTTAATCCGCTCTACTGCAACTTCAGGGAGATAAGATCTGTGGT
** * * * * *
12208671 TTTAATTTGCTCCACTGCAATTTCAAGGAGATAGGAT-TGAT-TT
1 TTTAATCCGCTCTACTGCAACTTCAGGGAGATAAGATCTG-TGGT
** ** * * * *
12208714 TTTCTGTTTGTTCCACTGTAACTTCAGGGAGATAAGA-C--TGGA
1 TTT-AATCCGCTCTACTGCAACTTCAGGGAGATAAGATCTGTGGT
*** *
12208756 TGCGATCCGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGT
1 TTTAATCCGCTCTACTGCAACTTCAGGGAGATAAGATCTGTGGT
* *
12208800 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGAT-TGAT--T
1 TTTAATCCGCTCTACTGCAACTTCAGGGAGATAAGATCTG-TGGT
* * * *
12208842 TCTTCAATCTGCCCCACTGCAACTTCAGGGGGATAAGA
1 T-TT-AATCCGCTCTACTGCAACTTCAGGGAGATAAGA
12208880 CTTGTTATCT
Statistics
Matches: 287, Mismatches: 73, Indels: 41
0.72 0.18 0.10
Matches are distributed among these distances:
41 83 0.29
42 8 0.03
43 15 0.05
44 181 0.63
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (44 bp):
TTTAATCCGCTCTACTGCAACTTCAGGGAGATAAGATCTGTGGT
Found at i:12208704 original size:129 final size:129
Alignment explanation
Indices: 12208466--12208881 Score: 663
Period size: 129 Copynumber: 3.2 Consensus size: 129
12208456 CTTTAATCCA
12208466 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCCGCTCTACTGCAACTTCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCCGCTCTACTGCAACTTCAGAGAGATA
*
12208531 AGATCTGTGGTTTTAATCCGCTCTACTGCAACTTT-AGGGAGATAGGATTGATTTCTTCTGTCTG
66 AGATCTGTGGTTTTAATCCGCTCCACTGCAA-TTTCAGGGAGATAGGATTGATTTCTTCTGTCTG
* * * *
12208595 CTCTACTACAACTTCAGGGAGATAAGACTGGATGCGATCCGCTCTTCTGTAACTTCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCCGCTCTACTGCAACTTCAGAGAGATA
** * * *
12208660 AGATCTGTGGTTTTAATTTGCTCCACTGCAATTTCAAGGAGATAGGATTGATTTTTTCTGTTTG
66 AGATCTGTGGTTTTAATCCGCTCCACTGCAATTTCAGGGAGATAGGATTGATTTCTTCTGTCTG
* *
12208724 TTCCACTGTAACTTCAGGGAGATAAGACTGGATGCGATCCGCTCTACTGCAACTTCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCCGCTCTACTGCAACTTCAGAGAGATA
* **
12208789 AGATCTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGATTTCTTCAATCTG
66 AGATCTGTGGTTTTAATCCGCTCCACTGCAATTTCAGGGAGATAGGATTGATTTCTTCTGTCTG
* *
12208853 CCCCACTGCAACTTCAGGGGGATAAGACT
1 CTCCACTGCAACTTCAGGGAGATAAGACT
12208882 TGTTATCTTC
Statistics
Matches: 258, Mismatches: 28, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
128 3 0.01
129 255 0.99
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.31
Consensus pattern (129 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCCGCTCTACTGCAACTTCAGAGAGATA
AGATCTGTGGTTTTAATCCGCTCCACTGCAATTTCAGGGAGATAGGATTGATTTCTTCTGTCTG
Found at i:12208822 original size:85 final size:85
Alignment explanation
Indices: 12208457--12208832 Score: 300
Period size: 85 Copynumber: 4.4 Consensus size: 85
12208447 ATTTGCTATC
*
12208457 TTTAATCCACTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCCGCTCTACTGCAACTTC
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCCGCTCTACTGCAACTTC
12208522 AGAGAGATAAGATCTGTGGT
66 AGAGAGATAAGATCTGTGGT
* * * * * * *
12208542 TTTAATCCGCTCTACTGCAACTTTAGGGAGATAGGA-TTGATTTCTTCTG-TCTGCTCTACTACA
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGACTGGA----TGC-GATCCGCTCTACTGCA
* *
12208605 ACTTCAGGGAGATAAGA-C--TGGA
61 ACTTCAGAGAGATAAGATCTGTGGT
*** ** * * * *** ** * *
12208627 TGCGATCCGCTCTTCTGTAACTTCAGAGAGATAAGATCTGTGGTTTTAATTTGCTCCACTGCAAT
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGA-C--TGGATGCGATCCGCTCTACTGCAAC
* *
12208692 TTCA-AGGAGATAGGAT-TGAT-TT
63 TTCAGA-GAGATAAGATCTG-TGGT
** ** * *
12208714 TTTCTGTTTGTTCCACTGTAACTTCAGGGAGATAAGACTGGATGCGATCCGCTCTACTGCAACTT
1 TTT-AATCCGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCCGCTCTACTGCAACTT
12208779 CAGAGAGATAAGATCTGTGGT
65 CAGAGAGATAAGATCTGTGGT
12208800 TTTAATCCGCTCCACTGCAACTTCAGGGAGATA
1 TTTAATCCGCTCCACTGCAACTTCAGGGAGATA
12208833 GGATTGATTT
Statistics
Matches: 216, Mismatches: 56, Indels: 38
0.70 0.18 0.12
Matches are distributed among these distances:
84 3 0.01
85 144 0.67
86 7 0.03
87 3 0.01
88 56 0.26
89 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (85 bp):
TTTAATCCGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATCCGCTCTACTGCAACTTC
AGAGAGATAAGATCTGTGGT
Found at i:12208963 original size:44 final size:44
Alignment explanation
Indices: 12208885--12209568 Score: 620
Period size: 44 Copynumber: 15.4 Consensus size: 44
12208875 TAAGACTTGT
* ** * *
12208885 TATCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTC-ATGTCAATACATGAAGACAAGATCTAC
* * * *
12208930 TATATTTGATCTACTTCATGTCAATACATGAAGACAAGATCCAT
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCTAC
* *
12208974 TATC-TCTGATCTACTTCATGTCAATACATGAAGACAAGATCCAT
1 TATCTTC-GATCTACTTCATGTCAATACATGAAGACAAGATCTAC
*** * *** *
12209018 TATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCA-TGTCAATACATGAAGACAAGATCTAC
*** * ***
12209063 TATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTAC
1 TATCTTCGATCTACTTCA-TGTCAATACATGAAGACAAGATCTAC
* * *
12209108 TATCTTCGATCTACTTCATGTTAATACATGAAGATAAGATCCAC
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCTAC
* *
12209152 TATC-TCTGATCTACTTCATGTCAATACATGAAGACAAGATCCAT
1 TATCTTC-GATCTACTTCATGTCAATACATGAAGACAAGATCTAC
*** * *** *
12209196 TATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCA-TGTCAATACATGAAGACAAGATCTAC
*
12209241 TATCTTCGATCTACTTCATGTCAATACATAAAGACAAGATCTAC
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCTAC
* * * *
12209285 TATC-TCTAATCTACTTCATGTCAATACATGCAGACAAGATCCAT
1 TATCTTC-GATCTACTTCATGTCAATACATGAAGACAAGATCTAC
*** * *** * *
12209329 TATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATTTGC
1 TATCTTCGATCTACTTCA-TGTCAATACATGAAGACAAGATCTAC
* * *
12209374 TATATTCGATCTACTTCATGTCAATACATGAAGACAAGACCTGC
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCTAC
* * *
12209418 TA-CCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCAT
1 TATCTTC-GATCTACTTCATGTCAATACATGAAGACAAGATCTAC
*** * * * **
12209462 TATCTTCGATCTACTTCACCACCAGTATAGGAAGACAAGATCTGT
1 TATCTTCGATCTACTTCA-TGTCAATACATGAAGACAAGATCTAC
* * *
12209507 TATCTTCTATCTACTTCATGTCAATACATGAAGACAATATCCAC
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCTAC
12209551 TATCTTCGATCTACTTCA
1 TATCTTCGATCTACTTCA
12209569 CCACCAGTAT
Statistics
Matches: 518, Mismatches: 109, Indels: 25
0.79 0.17 0.04
Matches are distributed among these distances:
43 7 0.01
44 309 0.60
45 202 0.39
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.31
Consensus pattern (44 bp):
TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCTAC
Found at i:12209074 original size:89 final size:89
Alignment explanation
Indices: 12208885--12209601 Score: 622
Period size: 89 Copynumber: 8.1 Consensus size: 89
12208875 TAAGACTTGT
* ** * ** * * *
