Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 109 of 144
Found at i:33573640 original size:2 final size:2
Alignment explanation
Indices: 33573633--33573657 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
33573623 CTATTGCACT
33573633 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
33573658 ATATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:33576902 original size:20 final size:18
Alignment explanation
Indices: 33576846--33576903 Score: 55
Period size: 20 Copynumber: 3.1 Consensus size: 18
33576836 TATCAATTTT
*
33576846 AAATAAATAAATTTTAAA
1 AAATTAATAAATTTTAAA
*
33576864 AATTTAAGT-AATATTTAAA
1 AAATTAA-TAAAT-TTTAAA
33576883 AGAATTAGATAAATTTTAAA
1 A-AATTA-ATAAATTTTAAA
33576903 A
1 A
33576904 TTTTTATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
18 8 0.25
19 8 0.25
20 12 0.38
21 4 0.12
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (18 bp):
AAATTAATAAATTTTAAA
Found at i:33576959 original size:20 final size:20
Alignment explanation
Indices: 33576872--33576959 Score: 54
Period size: 20 Copynumber: 4.5 Consensus size: 20
33576862 AAAATTTAAG
*
33576872 TAATATTTAAAAGAATTAGA
1 TAATTTTTAAAAGAATTAGA
* *** *
33576892 TAAATTTTAAAATTTTTATA
1 TAATTTTTAAAAGAATTAGA
* * **
33576912 TAATTTTT-TATGTAA-TATC
1 TAATTTTTAAAAG-AATTAGA
*
33576931 TAATATTTAAAAGAATTAGA
1 TAATTTTTAAAAGAATTAGA
33576951 TAATTTTTA
1 TAATTTTTA
33576960 TAAATTTAAT
Statistics
Matches: 46, Mismatches: 19, Indels: 6
0.65 0.27 0.08
Matches are distributed among these distances:
19 13 0.28
20 33 0.72
ACGTcount: A:0.45, C:0.01, G:0.06, T:0.48
Consensus pattern (20 bp):
TAATTTTTAAAAGAATTAGA
Found at i:33581888 original size:33 final size:33
Alignment explanation
Indices: 33581849--33581918 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
33581839 ACATTAGGGA
33581849 GAGATAAATAATAACTTGTAATGAGTTAGGAGG
1 GAGATAAATAATAACTTGTAATGAGTTAGGAGG
33581882 GAGATAAATAATAACTTGTAATGAGTTAGGAGG
1 GAGATAAATAATAACTTGTAATGAGTTAGGAGG
33581915 GAGA
1 GAGA
33581919 GTAATTTGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.43, C:0.03, G:0.29, T:0.26
Consensus pattern (33 bp):
GAGATAAATAATAACTTGTAATGAGTTAGGAGG
Found at i:33583630 original size:17 final size:17
Alignment explanation
Indices: 33583587--33583634 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 17
33583577 TGAATGATCA
* *
33583587 TTTTGAGTTTAAGTCAT
1 TTTTGAGTTTAAATTAT
*
33583604 TTTTTA-TTTAAATTAT
1 TTTTGAGTTTAAATTAT
33583620 TTTTGAGTTTAAATT
1 TTTTGAGTTTAAATT
33583635 TGATAACTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.60
Consensus pattern (17 bp):
TTTTGAGTTTAAATTAT
Found at i:33584467 original size:20 final size:20
Alignment explanation
Indices: 33584433--33584474 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
33584423 AACTATTTAA
** *
33584433 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
33584453 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
33584473 AT
1 AT
33584475 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:33592539 original size:610 final size:610
Alignment explanation
Indices: 33591411--33592614 Score: 2131
Period size: 610 Copynumber: 2.0 Consensus size: 610
33591401 TTTAACCACA
*
33591411 AATTTAGGTAAGTAACCCAAAGCATAACATAATTCAATTTGGCTAAAGCCTATCACATAACCATT
1 AATTTAGGTAAGTAACCCAAAGCATAACATAATTCAATTTGGCCAAAGCCTATCACATAACCATT
33591476 AACCAAGTTAGCCATGTATTCATATAAAACTGAGAATCATGTATAGATTCAACAATTATTAAATT
66 AACCAAGTTAGCCATGTATTCATATAAAACTGAGAATCATGTATAGATTCAACAATTATTAAATT
*
33591541 CCATGTACATATACCATCTATACCGTATATCTATATATCATATATAAACCGTTTTCATGTAAATA
131 CCATGTACATATACCATCTATACCGTATATCTATATATCATATATAAACCATTTTCATGTAAATA
*
33591606 CCTATACTAGTTCATATTGAACTTGTGTAATCTCGTAATAACACTATGCTCGTTGAACCACTTAG
196 CCTATACTAGTTCATATTGAACTTGTGTAATCTCGTAATAACACTATGCCCGTTGAACCACTTAG
* * *
33591671 AATATCGTTAGATACGCGAGTAGTACACGCGAGATGTACTAAACTATAAATTTGTCAATTCTTGT
261 AATACCATTAGATACACGAGTAGTACACGCGAGATGTACTAAACTATAAATTTGTCAATTCTTGT
* *
33591736 ACATGTATGCTCATACGAGCGATAAACGGTAGACTCTTCCGGGATGTGAATCAGTAAGCTCTCAC
326 ACATGTATGCTCATACGAGCGATAAACGGTAGACTCCTCCGAGATGTGAATCAGTAAGCTCTCAC
* *
33591801 GAGCTGAAACCAGTAAGCTCATACGAGCTGTGGTGTGTTCACAACACATGCAGGACCACAACCAA
391 GAGCTGAAACCAGTAAGCTCATACGAGCTGTGGTGTGTCCACAACACATACAGGACCACAACCAA
* *
33591866 ATCGGTAACCCTAATGACATGTCATTTGTATCCTACGAATTCTTAAGGTTCAAACGGGACTCTGT
456 ATCGATAACCCTAATGACATGTCATTTGTATCCTACGAATTATTAAGGTTCAAACGGGACTCTGT
33591931 ATTCTTCATACTACCTCGATTATGCGTTCGATAATTATACATTGTGATTACACAATCCAAATACA
521 ATTCTTCATACTACCTCGATTATGCGTTCGATAATTATACATTGTGATTACACAATCCAAATACA
33591996 TATATTTCAGAGCATAACATAATTC
586 TATATTTCAGAGCATAACATAATTC
*
33592021 AATTTAGGTAAGTAACTCAAAGCATAACATAATTCAATTTGGCCAAAGCCTATCACATAACCATT
1 AATTTAGGTAAGTAACCCAAAGCATAACATAATTCAATTTGGCCAAAGCCTATCACATAACCATT
*
33592086 AACCAAGTTAGCCATGTATTCATATAAAACTGAGAATCATGTAT-GAATTTAACAATTATTAAAT
66 AACCAAGTTAGCCATGTATTCATATAAAACTGAGAATCATGTATAG-ATTCAACAATTATTAAAT
* *
33592150 TCCATGTACATATACCATCTCTACCGTATATCTGTATATCATATATAAACCATTTTCATGTAAAT
130 TCCATGTACATATACCATCTATACCGTATATCTATATATCATATATAAACCATTTTCATGTAAAT
* *
33592215 ACCTGTACTAGTTCGTATTGAACTTGTGTAATCTCGTAATAACACTATGCCCGTTGAACCACTTA
195 ACCTATACTAGTTCATATTGAACTTGTGTAATCTCGTAATAACACTATGCCCGTTGAACCACTTA
* *
33592280 GAATACCATTAGATACACGGGTAGTACACGCGAGATGTACTAAACTGTAAATTTGTCAATTCTTG
260 GAATACCATTAGATACACGAGTAGTACACGCGAGATGTACTAAACTATAAATTTGTCAATTCTTG
* *
33592345 TACATGTATGCTCATACGAGCGATAAACGGTAGGCTCCTCCGAGCTGTGAATCAGTAAGCTCTCA
325 TACATGTATGCTCATACGAGCGATAAACGGTAGACTCCTCCGAGATGTGAATCAGTAAGCTCTCA
* * *
33592410 CGAGCTGAAACCAGTAAGCTCATACGATCTGTGGTGTGTCCGCAACACATACATGACCACAACCA
390 CGAGCTGAAACCAGTAAGCTCATACGAGCTGTGGTGTGTCCACAACACATACAGGACCACAACCA
*
33592475 AATCGATAACCCTAATGACATGTCATTTGTATCCTACGAATTATTAAGGTTCAAATGGGACTCTG
455 AATCGATAACCCTAATGACATGTCATTTGTATCCTACGAATTATTAAGGTTCAAACGGGACTCTG
* * *
33592540 TATTCTTCATACTCCCTCGATTATGCGTTCGGTAATTATGCATTGTGATTACACAATCCAAATAC
520 TATTCTTCATACTACCTCGATTATGCGTTCGATAATTATACATTGTGATTACACAATCCAAATAC
33592605 ATATATTTCA
585 ATATATTTCA
33592615 ATTAAAGTAT
Statistics
Matches: 564, Mismatches: 29, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
609 1 0.00
610 563 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.31
Consensus pattern (610 bp):
AATTTAGGTAAGTAACCCAAAGCATAACATAATTCAATTTGGCCAAAGCCTATCACATAACCATT
AACCAAGTTAGCCATGTATTCATATAAAACTGAGAATCATGTATAGATTCAACAATTATTAAATT
CCATGTACATATACCATCTATACCGTATATCTATATATCATATATAAACCATTTTCATGTAAATA
CCTATACTAGTTCATATTGAACTTGTGTAATCTCGTAATAACACTATGCCCGTTGAACCACTTAG
AATACCATTAGATACACGAGTAGTACACGCGAGATGTACTAAACTATAAATTTGTCAATTCTTGT
ACATGTATGCTCATACGAGCGATAAACGGTAGACTCCTCCGAGATGTGAATCAGTAAGCTCTCAC
GAGCTGAAACCAGTAAGCTCATACGAGCTGTGGTGTGTCCACAACACATACAGGACCACAACCAA
ATCGATAACCCTAATGACATGTCATTTGTATCCTACGAATTATTAAGGTTCAAACGGGACTCTGT
ATTCTTCATACTACCTCGATTATGCGTTCGATAATTATACATTGTGATTACACAATCCAAATACA
TATATTTCAGAGCATAACATAATTC
Found at i:33595264 original size:30 final size:30
Alignment explanation
Indices: 33595218--33595341 Score: 176
Period size: 30 Copynumber: 4.1 Consensus size: 30
33595208 TTTTATTATG
*
33595218 CCAATATCTCGATACCCATATATTTGACTTT
1 CCAATAT-TTGATACCCATATATTTGACTTT
33595249 CCAATATTTGATACCCATATATTTGACTTT
1 CCAATATTTGATACCCATATATTTGACTTT
* *
33595279 CCAATATTTGATACCCATATCTTTTACTTT
1 CCAATATTTGATACCCATATATTTGACTTT
* * * *
33595309 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATATTTGACTTT
33595339 CCA
1 CCA
33595342 TAAATATGGA
Statistics
Matches: 85, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
30 78 0.92
31 7 0.08
ACGTcount: A:0.27, C:0.23, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATATTTGACTTT
Found at i:33595335 original size:15 final size:15
Alignment explanation
Indices: 33595228--33595335 Score: 78
Period size: 15 Copynumber: 7.2 Consensus size: 15
33595218 CCAATATCTC
33595228 GATACCCATATATTT
1 GATACCCATATATTT
**
33595243 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
33595258 GATACCCATATATTT
1 GATACCCATATATTT
**
33595273 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
*
33595288 GATACCCATATCTTT
1 GATACCCATATATTT
* ** *
33595303 TACTTTCTAT-TATTT
1 GA-TACCCATATATTT
*
33595318 GATACCCATATCTTT
1 GATACCCATATATTT
33595333 GAT
1 GAT
33595336 TTTCCATAAA
Statistics
Matches: 68, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
14 12 0.18
15 44 0.65
16 12 0.18
ACGTcount: A:0.28, C:0.20, G:0.06, T:0.45
Consensus pattern (15 bp):
GATACCCATATATTT
Found at i:33599956 original size:30 final size:30
Alignment explanation
Indices: 33599910--33600003 Score: 134
Period size: 30 Copynumber: 3.1 Consensus size: 30