12208885 TATCTTCGATCTACTTCGCTACCAATACAGGAAGACAAGATCTGCTATATTTGATCTACTTCA-T
1 TATCTTCGATCTACTTC-ATGTCAATACATGAAGACAAGATCCACTATCTTCGATCTACTTCACC
** * * * ***
12208949 GTCAATACATGAAGACAAGATCCAT
65 ACCAGTATAGGAAGACAAGATCTGC
*
12208974 TATC-TCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACC
1 TATCTTC-GATCTACTTCATGTCAATACATGAAGACAAGATCCACTATCTTCGATCTACTTCACC
*
12209038 ACCAGTATGGGAAGACAAGATCTGC
65 ACCAGTATAGGAAGACAAGATCTGC
*** * *** * *
12209063 TATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTACTATCTTCGATCTACTTCA-T
1 TATCTTCGATCTACTTCA-TGTCAATACATGAAGACAAGATCCACTATCTTCGATCTACTTCACC
*** * * * * **
12209127 GTTAATACATGAAGATAAGATCCAC
65 ACCAGTATAGGAAGACAAGATCTGC
*
12209152 TATC-TCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACC
1 TATCTTC-GATCTACTTCATGTCAATACATGAAGACAAGATCCACTATCTTCGATCTACTTCACC
*
12209216 ACCAGTATGGGAAGACAAGATCTGC
65 ACCAGTATAGGAAGACAAGATCTGC
* * * *
12209241 TATCTTCGATCTACTTCATGTCAATACATAAAGACAAGATCTACTATC-TCTAATCTACTTCA-T
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCACTATCTTC-GATCTACTTCACC
** * * * * ***
12209304 GTCAATACATGCAGACAAGATCCAT
65 ACCAGTATAGGAAGACAAGATCTGC
*** * *** *** * *
12209329 TATCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATTTGCTATATTCGATCTACTTCA-T
1 TATCTTCGATCTACTTCA-TGTCAATACATGAAGACAAGATCCACTATCTTCGATCTACTTCACC
** * * * *
12209393 GTCAATACATGAAGACAAGACCTGC
65 ACCAGTATAGGAAGACAAGATCTGC
* *
12209418 TA-CCTCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACC
1 TATCTTC-GATCTACTTCATGTCAATACATGAAGACAAGATCCACTATCTTCGATCTACTTCACC
*
12209482 ACCAGTATAGGAAGACAAGATCTGT
65 ACCAGTATAGGAAGACAAGATCTGC
* *
12209507 TATCTTCTATCTACTTCATGTCAATACATGAAGACAATATCCACTATCTTCGATCTACTTCACCA
1 TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCACTATCTTCGATCTACTTCACCA
* *
12209572 CCAGTATGGGAAGACAATATCTGC
66 CCAGTATAGGAAGACAAGATCTGC
12209596 TATCTT
1 TATCTT
12209602 TTCAACCTGC
Statistics
Matches: 496, Mismatches: 119, Indels: 26
0.77 0.19 0.04
Matches are distributed among these distances:
88 145 0.29
89 307 0.62
90 44 0.09
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.30
Consensus pattern (89 bp):
TATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCACTATCTTCGATCTACTTCACCA
CCAGTATAGGAAGACAAGATCTGC
Found at i:12209238 original size:133 final size:133
Alignment explanation
Indices: 12208959--12209568 Score: 886
Period size: 133 Copynumber: 4.6 Consensus size: 133
12208949 GTCAATACAT
*** *
12208959 GAAGACAAGATCCATTATC-TCTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCT
1 GAAGACAAGATCTGCTATCTTC-GATCTACTTCATGTCAATACATGAAGACAAGATCCACTATCT
*** * *** ***
12209023 -TCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACCACCA
65 CT-GATCTACTTCA-TGTCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACCACCA
12209087 GTATGG
128 GTATGG
* * *
12209093 GAAGACAAGATCTACTATCTTCGATCTACTTCATGTTAATACATGAAGATAAGATCCACTATCTC
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCACTATCTC
12209158 TGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACCACCAGTA
66 TGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACCACCAGTA
12209223 TGG
131 TGG
* *
12209226 GAAGACAAGATCTGCTATCTTCGATCTACTTCATGTCAATACATAAAGACAAGATCTACTATCTC
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCACTATCTC
* *
12209291 TAATCTACTTCATGTCAATACATGCAGACAAGATCCATTATCTTCGATCTACTTCACCACCAGTA
66 TGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACCACCAGTA
12209356 TGG
131 TGG
* * * *
12209359 GAAGACAAGATTTGCTATATTCGATCTACTTCATGTCAATACATGAAGACAAGA-CCTGCTACCT
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCC-ACTATCT
12209423 CTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACCACCAGT
65 CTGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACCACCAGT
*
12209488 ATAG
130 ATGG
* * *
12209492 GAAGACAAGATCTGTTATCTTCTATCTACTTCATGTCAATACATGAAGACAATATCCACTATCT-
1 GAAGACAAGATCTGCTATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCACTATCTC
12209556 TCGATCTACTTCA
66 T-GATCTACTTCA
12209569 CCACCAGTAT
Statistics
Matches: 433, Mismatches: 38, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
132 2 0.00
133 359 0.83
134 69 0.16
135 3 0.01
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (133 bp):
GAAGACAAGATCTGCTATCTTCGATCTACTTCATGTCAATACATGAAGACAAGATCCACTATCTC
TGATCTACTTCATGTCAATACATGAAGACAAGATCCATTATCTTCGATCTACTTCACCACCAGTA
TGG
Found at i:12210523 original size:7 final size:7
Alignment explanation
Indices: 12210505--12210557 Score: 85
Period size: 7 Copynumber: 8.0 Consensus size: 7
12210495 TTAGCCTCTC
12210505 CATTTTT
1 CATTTTT
12210512 -ATTTTT
1 CATTTTT
12210518 -ATTTTT
1 CATTTTT
12210524 CATTTTT
1 CATTTTT
12210531 CATTTTT
1 CATTTTT
12210538 CA-TTTT
1 CATTTTT
12210544 CATTTTT
1 CATTTTT
12210551 CATTTTT
1 CATTTTT
12210558 TTACGATTCA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
6 18 0.41
7 26 0.59
ACGTcount: A:0.15, C:0.11, G:0.00, T:0.74
Consensus pattern (7 bp):
CATTTTT
Found at i:12210528 original size:13 final size:13
Alignment explanation
Indices: 12210506--12210557 Score: 79
Period size: 13 Copynumber: 4.0 Consensus size: 13
12210496 TAGCCTCTCC
12210506 ATTTTT-ATTTTT
1 ATTTTTCATTTTT
12210518 ATTTTTCATTTTT
1 ATTTTTCATTTTT
*
12210531 CATTTTTCATTTTC
1 -ATTTTTCATTTTT
12210545 ATTTTTCATTTTT
1 ATTTTTCATTTTT
12210558 TTACGATTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
12 6 0.17
13 18 0.50
14 12 0.33
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (13 bp):
ATTTTTCATTTTT
Found at i:12210535 original size:20 final size:20
Alignment explanation
Indices: 12210505--12210557 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
12210495 TTAGCCTCTC
12210505 CATTTTT-ATTTTT-ATTTTT
1 CATTTTTCATTTTTCA-TTTT
12210524 CATTTTTCATTTTTCATTTT
1 CATTTTTCATTTTTCATTTT
12210544 CATTTTTCATTTTT
1 CATTTTTCATTTTT
12210558 TTACGATTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 7 0.22
20 24 0.75
21 1 0.03
ACGTcount: A:0.15, C:0.11, G:0.00, T:0.74
Consensus pattern (20 bp):
CATTTTTCATTTTTCATTTT
Found at i:12212658 original size:29 final size:29
Alignment explanation
Indices: 12212625--12212681 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
12212615 GAATCAGTAG
12212625 CTGGTCATTGTTAACATATCCAGCCATTA
1 CTGGTCATTGTTAACATATCCAGCCATTA
*
12212654 CTGGTTATTGTTAACATATCCAGCCATT
1 CTGGTCATTGTTAACATATCCAGCCATT
12212682 CTCCTACAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (29 bp):
CTGGTCATTGTTAACATATCCAGCCATTA
Found at i:12215469 original size:13 final size:11
Alignment explanation
Indices: 12215417--12215461 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
12215407 AGATATATAA
12215417 AAATAAAA-AT
1 AAATAAAATAT
*
12215427 AAATAAATAAAT
1 AAATAAA-ATAT
12215439 AAATAAAATAT
1 AAATAAAATAT
*
12215450 AAGTAAAATAT
1 AAATAAAATAT
12215461 A
1 A
12215462 TTAATAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
10 7 0.23
11 15 0.48
12 9 0.29
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (11 bp):
AAATAAAATAT
Found at i:12215630 original size:13 final size:12
Alignment explanation
Indices: 12215607--12215644 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
12215597 CATGCATATG
12215607 AATAT-AATAAT
1 AATATAAATAAT
12215618 AATAGTAAATAAT
1 AATA-TAAATAAT
12215631 AATATAATATAAT
1 AATATAA-ATAAT
12215644 A
1 A
12215645 CAATAATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.17
12 4 0.17
13 16 0.67
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (12 bp):
AATATAAATAAT
Found at i:12216074 original size:4 final size:4
Alignment explanation
Indices: 12216059--12216092 Score: 59
Period size: 4 Copynumber: 8.2 Consensus size: 4
12216049 TATTTGCAAC
12216059 ATAA AGTAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA A-TAA ATAA ATAA ATAA ATAA ATAA ATAA A
12216093 GGAAAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:12216297 original size:36 final size:36
Alignment explanation
Indices: 12216250--12216323 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
12216240 AGCAAAAGTA
12216250 AAAAAACAAAACAAATAATCTAAAAAATGAACACCG
1 AAAAAACAAAACAAATAATCTAAAAAATGAACACCG
12216286 AAAAAACAAAACAAATAATCTAAAAAATGAACACCG
1 AAAAAACAAAACAAATAATCTAAAAAATGAACACCG
12216322 AA
1 AA
12216324 CAGAATAGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.68, C:0.16, G:0.05, T:0.11
Consensus pattern (36 bp):
AAAAAACAAAACAAATAATCTAAAAAATGAACACCG
Found at i:12220754 original size:12 final size:12
Alignment explanation
Indices: 12220737--12220761 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12220727 CAGCAGAAAG
12220737 GAGTGAAGAGAA
1 GAGTGAAGAGAA
12220749 GAGTGAAGAGAA
1 GAGTGAAGAGAA
12220761 G
1 G
12220762 GCATTTCAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.44, T:0.08
Consensus pattern (12 bp):
GAGTGAAGAGAA
Found at i:12224766 original size:29 final size:29
Alignment explanation
Indices: 12224731--12224814 Score: 105
Period size: 33 Copynumber: 2.8 Consensus size: 29
12224721 TCACAAATTT
* *
12224731 AGAATTTAGTCCCTATACTTTTATTTTTA
1 AGAATTTAGTCCCTGTACTTTTATTTTCA
*
12224760 AGAATTTAGTTAGTCCTTGTACTTTTATTTTCA
1 AGAA--T--TTAGTCCCTGTACTTTTATTTTCA
12224793 AGAATTTAGTCCCTGTACTTTT
1 AGAATTTAGTCCCTGTACTTTT
12224815 CAAATTTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
29 20 0.43
31 2 0.04
33 25 0.53
ACGTcount: A:0.25, C:0.14, G:0.11, T:0.50
Consensus pattern (29 bp):
AGAATTTAGTCCCTGTACTTTTATTTTCA
Found at i:12224783 original size:33 final size:33
Alignment explanation
Indices: 12224736--12224802 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
12224726 AATTTAGAAT
*
12224736 TTAGTCCCTATACTTTTATTTTTAAGAATTTAG
1 TTAGTCCCTATACTTTTATTTTCAAGAATTTAG
* *
12224769 TTAGTCCTTGTACTTTTATTTTCAAGAATTTAG
1 TTAGTCCCTATACTTTTATTTTCAAGAATTTAG
12224802 T
1 T
12224803 CCCTGTACTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.25, C:0.12, G:0.10, T:0.52
Consensus pattern (33 bp):
TTAGTCCCTATACTTTTATTTTCAAGAATTTAG
Found at i:12225506 original size:14 final size:14
Alignment explanation
Indices: 12225482--12225518 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
12225472 ACCAGAAAGT
12225482 AAGTC-TTTTCTAGA
1 AAGTCATTTTCT-GA
12225496 AA-TCATTTTCTGA
1 AAGTCATTTTCTGA
12225509 AAGTCATTTT
1 AAGTCATTTT
12225519 TAGTGAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 6 0.29
14 15 0.71
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.46
Consensus pattern (14 bp):
AAGTCATTTTCTGA
Found at i:12227120 original size:64 final size:64
Alignment explanation
Indices: 12227046--12227191 Score: 186
Period size: 64 Copynumber: 2.3 Consensus size: 64
12227036 TATAATAATG
* * * * *
12227046 TGATTGGCACAAAGCTATCAGTAGCAGTGATATGACTGACACACAGCCATCAGTAACGGT-AACA
1 TGATCGGCACAAAGCCATCAGTAGCAGTGATATGACCGACACACAACCATCAGTAACAGTGAA-A
* * *
12227110 TGATCGGCACAAAGCCATTAGTAGCAGTGATATGACCGGCACACAACTATCAGTAACAGTGAAA
1 TGATCGGCACAAAGCCATCAGTAGCAGTGATATGACCGACACACAACCATCAGTAACAGTGAAA
* *
12227174 TGATCAGCACACAGCCAT
1 TGATCGGCACAAAGCCAT
12227192 AGGTAACGGT
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
64 69 0.97
65 2 0.03
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.19
Consensus pattern (64 bp):
TGATCGGCACAAAGCCATCAGTAGCAGTGATATGACCGACACACAACCATCAGTAACAGTGAAA
Found at i:12227126 original size:32 final size:32
Alignment explanation
Indices: 12227041--12227246 Score: 141
Period size: 32 Copynumber: 6.4 Consensus size: 32
12227031 ATAAGTATAA
* * * * *
12227041 TAATGTGATTGGCACAAAGCTATCAGTAGCAG
1 TAATATGATCGGCACAAAGCCATCAGTAACGG
* * *
12227073 TGATATGA-CTGACACACAGCCATCAGTAACGG
1 TAATATGATC-GGCACAAAGCCATCAGTAACGG
* * * *
12227105 TAACATGATCGGCACAAAGCCATTAGTAGCAG
1 TAATATGATCGGCACAAAGCCATCAGTAACGG
* * * *
12227137 TGATATGACCGGCACACAA-CTATCAGTAACAG
1 TAATATGATCGGCACA-AAGCCATCAGTAACGG
* *
12227169 TGAA-ATGATCAGCACACAGCCAT-AGGTAACGG
1 T-AATATGATCGGCACAAAGCCATCA-GTAACGG
* * *
12227201 TAATATGATCTGCACAAAGCCATCAATAATGG
1 TAATATGATCGGCACAAAGCCATCAGTAACGG
* *
12227233 TACTATGATTGGCA
1 TAATATGATCGGCA
12227247 GCCATCAGTA
Statistics
Matches: 132, Mismatches: 34, Indels: 16
0.73 0.19 0.09
Matches are distributed among these distances:
31 4 0.03
32 123 0.93
33 5 0.04
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (32 bp):
TAATATGATCGGCACAAAGCCATCAGTAACGG
Found at i:12227216 original size:64 final size:63
Alignment explanation
Indices: 12227052--12227225 Score: 156
Period size: 64 Copynumber: 2.7 Consensus size: 63
12227042 AATGTGATTG
* * * * * * *
12227052 GCACAAAGCTATCAGTAGCAGTGATATGACTGACACACAGCCATCAGTAACGGTAACATGATCG
1 GCACAAAGCCATTAGTAACAGTAATATGACTG-CACACAACCATCAGTAACAGTAACATGATCA
* * * *
12227116 GCACAAAGCCATTAGTAGCAGTGATATGACCGGCACACAACTATCAGTAACAGTGAA-ATGATCA
1 GCACAAAGCCATTAGTAACAGTAATATGA-CTGCACACAACCATCAGTAACAGT-AACATGATCA
* *
12227180 GCACACAGCCA-TAGGTAACGGTAATATGATCTGCACA-AAGCCATCA
1 GCACAAAGCCATTA-GTAACAGTAATATGA-CTGCACACAA-CCATCA
12227226 ATAATGGTAC
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
63 4 0.04
64 84 0.91
65 4 0.04
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.18
Consensus pattern (63 bp):
GCACAAAGCCATTAGTAACAGTAATATGACTGCACACAACCATCAGTAACAGTAACATGATCA
Found at i:12227240 original size:96 final size:96
Alignment explanation
Indices: 12227051--12227229 Score: 238
Period size: 96 Copynumber: 1.9 Consensus size: 96
12227041 TAATGTGATT
* * *
12227051 GGCACAAAGCTATCAGTAGCAGTGATATGACTGACACACAGCCATCAGTAACGGTAACATGATCG
1 GGCACAAAGCTATCAGTAACAGTGAAATGACAGACACACAGCCATCAGTAACGGTAACATGATCG
* * *
12227116 GCACAAAGCCATTAGTAGCAGTGATATGACC