33599900 TTTTATTATG
*
33599910 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
33599941 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * * *
33599971 CTATTATTTGATACCCATATATTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
33600001 CCA
1 CCA
33600004 TAAATATGGA
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 50 0.88
31 7 0.12
ACGTcount: A:0.27, C:0.23, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:33599965 original size:15 final size:15
Alignment explanation
Indices: 33599920--33599997 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
33599910 CCAATATCTC
*
33599920 GATACCCATATCTTT
1 GATACCCATATATTT
**
33599935 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
*
33599950 GATACCCATATCTTT
1 GATACCCATATATTT
** *
33599965 GACTTTCTAT-TATTT
1 GA-TACCCATATATTT
33599980 GATACCCATATATTT
1 GATACCCATATATTT
33599995 GAT
1 GAT
33599998 TTTCCATAAA
Statistics
Matches: 46, Mismatches: 13, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
14 8 0.17
15 30 0.65
16 8 0.17
ACGTcount: A:0.27, C:0.21, G:0.08, T:0.45
Consensus pattern (15 bp):
GATACCCATATATTT
Found at i:33602350 original size:59 final size:61
Alignment explanation
Indices: 33602279--33602395 Score: 175
Period size: 62 Copynumber: 1.9 Consensus size: 61
33602269 ATCACTTTAA
* * *
33602279 TATTAAATTAATATAATATTTA-T-CAAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATATAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
*
33602338 TATTAAAATAATATAATGTTTATCTACAAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAAATAATATAATATTTA-CTACAAGATAAACATTAAATTAAATTTAATATTAA
33602396 GATAATAACT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 20 0.39
61 1 0.02
62 30 0.59
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.42
Consensus pattern (61 bp):
TATTAAAATAATATAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:33602421 original size:20 final size:19
Alignment explanation
Indices: 33602374--33602423 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
33602364 CAAGATAAAC
33602374 ATTAAATT-A-AATTTAAT
1 ATTAAATTAATAATTTAAT
33602391 ATTAAGA-TAATAACTTTAAT
1 ATTAA-ATTAATAA-TTTAAT
33602411 ATTAAATTAATAA
1 ATTAAATTAATAA
33602424 AATAATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 6 0.21
18 2 0.07
19 3 0.11
20 17 0.61
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (19 bp):
ATTAAATTAATAATTTAAT
Found at i:33604932 original size:23 final size:24
Alignment explanation
Indices: 33604906--33604951 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
33604896 CTTGTGAATT
33604906 ATATTATT-TATTTAAT-ATTAAAA
1 ATATT-TTATATTTAATAATTAAAA
*
33604929 ATATTTTATATTTTATAATTAAA
1 ATATTTTATATTTAATAATTAAA
33604952 TTTATATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 2 0.10
23 12 0.60
24 6 0.30
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
ATATTTTATATTTAATAATTAAAA
Found at i:33607804 original size:23 final size:24
Alignment explanation
Indices: 33607746--33607804 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 24
33607736 GCAAAGTATC
* * *
33607746 AAATAAATAAAAATATGAAAACAT
1 AAATAAACAAAAATATAAAAAAAT
*
33607770 AAATCAACAAAAA-ATAAAAAAAT
1 AAATAAACAAAAATATAAAAAAAT
*
33607793 AAATAAAGAAAA
1 AAATAAACAAAA
33607805 GAGAGCGCGT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
23 18 0.62
24 11 0.38
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.15
Consensus pattern (24 bp):
AAATAAACAAAAATATAAAAAAAT
Found at i:33608173 original size:23 final size:22
Alignment explanation
Indices: 33608126--33608171 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
33608116 AAACATTAGT
33608126 TAAAAAATAAATATGTACATGTA
1 TAAAAAATAAATA-GTACATGTA
33608149 TAAAAAATAAATA-TACATGTA
1 TAAAAAATAAATAGTACATGTA
33608170 TA
1 TA
33608172 TATATAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 10 0.43
23 13 0.57
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (22 bp):
TAAAAAATAAATAGTACATGTA
Found at i:33615377 original size:25 final size:25
Alignment explanation
Indices: 33615347--33615405 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
33615337 TTTTATCCCT
* *
33615347 ATTTTACCCCAATGAAATTTTGACG
1 ATTTTACCCCAATAAAATTTTAACG
* *
33615372 ATTTTATCCTCGATAAAATTTTAACG
1 ATTTTA-CCCCAATAAAATTTTAACG