66 GCACAAAGCCATCAATAACAGTGATATGACC
*
12227147 GGCACACAA-CTATCAGTAACAGTGAAATGATCAG-CACACAGCCAT-AGGTAACGGTAATATGA
1 GGCACA-AAGCTATCAGTAACAGTGAAATGA-CAGACACACAGCCATCA-GTAACGGTAACATGA
*
12227209 TCTGCACAAAGCCATCAATAA
63 TCGGCACAAAGCCATCAATAA
12227230 TGGTACTATG
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
95 1 0.01
96 67 0.93
97 4 0.06
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (96 bp):
GGCACAAAGCTATCAGTAACAGTGAAATGACAGACACACAGCCATCAGTAACGGTAACATGATCG
GCACAAAGCCATCAATAACAGTGATATGACC
Found at i:12227356 original size:27 final size:27
Alignment explanation
Indices: 12227300--12227356 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
12227290 AGCAAAGCTG
*
12227300 CCAGTAATAGTATATGTGGCCAAGCGA
1 CCAGTAATAGTATATGTGGCCAAGCCA
12227327 CCAGTAATAGTA-ATTGTGG-CAGAGCCA
1 CCAGTAATAGTATA-TGTGGCCA-AGCCA
12227354 CCA
1 CCA
12227357 CTACAGTACT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 3 0.11
27 24 0.89
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (27 bp):
CCAGTAATAGTATATGTGGCCAAGCCA
Found at i:12227461 original size:24 final size:23
Alignment explanation
Indices: 12227434--12227507 Score: 71
Period size: 24 Copynumber: 3.2 Consensus size: 23
12227424 TCAGAATCAG
12227434 TCATTCAAATCACAGACAAATTAA
1 TCATTCAAA-CACAGACAAATTAA
* *
12227458 TCATACCAAACACAGACAAATTAG
1 TCAT-TCAAACACAGACAAATTAA
* * *
12227482 TCATTTAACCATAGAC-AA-TAA
1 TCATTCAAACACAGACAAATTAA
12227503 TCATT
1 TCATT
12227508 TGACCTCAAG
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
21 7 0.17
22 2 0.05
23 8 0.19
24 21 0.50
25 4 0.10
ACGTcount: A:0.47, C:0.22, G:0.05, T:0.26
Consensus pattern (23 bp):
TCATTCAAACACAGACAAATTAA
Found at i:12230351 original size:37 final size:38
Alignment explanation
Indices: 12230289--12230378 Score: 114
Period size: 37 Copynumber: 2.4 Consensus size: 38
12230279 GACTCCAAAT
* * *
12230289 TCACATTTCAATTC-AAATTCACTTTTTCACTTTCAA-
1 TCACAATTCGATTCAAAATTCACTTTTCCACTTTCAAG
*
12230325 TCACAATTCGATTCAAAATTCACTTTTCCATTTTCAAG
1 TCACAATTCGATTCAAAATTCACTTTTCCACTTTCAAG
12230363 TCA-ATATTCGATTCAA
1 TCACA-ATTCGATTCAA
12230379 TTCCACACAT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
36 12 0.26
37 21 0.45
38 14 0.30
ACGTcount: A:0.32, C:0.23, G:0.03, T:0.41
Consensus pattern (38 bp):
TCACAATTCGATTCAAAATTCACTTTTCCACTTTCAAG
Found at i:12231074 original size:12 final size:12
Alignment explanation
Indices: 12231059--12231089 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
12231049 TTCTCTTTTA
12231059 TTTTTCTTTCCC
1 TTTTTCTTTCCC
*
12231071 TTTTTCTTTCGC
1 TTTTTCTTTCCC
12231083 TTTTTCT
1 TTTTTCT
12231090 CCCCTACTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.03, T:0.71
Consensus pattern (12 bp):
TTTTTCTTTCCC
Found at i:12231631 original size:3 final size:3
Alignment explanation
Indices: 12231623--12231686 Score: 74
Period size: 3 Copynumber: 20.7 Consensus size: 3
12231613 TTACTTTATT
** *
12231623 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGGT TAA TAA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
*
12231669 TAA TAA TTA TATA TAA TA
1 TAA TAA TAA TA-A TAA TA
12231687 TTTATGTATA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
3 47 0.92
4 4 0.08
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:12238424 original size:21 final size:21
Alignment explanation
Indices: 12238398--12238449 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
12238388 CACCGCTATT
*
12238398 TCTAATCTCATTGATATAGTA
1 TCTAATCTCATTGATACAGTA
*
12238419 TCTAATCTCATTGTTACAGTA
1 TCTAATCTCATTGATACAGTA
*
12238440 ACTAATCTCA
1 TCTAATCTCA
12238450 CCACCACCAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (21 bp):
TCTAATCTCATTGATACAGTA
Found at i:12240720 original size:11 final size:12
Alignment explanation
Indices: 12240698--12240736 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
12240688 ATAAAAAATA
12240698 TTATATTTAATT
1 TTATATTTAATT
*
12240710 TTTTA-TTAATT
1 TTATATTTAATT
12240721 ATTATATTTAATT
1 -TTATATTTAATT
12240734 TTA
1 TTA
12240737 GAAAATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 6 0.26
12 11 0.48
13 6 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTATATTTAATT
Found at i:12242317 original size:21 final size:18
Alignment explanation
Indices: 12242276--12242319 Score: 52
Period size: 21 Copynumber: 2.3 Consensus size: 18
12242266 CAAGAATAGG
*
12242276 TATTTTATTAAGTTTAAA
1 TATTTTATTAACTTTAAA
12242294 TATTTTATTTAACTATTCAAA
1 TATTTTA-TTAACT-TT-AAA
12242315 TATTT
1 TATTT
12242320 AAAATTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 7 0.32
19 5 0.23
20 2 0.09
21 8 0.36
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (18 bp):
TATTTTATTAACTTTAAA
Found at i:12246897 original size:208 final size:208
Alignment explanation
Indices: 12246539--12246954 Score: 805
Period size: 208 Copynumber: 2.0 Consensus size: 208
12246529 ATAACCGGAT
12246539 GATACATGATATCGGGCTTAAGTAAAATTTGATATTATTCCCTAGTTTCCACTACATTGCAAATG
1 GATACATGATATCGGGCTTAAGTAAAATTTGATATTATTCCCTAGTTTCCACTACATTGCAAATG
* * *
12246604 AACTGTTTTTGAAAAACAAATCGATAAGGCAACTAATTTTTCAAAATGACTTCAAAAATGGTTTT
66 AACTGTTTTTGAAAAACAAATCGACAAGGCAACCAATTTTCCAAAATGACTTCAAAAATGGTTTT
12246669 TCCGCTGAATTAGTTTAACTTCAAGTTTTTTTTAAAGAAGAGCGACAAGCAAATGATTTTTCTAA
131 TCCGCTGAATTAGTTTAACTTCAAGTTTTTTTTAAAGAAGAGCGACAAGCAAATGATTTTTCTAA
12246734 AACAACACTGTCA
196 AACAACACTGTCA
12246747 GATACATGATATCGGGCTTAAGTAAAATTTGATATTATTCCCTAGTTTCCACTACATTGCAAATG
1 GATACATGATATCGGGCTTAAGTAAAATTTGATATTATTCCCTAGTTTCCACTACATTGCAAATG
12246812 AACTGTTTTTGAAAAACAAATCGACAAGGCAACCAATTTTCCAAAATGACTTCAAAAATGGTTTT
66 AACTGTTTTTGAAAAACAAATCGACAAGGCAACCAATTTTCCAAAATGACTTCAAAAATGGTTTT
12246877 TCCGCTGAATTAGTTTAACTTCAAGTTTTTTTTAAAGAAGAGCGACAAGCAAATGATTTTTCTAA
131 TCCGCTGAATTAGTTTAACTTCAAGTTTTTTTTAAAGAAGAGCGACAAGCAAATGATTTTTCTAA
12246942 AACAACACTGTCA
196 AACAACACTGTCA
12246955 ACAATAAAAT
Statistics
Matches: 205, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
208 205 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (208 bp):
GATACATGATATCGGGCTTAAGTAAAATTTGATATTATTCCCTAGTTTCCACTACATTGCAAATG
AACTGTTTTTGAAAAACAAATCGACAAGGCAACCAATTTTCCAAAATGACTTCAAAAATGGTTTT
TCCGCTGAATTAGTTTAACTTCAAGTTTTTTTTAAAGAAGAGCGACAAGCAAATGATTTTTCTAA
AACAACACTGTCA
Found at i:12252380 original size:5 final size:5
Alignment explanation
Indices: 12252370--12252414 Score: 63
Period size: 5 Copynumber: 9.0 Consensus size: 5
12252360 AATTAGCATA
* **
12252370 ATATC ATATC ATGTC ATGCC ATATC ATATC ATATC ATATC ATATC
1 ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC ATATC
12252415 TTTCCTTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.38
Consensus pattern (5 bp):
ATATC
Found at i:12257517 original size:16 final size:16
Alignment explanation
Indices: 12257496--12257526 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12257486 CTTCAGTTGC
12257496 AGAAAAAAAAAGAAAA
1 AGAAAAAAAAAGAAAA
*
12257512 AGAAAAAAATAGAAA
1 AGAAAAAAAAAGAAA
12257527 GAATGGGGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (16 bp):
AGAAAAAAAAAGAAAA
Found at i:12265020 original size:218 final size:219
Alignment explanation
Indices: 12264634--12265079 Score: 698
Period size: 218 Copynumber: 2.0 Consensus size: 219
12264624 TGACAAGGTC
* *
12264634 ATTGGACGAGCATTAAGTAGTTGCTTTCATAATGGTATGTCGTCAAGGAGAACTCAATCACGATA
1 ATTGAACGAGCATTAAGCAGTTGCTTTCATAATGGTATGTCGTCAAGGAGAACTCAATCACGATA
*
12264699 CTATAGTGGACTGACTTCGTGACTAAATGAGTTTATAATTAATAAACGAAAAGCCAAAACTTAAA
66 CTATAGTGGAATGACTTCGTGACTAAATGAGTTTATAATTAATAAACGAAAAGCCAAAACTTAAA
*
12264764 TATAAATCATTTGAGCCTCAGCTACATATATCCAATCGGTCCCTCCGCTAACTCGTTGAAACCAG
131 TATAAATCATTTGAGCCTCAACTACATATATCCAATCGGTCCCTCCGCTAACTCGTTGAAACCAG
12264829 AAATGAACTG-CGTGTTTGAAT-AA
196 AAATGAACTGTC-TGTTTGAATAAA
* * * **
12264852 ATTGAACGAGCATTGAGCAGTTGCTTTCGTAATGGTATGTTGTTGAGGAGAACTCAATCACGATA
1 ATTGAACGAGCATTAAGCAGTTGCTTTCATAATGGTATGTCGTCAAGGAGAACTCAATCACGATA
* * * * *
12264917 CTATAGTGGAATGACTTCGTGACTAAATGCGTTTATAATTAATAAGCGAAAAGCCAGAATTTAAT
66 CTATAGTGGAATGACTTCGTGACTAAATGAGTTTATAATTAATAAACGAAAAGCCAAAACTTAAA
* * *
12264982 TATAAATCATTTGAGCCTCAACTACATATGTTCAATCGGTCCCTCCGCTAACTTGTTGAAACCAG
131 TATAAATCATTTGAGCCTCAACTACATATATCCAATCGGTCCCTCCGCTAACTCGTTGAAACCAG
*
12265047 AAATGAATTGTCTGTTTGAATAAA
196 AAATGAACTGTCTGTTTGAATAAA
*
12265071 AATGAACGA
1 ATTGAACGA
12265080 AATGAATAGG
Statistics
Matches: 207, Mismatches: 19, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
218 196 0.95
219 11 0.05
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (219 bp):
ATTGAACGAGCATTAAGCAGTTGCTTTCATAATGGTATGTCGTCAAGGAGAACTCAATCACGATA
CTATAGTGGAATGACTTCGTGACTAAATGAGTTTATAATTAATAAACGAAAAGCCAAAACTTAAA
TATAAATCATTTGAGCCTCAACTACATATATCCAATCGGTCCCTCCGCTAACTCGTTGAAACCAG
AAATGAACTGTCTGTTTGAATAAA
Found at i:12268510 original size:3 final size:3
Alignment explanation
Indices: 12268497--12268533 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
12268487 AAAAATACAA
*
12268497 TTC TCC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
12268534 ACTACTACTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:12272656 original size:14 final size:14
Alignment explanation
Indices: 12272637--12272668 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
12272627 TCCAATCACC
12272637 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
12272651 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
12272665 GGGC
1 GGGC
12272669 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:12277782 original size:14 final size:14
Alignment explanation
Indices: 12277763--12277794 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
12277753 TCCAATCACC
12277763 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
12277777 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
12277791 GGGC
1 GGGC
12277795 TAAATGGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:12278056 original size:36 final size:38
Alignment explanation
Indices: 12278016--12278101 Score: 122
Period size: 36 Copynumber: 2.3 Consensus size: 38
12278006 TAGTTTTTAG
*
12278016 TTTTAAAAATAAAGTATAAAATA-ATTTTAA-TCTTAA
1 TTTTAGAAATAAAGTATAAAATATATTTTAATTCTTAA
* * *
12278052 TTTTAGAAATAAAGTGTTAAATATATTTTAATTTTTAA
1 TTTTAGAAATAAAGTATAAAATATATTTTAATTCTTAA
12278090 TTTTAGAAATAA
1 TTTTAGAAATAA
12278102 TATATATTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
36 20 0.45
37 7 0.16
38 17 0.39
ACGTcount: A:0.48, C:0.01, G:0.06, T:0.45
Consensus pattern (38 bp):
TTTTAGAAATAAAGTATAAAATATATTTTAATTCTTAA
Found at i:12278083 original size:31 final size:32
Alignment explanation
Indices: 12277987--12278086 Score: 80
Period size: 31 Copynumber: 3.1 Consensus size: 32
12277977 TTAGTTAAGC
* *
12277987 TTAGAAATAAAG-GTTTAAATAGT-TTTTAGTT
1 TTAGAAATAAAGTG-TTAAATATTATTTTAATT
* * * *
12278018 TTAAAAATAAAGTATAAAATAATTTTAATCTTAATT
1 TTAGAAATAAAGTGTTAAAT-A--TT-ATTTTAATT
12278054 TTAGAAATAAAGTGTTAAATA-TATTTTAATT
1 TTAGAAATAAAGTGTTAAATATTATTTTAATT
12278085 TT
1 TT
12278087 TAATTTTAGA
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
31 26 0.49
32 2 0.04
34 1 0.02
35 1 0.02
36 23 0.43
ACGTcount: A:0.45, C:0.01, G:0.09, T:0.45
Consensus pattern (32 bp):
TTAGAAATAAAGTGTTAAATATTATTTTAATT
Found at i:12278099 original size:38 final size:37
Alignment explanation
Indices: 12278009--12278191 Score: 141
Period size: 38 Copynumber: 5.0 Consensus size: 37
12277999 GTTTAAATAG
* * * *
12278009 TTTTTAGTTTTAAAAATAAAGTATAAA-ATAATTTTAA
1 TTTTTAATTTTAGAAATAAATTTTAAATAT-ATTTTAA
* *
12278046 -TCTTAATTTTAGAAATAAAGTGTTAAATATATTTTAA
1 TTTTTAATTTTAGAAATAAA-TTTTAAATATATTTTAA
*
12278083 TTTTTAATTTTAGAAAT-AA---T--ATATATTTACTAC
1 TTTTTAATTTTAGAAATAAATTTTAAATATATTT--TAA
* * *
12278116 TTTTTAATTTCAGAAATAAAATTTTAAATACTTTTTTCA
1 TTTTTAATTTTAGAAAT-AAATTTTAAATA-TATTTTAA
*
12278155 TTTTTAACTTTAGAAATAAATTTCTAAATA-ATTTTAA
1 TTTTTAATTTTAGAAATAAATTT-TAAATATATTTTAA
12278192 ATATAATATA
Statistics
Matches: 116, Mismatches: 16, Indels: 28
0.73 0.10 0.17
Matches are distributed among these distances:
31 8 0.07
33 19 0.16
35 2 0.02
36 16 0.14
37 18 0.16
38 24 0.21
39 22 0.19
40 3 0.03
41 4 0.03
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (37 bp):
TTTTTAATTTTAGAAATAAATTTTAAATATATTTTAA
Found at i:12278151 original size:31 final size:33
Alignment explanation
Indices: 12278083--12278151 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
12278073 TATATTTTAA
* *
12278083 TTTTTAATTTTAGAAATAATATATATTTACTAC
1 TTTTTAATTTCAGAAATAATATATATTTAATAC
12278116 TTTTTAATTTCAGAAATAA-A-AT-TTTAAATAC
1 TTTTTAATTTCAGAAATAATATATATTT-AATAC
12278147 TTTTT
1 TTTTT
12278152 TCATTTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 3 0.09
31 11 0.33
32 1 0.03
33 18 0.55
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (33 bp):
TTTTTAATTTCAGAAATAATATATATTTAATAC
Found at i:12279680 original size:14 final size:15
Alignment explanation
Indices: 12279656--12279692 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
12279646 CATAATTTTT
*
12279656 TTTGAAGTAAAAAAA
1 TTTGAAATAAAAAAA
12279671 -TTGAAATAAAAAAA
1 TTTGAAATAAAAAAA
12279685 TTTGAAAT
1 TTTGAAAT
12279693 TTATTAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (15 bp):
TTTGAAATAAAAAAA
Found at i:12280935 original size:125 final size:125
Alignment explanation
Indices: 12280713--12280956 Score: 393
Period size: 125 Copynumber: 2.0 Consensus size: 125
12280703 GATAAAATCA
*