33615398 ATTTTACC
1 ATTTTACC
33615406 ATTGGTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 8 0.28
26 21 0.72
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.41
Consensus pattern (25 bp):
ATTTTACCCCAATAAAATTTTAACG
Found at i:33615392 original size:26 final size:26
Alignment explanation
Indices: 33615361--33615421 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
33615351 TACCCCAATG
33615361 AAATTTTGACGATTTTATCC-TCGATA
1 AAATTTTGACGATTTTA-CCATCGATA
* * *
33615387 AAATTTTAACGATTTTACCATTGGTA
1 AAATTTTGACGATTTTACCATCGATA
33615413 AAATTTTGA
1 AAATTTTGA
33615422 GAAAATATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 2 0.07
26 28 0.93
ACGTcount: A:0.34, C:0.11, G:0.11, T:0.43
Consensus pattern (26 bp):
AAATTTTGACGATTTTACCATCGATA
Found at i:33618948 original size:33 final size:31
Alignment explanation
Indices: 33618904--33618970 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
33618894 GGAAGCACCC
33618904 AAAAATCGAATATAGTTAAGTCACCAAAAAAGA
1 AAAAATCG-A-ATAGTTAAGTCACCAAAAAAGA
* * *
33618937 AAAAATTGAATAGTTGAGTGACCAAAAAAGA
1 AAAAATCGAATAGTTAAGTCACCAAAAAAGA
33618968 AAA
1 AAA
33618971 TTACTAATAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 23 0.74
32 1 0.03
33 7 0.23
ACGTcount: A:0.58, C:0.09, G:0.15, T:0.18
Consensus pattern (31 bp):
AAAAATCGAATAGTTAAGTCACCAAAAAAGA
Found at i:33618980 original size:31 final size:31
Alignment explanation
Indices: 33618915--33618988 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
33618905 AAAATCGAAT
* * *
33618915 ATAGTTAAGTCACCAAAAAAGAAAAAATTGA
1 ATAGTTGAGTGACCAAAAAAGAAAAAACTGA
*
33618946 ATAGTTGAGTGACCAAAAAAGAAAATTACT-A
1 ATAGTTGAGTGACCAAAAAAGAAAA-AACTGA
*
33618977 ATAGTTGGGTGA
1 ATAGTTGAGTGA
33618989 TTACTAATGT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 35 0.95
32 2 0.05
ACGTcount: A:0.50, C:0.08, G:0.19, T:0.23
Consensus pattern (31 bp):
ATAGTTGAGTGACCAAAAAAGAAAAAACTGA
Found at i:33633142 original size:14 final size:14
Alignment explanation
Indices: 33633123--33633156 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
33633113 TCCCTAAAAG
33633123 AAATTTCAGCTTCA
1 AAATTTCAGCTTCA
*
33633137 AAATTTCGGCTTCA
1 AAATTTCAGCTTCA
33633151 AAATTT
1 AAATTT
33633157 TACCTGATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.38
Consensus pattern (14 bp):
AAATTTCAGCTTCA
Found at i:33634115 original size:22 final size:21
Alignment explanation
Indices: 33634054--33634115 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 21
33634044 TGTTTTGAGG
*
33634054 TAAAAA-AATATTTAGAATAAT
1 TAAAAATATTATTTA-AATAAT
33634075 TAAAAATATTATTTAAAT--T
1 TAAAAATATTATTTAAATAAT
*
33634094 CT-ATAATATTATTTAAATAAT
1 -TAAAAATATTATTTAAATAAT
33634115 T
1 T
33634116 TGAAAAAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
19 16 0.46
20 2 0.06
21 10 0.29
22 7 0.20
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
TAAAAATATTATTTAAATAAT
Found at i:33634126 original size:22 final size:21
Alignment explanation
Indices: 33634054--33634127 Score: 64
Period size: 22 Copynumber: 3.5 Consensus size: 21
33634044 TGTTTTGAGG
*
33634054 TAAAAAAATATTTAGAATAA-T
1 TAAAAAATTATTTA-AATAATT
*
33634075 TAAAAATATTATTTAAAT--TC
1 TAAAAA-ATTATTTAAATAATT
* *
33634095 TATAATATTATTTAAATAATT
1 TAAAAAATTATTTAAATAATT
33634116 TGAAAAAATTAT
1 T-AAAAAATTAT
33634128 CCAAATTTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
19 11 0.27
20 4 0.10
21 11 0.27
22 15 0.37
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (21 bp):
TAAAAAATTATTTAAATAATT
Found at i:33638300 original size:9 final size:9
Alignment explanation
Indices: 33638282--33638316 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
33638272 TCCACTCTTC
33638282 TAAA-TTTT
1 TAAATTTTT
33638290 TAAATTTTT
1 TAAATTTTT
33638299 TAAATTTTT
1 TAAATTTTT
33638308 TAAATTTTT
1 TAAATTTTT
33638317 GTTGCAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.15
9 22 0.85
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (9 bp):
TAAATTTTT
Found at i:33641673 original size:29 final size:28
Alignment explanation
Indices: 33641640--33641726 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
33641630 TCATAAGAAC
33641640 ATTTTATGAAATTATATTTAATAATAATT
1 ATTTTAT-AAATTATATTTAATAATAATT
* * *
33641669 A-TTT-TAAATTGTATTAAATCAT-A-T
1 ATTTTATAAATTATATTTAATAATAATT