12280713 AAGCATGATGCTTTATTAGAAGAATTTCTAAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATTAGAAGAATTTCTAAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
12280778 AGGTCTTGGAAAAATAATTTCGAGTTGACGTTTATGAGCAAATAATATAAAAAACGCTTC
66 AGGTCCTGGAAAAATAATTTCGAATTGACGTTTATGAGCAAATAATATAAAAAACGCTTC
*
12280838 AAGCAGGATGCTTTATTAGAAGAATTTCTGAAA-TCGCGCCCTCGTGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCTTTATTAGAAGAATTTCT-AAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAG
* * *
12280902 TAGGTCCTGGAAAAATAATTTTC-AATTGACGTTTCTGAGTAAATAGTATAAAAAA
65 TAGGTCCTGGAAAAATAA-TTTCGAATTGACGTTTATGAGCAAATAATATAAAAAA
12280957 ATGCTTCCGG
Statistics
Matches: 110, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
125 103 0.94
126 7 0.06
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (125 bp):
AAGCAGGATGCTTTATTAGAAGAATTTCTAAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTCGAATTGACGTTTATGAGCAAATAATATAAAAAACGCTTC
Found at i:12281011 original size:7 final size:7
Alignment explanation
Indices: 12280999--12281030 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
12280989 GTTTGTCAAT
12280999 TAAATTA
1 TAAATTA
12281006 TAAATT-
1 TAAATTA
12281012 T-AATTA
1 TAAATTA
12281018 TAAATTA
1 TAAATTA
12281025 TAAATT
1 TAAATT
12281031 TTTAAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
5 4 0.17
6 2 0.09
7 17 0.74
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATTA
Found at i:12281255 original size:21 final size:21
Alignment explanation
Indices: 12281231--12281277 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
12281221 TTGTCCAGCT
* *
12281231 TCCGGCGGGGGTTGTGGTTGC
1 TCCGGCGGGGATTGTGGTTCC
*
12281252 TCCGGCGGGGATTTTGGTTCC
1 TCCGGCGGGGATTGTGGTTCC
12281273 TCCGG
1 TCCGG
12281278 TAGGGCATCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.02, C:0.23, G:0.45, T:0.30
Consensus pattern (21 bp):
TCCGGCGGGGATTGTGGTTCC
Found at i:12281559 original size:18 final size:18
Alignment explanation
Indices: 12281533--12281575 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
12281523 GACTCGAAAA
* *
12281533 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGTT
*
12281551 AGGATACATAAAAGGTTT
1 AGGATACATAAAAGGGTT
12281569 AGGATAC
1 AGGATAC
12281576 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.07, G:0.26, T:0.23
Consensus pattern (18 bp):
AGGATACATAAAAGGGTT
Found at i:12283450 original size:51 final size:50
Alignment explanation
Indices: 12283382--12283479 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 50
12283372 AAATAATTAA
*
12283382 AAATAGGGATTTAAGAGAAATTT-AAGAGGAAATTGAGAGTAAATTGAAATT
1 AAATAGGGATTTAAGAGAAATTTGAAG-GG-AATTGAGAGAAAATTGAAATT
* *
12283433 AAATATGGATTTGAGAGAAATTTGGAAGGGAATTGAGAGAAAATTGA
1 AAATAGGGATTTAAGAGAAATTT-GAAGGGAATTGAGAGAAAATTGA
12283480 GAAAATAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
51 37 0.88
52 2 0.05
53 3 0.07
ACGTcount: A:0.47, C:0.00, G:0.27, T:0.27
Consensus pattern (50 bp):
AAATAGGGATTTAAGAGAAATTTGAAGGGAATTGAGAGAAAATTGAAATT
Found at i:12286674 original size:37 final size:36
Alignment explanation
Indices: 12286623--12286720 Score: 115
Period size: 37 Copynumber: 2.6 Consensus size: 36
12286613 GAAATCTTTG
* *
12286623 TTATAATTATTGTAATTATAATTTATGATCGAATATTA
1 TTATAATTA-TGTAATTATAATTTATG-TCAAACATTA
* * *
12286661 TTATAATTCTGTAATTGTAATTTTTTGTCAAACATTA
1 TTATAATTATGTAATTATAA-TTTATGTCAAACATTA
12286698 TTATAATTATGGTAATTATAATT
1 TTATAATTAT-GTAATTATAATT
12286721 ATTATATTCG
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
37 29 0.57
38 22 0.43
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.51
Consensus pattern (36 bp):
TTATAATTATGTAATTATAATTTATGTCAAACATTA
Found at i:12297305 original size:50 final size:50
Alignment explanation
Indices: 12297194--12297440 Score: 210
Period size: 50 Copynumber: 4.8 Consensus size: 50
12297184 ATTTGGGTAA
* *
12297194 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* *
12297250 AGAGGTCCCATGTAAGACTATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * * * *
12297300 AGAGGTCCCCTGTAAGATCATGTCTGGGACATGGCATGGGCACCAATATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * ** * * *
12297350 AGAACTCCCATGTAAGACCATATCTGGGTTATGGCATTGGTA--GTACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** * *
12297399 AAACATCCCATGTAAGTCCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
12297441 TGTTATTATC
Statistics
Matches: 156, Mismatches: 34, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
49 35 0.22
50 78 0.50
53 3 0.02
55 1 0.01
56 39 0.25
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:12298164 original size:37 final size:37
Alignment explanation
Indices: 12298123--12298195 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
12298113 TTGAAAACTC
*
12298123 ACCAAAAATAGTAGAAAATGAATTAGAGGGTGGATGT
1 ACCAAAAATAGTAGAAAATGAATTAGAGGGTAGATGT
** *
12298160 ACCAAGGATATTAGAAAATGAATTAGAGGGTAGATG
1 ACCAAAAATAGTAGAAAATGAATTAGAGGGTAGATG
12298196 AGATATATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.45, C:0.05, G:0.27, T:0.22
Consensus pattern (37 bp):
ACCAAAAATAGTAGAAAATGAATTAGAGGGTAGATGT
Found at i:12303080 original size:13 final size:13
Alignment explanation
Indices: 12303044--12303104 Score: 72
Period size: 13 Copynumber: 4.7 Consensus size: 13
12303034 TCTTCATTAC
12303044 TTTTGAAAAGT-T
1 TTTTGAAAAGTGT
*
12303056 TTGTGGAAAAGTGT
1 TT-TTGAAAAGTGT
12303070 TTTT-AAGAAGTGT
1 TTTTGAA-AAGTGT
*
12303083 TTTTGAAAAGTGC
1 TTTTGAAAAGTGT
12303096 TTTTGAAAA
1 TTTTGAAAA
12303105 ATTTGAGTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
12 4 0.10
13 33 0.79
14 5 0.12
ACGTcount: A:0.33, C:0.02, G:0.23, T:0.43
Consensus pattern (13 bp):
TTTTGAAAAGTGT
Found at i:12305523 original size:34 final size:35
Alignment explanation
Indices: 12305479--12305545 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
12305469 CAGTAAAATA
12305479 TTTTCCGTAAAATGATTT-CTGGAAAATATTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
12305513 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
12305546 CTGGTGTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 17 0.55
35 14 0.45
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:12306374 original size:36 final size:37
Alignment explanation
Indices: 12306298--12306382 Score: 109
Period size: 39 Copynumber: 2.3 Consensus size: 37
12306288 GCAGTAAAGC
* *
12306298 AAAGAAGTAATCCAGAATTTTCCCTGAAAATTCTAATCG
1 AAAGAAGTAAGCCAAAATTTTCCCTG--AATTCTAATCG
*
12306337 AAAGCAGTAAGCCAAAATTTTCCCTG-ATTCTAATCG
1 AAAGAAGTAAGCCAAAATTTTCCCTGAATTCTAATCG
*
12306373 AAAGTAGTAA
1 AAAGAAGTAA
12306383 AGCAAACGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
36 19 0.45
39 23 0.55
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (37 bp):