* *
33641693 ATTTTAATTAAAATATATTTAATATTAATT
1 ATTTT-A-TAAATTATATTTAATAATAATT
33641723 ATTT
1 ATTT
33641727 CAAATTTTCA
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
24 2 0.05
25 4 0.09
26 14 0.32
27 1 0.02
28 16 0.36
29 2 0.05
30 5 0.11
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (28 bp):
ATTTTATAAATTATATTTAATAATAATT
Found at i:33641822 original size:18 final size:17
Alignment explanation
Indices: 33641794--33641828 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
33641784 ATTATTAAGA
*
33641794 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
33641811 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
33641829 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:33641963 original size:156 final size:157
Alignment explanation
Indices: 33641784--33642097 Score: 576
Period size: 156 Copynumber: 2.0 Consensus size: 157
33641774 AAGAATATTG
*
33641784 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAA
1 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAGAATTATGTTTAA
*
33641849 ATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAATA
66 ATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATA
*
33641914 ATCATTTACCAAAACAATTTTCTGCTA
131 ATCATTTACCAAAACAATTTTATGCTA
* *
33641941 ATTA-TAAGAATTTTATTTAATTATATATTTTAATTAAAATATATTTAATTAGAATTATGTTTAA
1 ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAGAATTATGTTTAA
33642005 ATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATA
66 ATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATA
33642070 ATCATTTACCAAAACAATTTTATGCTA
131 ATCATTTACCAAAACAATTTTATGCTA
33642097 A
1 A
33642098 GGGTATTCTA
Statistics
Matches: 152, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
156 148 0.97
157 4 0.03
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.44
Consensus pattern (157 bp):
ATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAAGAATTATGTTTAA
ATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAATA
ATCATTTACCAAAACAATTTTATGCTA
Found at i:33641984 original size:16 final size:16
Alignment explanation
Indices: 33641963--33642004 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
33641953 TTATTTAATT
33641963 ATATATTTTAATTAAA
1 ATATATTTTAATTAAA
*
33641979 ATATA-TTTAATTAGA
1 ATATATTTTAATTAAA
33641994 AT-TATGTTTAA
1 ATATAT-TTTAA
33642005 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (16 bp):
ATATATTTTAATTAAA
Found at i:33642214 original size:44 final size:45
Alignment explanation
Indices: 33642149--33642239 Score: 112
Period size: 45 Copynumber: 2.0 Consensus size: 45
33642139 ACCTCTATTC
* * *
33642149 CATTCAACCAAACACAAGATT-ACTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAACTATTACACCTCTAATCCAATA
*** *
33642193 CATTCAACCAAACAGTGGATTAACTATTATACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAACTATTACACCTCTAATCCAATA
33642238 CA
1 CA
33642240 CCTCTAATCC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 18 0.46
45 21 0.54
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.29
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAACTATTACACCTCTAATCCAATA
Found at i:33642244 original size:16 final size:16
Alignment explanation
Indices: 33642223--33642255 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
33642213 TAACTATTAT
33642223 ACCTCTAATCCAATAC
1 ACCTCTAATCCAATAC
33642239 ACCTCTAATCCAATAC
1 ACCTCTAATCCAATAC
33642255 A
1 A
33642256 GCGAACCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.24
Consensus pattern (16 bp):
ACCTCTAATCCAATAC
Found at i:33646072 original size:17 final size:18
Alignment explanation
Indices: 33646040--33646074 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
33646030 GGAATTTGGG
*
33646040 GAGTTTTGTCTTTTTATT
1 GAGTTTTCTCTTTTTATT
33646058 GAGTTTTCT-TTTTTATT
1 GAGTTTTCTCTTTTTATT
33646075 ATCCTATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.11, C:0.06, G:0.14, T:0.69
Consensus pattern (18 bp):
GAGTTTTCTCTTTTTATT
Found at i:33648062 original size:16 final size:16
Alignment explanation
Indices: 33648038--33648077 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
33648028 TGTCGCGTAA
*
33648038 CTTCTTTGGTTTGGTG
1 CTTCCTTGGTTTGGTG
33648054 CTTCCTTGGTTTGGTG
1 CTTCCTTGGTTTGGTG
33648070 CTTCCTTG
1 CTTCCTTG