AAAGAAGTAAGCCAAAATTTTCCCTGAATTCTAATCG
Found at i:12306403 original size:22 final size:22
Alignment explanation
Indices: 12306373--12306422 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
12306363 ATTCTAATCG
*
12306373 AAAGTAGTAAAGCA-AACGAAGT
1 AAAGCAGTAAAGCACAA-GAAGT
* *
12306395 AAAGCAGTAAGGCACAAGCAGT
1 AAAGCAGTAAAGCACAAGAAGT
12306417 AAAGCA
1 AAAGCA
12306423 AAAGAAGCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.52, C:0.14, G:0.24, T:0.10
Consensus pattern (22 bp):
AAAGCAGTAAAGCACAAGAAGT
Found at i:12307126 original size:27 final size:27
Alignment explanation
Indices: 12307096--12307153 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
12307086 ATTGAGTTGC
* *
12307096 TTAATCAACTTATTTAAAATAAT-ATAT
1 TTAACCAACTTA-TGAAAATAATAATAT
* *
12307123 TTAACCGACTTATGAATATAATAATAT
1 TTAACCAACTTATGAAAATAATAATAT
12307150 TTAA
1 TTAA
12307154 ATATTAAGTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 8 0.31
27 18 0.69
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (27 bp):
TTAACCAACTTATGAAAATAATAATAT
Found at i:12309119 original size:23 final size:23
Alignment explanation
Indices: 12309093--12309139 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
12309083 TTATAATCTT
12309093 TTTTACTTTAAAAAATATTATTA
1 TTTTACTTTAAAAAATATTATTA
* * *
12309116 TTTTATTTTTAAAAATATTTTTA
1 TTTTACTTTAAAAAATATTATTA
12309139 T
1 T
12309140 ATATATCGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTACTTTAAAAAATATTATTA
Found at i:12309476 original size:9 final size:10
Alignment explanation
Indices: 12309456--12309503 Score: 55
Period size: 10 Copynumber: 4.8 Consensus size: 10
12309446 GGTGTGTGGG
12309456 GAAGAAAAGA
1 GAAGAAAAGA
*
12309466 G-AGAAAGGA
1 GAAGAAAAGA
12309475 GAAGAAAAGAA
1 GAAGAAAAG-A
12309486 GAAGAAGAAGA
1 GAAGAA-AAGA
12309497 -AAGAAAA
1 GAAGAAAA
12309504 AAAAAAGGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
9 10 0.30
10 12 0.36
11 8 0.24
12 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (10 bp):
GAAGAAAAGA
Found at i:12309496 original size:17 final size:19
Alignment explanation
Indices: 12309456--12309498 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 19
12309446 GGTGTGTGGG
*
12309456 GAAGAAAAGAGAGAAAGGA
1 GAAGAAAAGAGAGAAAGAA
12309475 GAAGAAAAGA-AG-AAGAA
1 GAAGAAAAGAGAGAAAGAA
12309492 GAAGAAA
1 GAAGAAA
12309499 GAAAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 11 0.48
18 2 0.09
19 10 0.43
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (19 bp):
GAAGAAAAGAGAGAAAGAA
Found at i:12309509 original size:27 final size:27
Alignment explanation
Indices: 12309456--12309510 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
12309446 GGTGTGTGGG
* * *
12309456 GAAGAAAAGAGAGAAAGGAGAAGAAAA
1 GAAGAAAAGAGAGAAAGAAAAAAAAAA
12309483 GAAGAAGAAGA-AGAAAGAAAAAAAAAA
1 GAAGAA-AAGAGAGAAAGAAAAAAAAAA
12309510 G
1 G
12309511 GTAATGTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (27 bp):
GAAGAAAAGAGAGAAAGAAAAAAAAAA
Found at i:12310052 original size:104 final size:103
Alignment explanation
Indices: 12309866--12310250 Score: 363
Period size: 104 Copynumber: 3.7 Consensus size: 103
12309856 ATCTTATAGC
* * *
12309866 TATTTTGTTAGTAGTTTATGATTAGGTTATAAATTGTTAGTG--T--TTT-GTGTTTTGTTATTT
1 TATTTTGTTAGTAATTTATGATTAGATTATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGATTT
* * *** * *
12309926 TTTAGTAATGTAATTTCTTTTTTTTTAAA-T-GTTGTAGTTATT
66 TTAAGCAATGTAA----TTTTTTAAAAAAGTAATTGTA--TAAT
*
12309968 TATTTTGTTAGTAATTTATGGGATTAGATTATAAATTGTTAGTGTTTAGTTTAGGGTTTTGTGAT
1 TATTTTGTTAGTAATTTAT--GATTAGATTATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGAT
*
12310033 TTTTAAGCAATGTAA-TTTTTAAAAAAGTAATTTTATAAT
64 TTTTAAGCAATGTAATTTTTTAAAAAAGTAATTGTATAAT
*
12310072 TATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGAT
1 TATTTTGTTAGTAATTTATGATTA-GAT-TATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGAT
* * * * * * *
12310137 TTTTTAGTAAAGCAAATTTTTAAAAAAAAAAGGTAATTTTATAGT
64 TTTTAAGCAATG-TAATTTTT---TAAAAAA-GTAATTGTATAAT
* *
12310182 TATTTTGTTAGTAATTGATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGAT
1 TATTTTGTTAGTAATTTATGATTA-GAT-TATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGAT
12310247 TTTT
64 TTTT
12310251 TTTAATGTGA
Statistics
Matches: 245, Mismatches: 21, Indels: 26
0.84 0.07 0.09
Matches are distributed among these distances:
102 23 0.09
103 2 0.01
104 96 0.39
105 3 0.01
106 9 0.04
108 3 0.01
109 29 0.12
110 80 0.33
ACGTcount: A:0.28, C:0.01, G:0.17, T:0.54
Consensus pattern (103 bp):
TATTTTGTTAGTAATTTATGATTAGATTATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGATTT
TTAAGCAATGTAATTTTTTAAAAAAGTAATTGTATAAT
Found at i:12310209 original size:110 final size:104
Alignment explanation
Indices: 12309967--12310251 Score: 412
Period size: 110 Copynumber: 2.7 Consensus size: 104
12309957 TTGTAGTTAT
* *
12309967 TTATTTTGTTAGTAATTTATGGGATTA-GAT-TATAAATTGTTAGTGTTTAGTTTAGGGTTTTGT
1 TTATTTTGTTAGTAATTTAT--GATTAGGTTATATAAATTGTTAGTGTTTAGTTTAGTGTTTTGT
* * *
12310030 GATTTTTAAGCAATGTAATTTTTAAAAAAGTAATTTTATAA
64 GATTTTTTAGCAAAGAAATTTTTAAAAAAGTAATTTTATAA
12310071 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGA
1 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGA
* *
12310136 TTTTTTAGTAAAGCAAATTTTTAAAAAAAAAAGGTAATTTTATAG
66 TTTTTTAGCAAAG-AAATTTTT----AAAAAA-GTAATTTTATAA
*
12310181 TTATTTTGTTAGTAATTGATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGA
1 TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGA
12310246 TTTTTT
66 TTTTTT
12310252 TTAATGTGAT
Statistics
Matches: 165, Mismatches: 8, Indels: 10
0.90 0.04 0.05
Matches are distributed among these distances:
102 5 0.03
103 2 0.01
104 64 0.39
105 7 0.04
109 6 0.04
110 81 0.49
ACGTcount: A:0.30, C:0.01, G:0.18, T:0.52
Consensus pattern (104 bp):
TTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGA
TTTTTTAGCAAAGAAATTTTTAAAAAAGTAATTTTATAA
Found at i:12313597 original size:3 final size:3
Alignment explanation
Indices: 12313589--12313624 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
12313579 GATGGTATTT
12313589 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12313625 CAAAAATAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:12315501 original size:130 final size:131
Alignment explanation
Indices: 12315198--12315517 Score: 326
Period size: 130 Copynumber: 2.5 Consensus size: 131
12315188 CTTTTTTCAC
* * ** * * * **
12315198 TCTACTTCATACCAATACATGAAGACAAAATCTACTTTCTTCGATCGATTCCACTGCCGATCGGG
1 TCTACTTCACACCAATACATGAAGACAAGATCTGTTTTCTTCGATCTATTCCACTG-CTACCCAG
* *
12315263 GGAATAGAATTACTGGCTTCAATATACTCTACTGCAACCTCGGGAAGGTAAAATCCACCATCTTT
65 AGAATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCGGGAAGGTAAAATCCACCATCTTT