33648078 ACCGGTTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.00, C:0.20, G:0.28, T:0.53
Consensus pattern (16 bp):
CTTCCTTGGTTTGGTG
Found at i:33650299 original size:74 final size:73
Alignment explanation
Indices: 33650148--33650406 Score: 201
Period size: 74 Copynumber: 3.5 Consensus size: 73
33650138 ATTTTTATGT
* * * * * * * * *
33650148 TAAAATGGTAAGTAATTGTGACAAAATTAAATTGTTACAAGTATTTCATTTCCTAGTGAC-CAAG
1 TAAAAT-GTAAGCAATTGTGACAAAATTAAATAGTCACAATTATTTTATTT-TTTGTGACAAAAC
*
33650212 TTTCCGACA-C
64 TTT-TGACATC
* * *
33650222 TAAAATGATAAGGAACTGTGACAAAATTAAATAGTCACATTTA-TTTAGTTTTTTGGTGACAAAA
1 TAAAATG-TAAGCAATTGTGACAAAATTAAATAGTCACAATTATTTTA-TTTTTT-GTGACAAAA
*
33650286 TTTTTGAC-TC
63 CTTTTGACATC
** * *
33650296 TAAAATGGCAGACAATTGTGATAAAATTTAAAT-GATCACAATTATTTTATTTTTTGTGATAAAA
1 TAAAATGTAAG-CAATTGTGACAAAA-TTAAATAG-TCACAATTATTTTATTTTTTGTGACAAAA
33650360 CTTTTGACAT-
63 CTTTTGACATC
* *
33650370 T--ATTGTAAGTAATTGTGACAAAATTAAATAGTCACAA
1 TAAAATGTAAGCAATTGTGACAAAATTAAATAGTCACAA
33650407 GTAACCTTTT
Statistics
Matches: 149, Mismatches: 25, Indels: 26
0.75 0.12 0.13
Matches are distributed among these distances:
70 12 0.08
71 13 0.09
72 5 0.03
73 7 0.05
74 82 0.55
75 26 0.17
76 4 0.03
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (73 bp):
TAAAATGTAAGCAATTGTGACAAAATTAAATAGTCACAATTATTTTATTTTTTGTGACAAAACTT
TTGACATC
Found at i:33650673 original size:12 final size:13
Alignment explanation
Indices: 33650642--33650666 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33650632 AAATATACGT
33650642 TATAAAAAATGAG
1 TATAAAAAATGAG
33650655 TATAAAAAATGA
1 TATAAAAAATGA
33650667 TGTAAAAGAA
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:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (13 bp):
TATAAAAAATGAG
Found at i:33657497 original size:20 final size:20
Alignment explanation
Indices: 33657448--33657497 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
33657438 TAAACCACTT
*
33657448 CATTTACATACTTACCATTC
1 CATTTACTTACTTACCATTC
*
33657468 CATTTACTTACTTTCCATTC
1 CATTTACTTACTTACCATTC
* *
33657488 TATTTTCTTA
1 CATTTACTTA
33657498 GCATAAGCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.24, C:0.26, G:0.00, T:0.50
Consensus pattern (20 bp):
CATTTACTTACTTACCATTC
Found at i:33660622 original size:23 final size:22
Alignment explanation
Indices: 33660571--33660622 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
33660561 CCTCGTCTTT
*
33660571 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
33660593 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
33660616 TTCTTTT
1 TTCTTTT
33660623 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:33665740 original size:18 final size:18
Alignment explanation
Indices: 33665706--33665740 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33665696 TTTGGGTTTC
*
33665706 TTTTTCTTTTGTCTTTTG
1 TTTTTCTTTGGTCTTTTG
*
33665724 TTTTTCTTTGGTGTTTT
1 TTTTTCTTTGGTCTTTT
33665741 TTTGATTGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.09, G:0.14, T:0.77
Consensus pattern (18 bp):
TTTTTCTTTGGTCTTTTG
Found at i:33685211 original size:48 final size:48
Alignment explanation
Indices: 33685150--33685245 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
33685140 TAAGTTGTCT
* *
33685150 TTCTTGCAATGTAAACATTCTTACAGTGCTACTTATCATCAGTTTGAA
1 TTCTAGCAATGTAAACATTCTTACAGTGCTACTTATCATCAATTTGAA
** *
33685198 TTCTAGCAATGTAAATGTTCTTACAGTTCTACTTATCATCAATTTGAA
1 TTCTAGCAATGTAAACATTCTTACAGTGCTACTTATCATCAATTTGAA
33685246 CTTAGACAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.41
Consensus pattern (48 bp):
TTCTAGCAATGTAAACATTCTTACAGTGCTACTTATCATCAATTTGAA
Found at i:33688719 original size:36 final size:36
Alignment explanation
Indices: 33688672--33688743 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
33688662 TATGAGATTA
33688672 CTAATATCTTGATTGATTTATACTTTAACAGAACAT
1 CTAATATCTTGATTGATTTATACTTTAACAGAACAT
*
33688708 CTAATATCTTGATTGATTTATACTTTAAGAGAACAT
1 CTAATATCTTGATTGATTTATACTTTAACAGAACAT
33688744 TGATACAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (36 bp):
CTAATATCTTGATTGATTTATACTTTAACAGAACAT
Found at i:33690611 original size:20 final size:20
Alignment explanation
Indices: 33690588--33690625 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
33690578 TTATTTTTTT
33690588 AATT-TATTGATGCTTTTTAG