12315328 GA
130 GA
* * * * * * * ** *
12315330 TCTGC-TC-CACTATTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTACCCA
1 TCTACTTCACACCAATAC--ATGAAGACAAGATCTGTTTTCTTCGATCTATTCCACTGCTACCCA
* * * *
12315393 GAG-ATAGAATTACTGGCTTCAATGTACTCCATTGTAACCTCAGGG-AGGTAAAATCCGCCATCT
64 GAGAATAGAATTACTGGCTTCAATATACTCCACTGCAACCTC-GGGAAGGTAAAATCCACCATCT
12315456 TTGA
128 TTGA
* *
12315460 TCTACTTCACGCCAATACATGAAGACAAGATCTGTTTTCTTCGATCTATTTCA-TGCTA
1 TCTACTTCACACCAATACATGAAGACAAGATCTGTTTTCTTCGATCTATTCCACTGCTA
12315518 ATACATGAAG
Statistics
Matches: 146, Mismatches: 37, Indels: 13
0.74 0.19 0.07
Matches are distributed among these distances:
129 5 0.03
130 92 0.63
131 12 0.08
132 37 0.25
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (131 bp):
TCTACTTCACACCAATACATGAAGACAAGATCTGTTTTCTTCGATCTATTCCACTGCTACCCAGA
GAATAGAATTACTGGCTTCAATATACTCCACTGCAACCTCGGGAAGGTAAAATCCACCATCTTTG
A
Found at i:12315522 original size:44 final size:44
Alignment explanation
Indices: 12315453--12315733 Score: 240
Period size: 44 Copynumber: 6.3 Consensus size: 44
12315443 AAATCCGCCA
* *
12315453 TCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGTTT
1 TCTTTGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTT
* * * *
12315497 TCTTCGATCTATTTCATGCTAATACATGAAGACAAGATCTGCTA
1 TCTTTGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTT
*
12315541 TCTTTGATCTACTTCACGCTAATACATGAAGACACGATCTGCTT
1 TCTTTGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTT
* * * * * *** *
12315585 TCTTGGATCTACTTCGCCACCAGTATGGGAAGACACGATCTGCTT
1 TCTTTGATCTACTTC-ACGCTAATACATGAAGACAAGATCTGCTT
** * * * * *** * *
12315630 TCTTCAATCTACTCCACCACCAGTATGGGGAGACAATATCTG-TT
1 TCTTTGATCTACTTCA-CGCTAATACATGAAGACAAGATCTGCTT
* ** *
12315674 GTATTTGATCTACTTCACGCCGATACATGAAGACAAGATCTGTTT
1 -TCTTTGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTT
*
12315719 TCTTCGATCTACTTC
1 TCTTTGATCTACTTC
12315734 GCCACTAGTA
Statistics
Matches: 193, Mismatches: 40, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
44 123 0.64
45 70 0.36
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (44 bp):
TCTTTGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTT
Found at i:12315627 original size:45 final size:45
Alignment explanation
Indices: 12315524--12315757 Score: 188
Period size: 45 Copynumber: 5.2 Consensus size: 45
12315514 GCTAATACAT
* * * * * * ***
12315524 GAAGACAAGATCTGCTATCTTTGATCTACTTC-ACGCTAATACAT
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGG
* *
12315568 GAAGACACGATCTGCTTTCTTGGATCTACTTCGCCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGG
* * * *
12315613 GAAGACACGATCTGCTTTCTTCAATCTACTCCACCACCAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGG
* * * * * * ***
12315658 GGAGACAATATCTG-TTGTATTTGATCTACTTC-ACGCC-GATACAT
1 GAAGACAAGATCTGCTT-TCTTCGATCTACTTCGCCACCAG-TATGG
* *
12315702 GAAGACAAGATCTGTTTTCTTCGATCTACTTCGCCACTAGTATGG
1 GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGG
12315747 GAAGACAAGAT
1 GAAGACAAGAT
12315758 TTGGTATCTT
Statistics
Matches: 148, Mismatches: 36, Indels: 11
0.76 0.18 0.06
Matches are distributed among these distances:
43 1 0.01
44 61 0.41
45 85 0.57
46 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (45 bp):
GAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGG
Found at i:12315986 original size:132 final size:132
Alignment explanation
Indices: 12315749--12316166 Score: 608
Period size: 132 Copynumber: 3.2 Consensus size: 132
12315739 TAGTATGGGA
* ** * * *
12315749 AGACAAGATTTGGTATCTTTAATCTATTCCACTACTGCCCAGGGAAGTAGAATTACTGGTTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
12315814 TGTACTCCACTGTAACCACAGGGAGGTAAAA-TCTGCCATCTTTGATCTGCTCCACTACTGCTTA
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATTC-GCCATCTTTGATCTGCTCCACTACTGCTTA
12315878 GGG
130 GGG
* *
12315881 AGACAAGATCTGAAATCTTCAATCTATCCCGCTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
* * *
12315946 TGTACTTCACTGTAACCACAGGGAGGTAAAATTCACCATCTTTGACCTGCTCCACTACTGCTTAG
66 TGTACTCCACTGTAACCACAGGGAGGTAAAATTCGCCATCTTTGATCTGCTCCACTACTGCTTAG
12316011 GG
131 GG
**
12316013 AGGTAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGG-AGATAGAATTACTGGCTTCA
1 AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCTTCA
* * ** * *
12316077 TTGTACTCCACTGCAACTTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTA
65 ATGTACTCCACTGTAACCACAGGGAGGTAAAATTCGCCATCTTTGATCTGCTCCACTACTGCTTA
12316142 GGG
130 GGG
*
12316145 AGGCAAGATCT-ATAATCTTCAA
1 AGACAAGATCTGA-AATCTTCAA
12316167 CCTGCTCCAC
Statistics
Matches: 258, Mismatches: 25, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
131 3 0.01
132 253 0.98
133 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (132 bp):
AGACAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAA
TGTACTCCACTGTAACCACAGGGAGGTAAAATTCGCCATCTTTGATCTGCTCCACTACTGCTTAG
GG
Found at i:12316145 original size:44 final size:44
Alignment explanation
Indices: 12315965--12316147 Score: 104
Period size: 44 Copynumber: 4.2 Consensus size: 44
12315955 CTGTAACCAC
* * *
12315965 AGGGAGGTAAAATTCACCATCTTTGACCTGCTCCACTACTGCTT
1 AGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGCTT
* * * * ** * **
12316009 AGGGAGGTAAGATCTGA-AATCTTCAATCTATTCCACTGCTGCCC
1 AGGGAGGTAAAATC-CACCATCTTCGATCTGCTCCACTACTGCTT
* * * *** * **
12316053 AGGGAGATAGAAT-TACTGGCTTC-AT-TGTACTCCACTGCAACTT
1 AGGGAGGTAAAATCCACCATCTTCGATCTG--CTCCACTACTGCTT
*
12316096 CAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTT
1 -AGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGCTT
12316141 AGGGAGG
1 AGGGAGG
12316148 CAAGATCTAT
Statistics
Matches: 96, Mismatches: 35, Indels: 16
0.65 0.24 0.11
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 13 0.14
44 58 0.60
45 17 0.18
46 2 0.02
47 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (44 bp):
AGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTGCTT
Found at i:12317548 original size:21 final size:20
Alignment explanation
Indices: 12317516--12317556 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
12317506 TTAGCCTTTC
12317516 CATTTTACCTTTTCATTTTT
1 CATTTTACCTTTTCATTTTT
*
12317536 CATTTTCATCTTTTCATTTTT
1 CATTTT-ACCTTTTCATTTTT
12317557 TCACATCACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.15, C:0.20, G:0.00, T:0.66
Consensus pattern (20 bp):
CATTTTACCTTTTCATTTTT
Found at i:12317550 original size:14 final size:13
Alignment explanation
Indices: 12317525--12317555 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
12317515 CCATTTTACC
12317525 TTTTCATTTTTCA
1 TTTTCATTTTTCA
12317538 TTTTCATCTTTTCA
1 TTTTCAT-TTTTCA
12317552 TTTT
1 TTTT
12317556 TTCACATCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTCATTTTTCA
Done.