1 AATTATATTGAT-CTTTTTAG
*
33690608 AATTATATTTATCTTTTT
1 AATTATATTGATCTTTTT
33690626 TTTCTTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.61
Consensus pattern (20 bp):
AATTATATTGATCTTTTTAG
Found at i:33690821 original size:25 final size:22
Alignment explanation
Indices: 33690790--33690833 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
33690780 ATAGTTAACA
*
33690790 TCATCATCAATTGTCATTATTT
1 TCATCATCATTTGTCATTATTT
33690812 TCATCATCATTTGTCATTATTT
1 TCATCATCATTTGTCATTATTT
33690834 ACTCGCTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.18, G:0.05, T:0.52
Consensus pattern (22 bp):
TCATCATCATTTGTCATTATTT
Found at i:33695124 original size:18 final size:18
Alignment explanation
Indices: 33695103--33695145 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
33695093 TATATTGCCA
*
33695103 TTTTTGTTTTTGTTA-ATT
1 TTTTTGTTTTT-TAACATT
*
33695121 TTTTTATTTTTTAACATT
1 TTTTTGTTTTTTAACATT
33695139 TTTTTGT
1 TTTTTGT
33695146 CTCATTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.14, C:0.02, G:0.07, T:0.77
Consensus pattern (18 bp):
TTTTTGTTTTTTAACATT
Found at i:33696812 original size:19 final size:19
Alignment explanation
Indices: 33696788--33696827 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
33696778 CTTAGTGAGT
33696788 TACATAAAGAAAACATAAC
1 TACATAAAGAAAACATAAC
33696807 TACATAAAGAAAACATAAC
1 TACATAAAGAAAACATAAC
33696826 TA
1 TA
33696828 ACTTACAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.62, C:0.15, G:0.05, T:0.17
Consensus pattern (19 bp):
TACATAAAGAAAACATAAC
Found at i:33699206 original size:43 final size:43
Alignment explanation
Indices: 33699142--33699256 Score: 142
Period size: 43 Copynumber: 2.7 Consensus size: 43
33699132 ATGTTCCAAT
33699142 ATCGATTTGAGATTTCATGTAAGACCATAGATGGGCTATTGGC
1 ATCGATTTGAGATTTCATGTAAGACCATAGATGGGCTATTGGC
* * **
33699185 ATCGATTTGAGATTT-AGTGTAAGACCATAGCTGGGGTATTCAC
1 ATCGATTTGAGATTTCA-TGTAAGACCATAGATGGGCTATTGGC
* **
33699228 ATCAATAGGAGATTTTCATGTAAGACCAT
1 ATCGATTTGAGA-TTTCATGTAAGACCAT
33699257 GTCTGGGACA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
42 1 0.02
43 46 0.74
44 14 0.23
45 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.32
Consensus pattern (43 bp):
ATCGATTTGAGATTTCATGTAAGACCATAGATGGGCTATTGGC
Found at i:33702213 original size:22 final size:22
Alignment explanation
Indices: 33702188--33702229 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
33702178 CAAAATTTGG
33702188 AATACATAA-ATAATAAAATAAT
1 AATACATAATA-AATAAAATAAT
*
33702210 AATACCTAATAAATAAAATA
1 AATACATAATAAATAAAATA
33702230 TTGGACCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.26
Consensus pattern (22 bp):
AATACATAATAAATAAAATAAT
Found at i:33716049 original size:20 final size:19
Alignment explanation
Indices: 33716026--33716077 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 19
33716016 ATTGTTATTC
33716026 CTAGAAAATAAAATTTATA
1 CTAGAAAATAAAATTTATA
*
33716045 TCTAGAAAATAGAATTTATA
1 -CTAGAAAATAAAATTTATA
33716065 CTTAGAAAATAAA
1 C-TAGAAAATAAA
33716078 TTCTCTCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.31
Consensus pattern (19 bp):
CTAGAAAATAAAATTTATA
Found at i:33716470 original size:21 final size:22
Alignment explanation
Indices: 33716435--33716486 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
33716425 AATATTATTG
*
33716435 ATTAATTAATTTAATTAGATAA
1 ATTAATTAATTTAATTAAATAA
*
33716457 ATTAATT-TTTTAATTAAATAA
1 ATTAATTAATTTAATTAAATAA
* *
33716478 TTTTATTAA
1 ATTAATTAA
33716487 CCCAATTCTA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
ATTAATTAATTTAATTAAATAA
Found at i:33719756 original size:19 final size:19
Alignment explanation
Indices: 33719715--33719756 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
33719705 TATTTTTTAC
* *
33719715 ATTTTTATTATTTGCTGCT
1 ATTTTTATTATTTGATGCG
33719734 ATTTTT-TTATTTGATGTCG
1 ATTTTTATTATTTGATG-CG
33719753 ATTT
1 ATTT
33719757 CTGCTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.17, C:0.07, G:0.12, T:0.64
Consensus pattern (19 bp):
ATTTTTATTATTTGATGCG
Found at i:33730530 original size:72 final size:72
Alignment explanation
Indices: 33730413--33730556 Score: 263
Period size: 72 Copynumber: 2.0 Consensus size: 72
33730403 TATGAACAAT
*
33730413 AACAACTTTTACTAGTTAAGCCGTTTTACTCATTTTTGCTTAAAACAGCTTAGCAAAAGTTGTTT
1 AACAACTTTTACGAGTTAAGCCGTTTTACTCATTTTTGCTTAAAACAGCTTAGCAAAAGTTGTTT
33730478 AACATAA
66 AACATAA
33730485 AACAACTTTTACCGA-TTAAGCCGTTTTACTCATTTTTGCTTAAAACAGCTTAGCAAAAGTTGTT
1 AACAACTTTTA-CGAGTTAAGCCGTTTTACTCATTTTTGCTTAAAACAGCTTAGCAAAAGTTGTT
33730549 TAACATAA
65 TAACATAA
33730557 TTTCAACCTT
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
72 68 0.97
73 2 0.03
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (72 bp):
AACAACTTTTACGAGTTAAGCCGTTTTACTCATTTTTGCTTAAAACAGCTTAGCAAAAGTTGTTT
AACATAA
Found at i:33738490 original size:40 final size:40
Alignment explanation
Indices: 33738416--33738720 Score: 384
Period size: 40 Copynumber: 7.6 Consensus size: 40
33738406 AACCCAAGTA
* * * * *
33738416 CCTTCGGGATTTAG-CCAGATATAG-CTACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTC-AATAGCACAAATG
*
33738455 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
33738495 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* * * *
33738535 CCTTCGGGACTTAGCCCGGATATAG-AAACTTGCCCAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
*
33738575 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
33738615 CCTTCGGGACTTAGCCCGGATATAG-CAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TA---GCACAAATG
* * *
33738658 CCTTCGGGACTTCGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
33738698 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
33738721 CATTCGAATA
Statistics
Matches: 233, Mismatches: 24, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
39 15 0.06
40 180 0.77
41 2 0.01
43 34 0.15
44 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:33738548 original size:80 final size:80
Alignment explanation
Indices: 33738416--33738720 Score: 436
Period size: 80 Copynumber: 3.8 Consensus size: 80
33738406 AACCCAAGTA
* * * * *
33738416 CCTTCGGGATTTAG-CCAGATATAG-CTACTCGCACAAACGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
33738479 GTCAA-TAGCACAAATG
65 G-CAACTAGCACAAATG
*
33738495 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
* * * *
33738560 AAACTTGCCCAAACG
66 CAACTAGCACAAATG
33738575 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
33738640 CAACTACTCGCACAAATG
66 CAACTA---GCACAAATG
* *
33738658 CCTTCGGGACTTCGCCCGGATATAATCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
33738721 CATTCGAATA
Statistics
Matches: 204, Mismatches: 16, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
79 15 0.07
80 120 0.59
81 1 0.00
83 68 0.33
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
CAACTAGCACAAATG
Found at i:33743430 original size:27 final size:27
Alignment explanation
Indices: 33743400--33743453 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
33743390 TCATACAACC
*
33743400 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAATAATAATTTAACATTCAATT
**
33743427 CATGTAATAATAATTTGCCATTCAATT
1 CATGTAATAATAATTTAACATTCAATT
33743454 TCACATGACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.39, C:0.13, G:0.07, T:0.41
Consensus pattern (27 bp):
CATGTAATAATAATTTAACATTCAATT
Found at i:33755633 original size:10 final size:10
Alignment explanation
Indices: 33755618--33755646 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
33755608 TATTCTTATT
33755618 TTTTAATTTA
1 TTTTAATTTA
33755628 TTTTAATTTA
1 TTTTAATTTA
33755638 TTTTAATTT
1 TTTTAATTT
33755647 TTCTTTTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTTAATTTA
Found at i:33761188 original size:11 final size:11
Alignment explanation
Indices: 33761172--33761197 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
33761162 GTCAATACAC
33761172 TTTCATGACAT
1 TTTCATGACAT
33761183 TTTCATGACAT
1 TTTCATGACAT
33761194 TTTC
1 TTTC
33761198 TCCACCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.19, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCATGACAT
Found at i:33761370 original size:27 final size:27
Alignment explanation
Indices: 33761313--33761370 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
33761303 CAAAGATAAT
* * *
33761313 TTGATTAATGATTGATATTGTGCTTAT
1 TTGATTAATGATCGATATTATGCTTAA
*
33761340 TTGATTAATGATCGATATTATGTTTAA
1 TTGATTAATGATCGATATTATGCTTAA
33761367 TTGA
1 TTGA
33761371 CATTATGCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.50
Consensus pattern (27 bp):
TTGATTAATGATCGATATTATGCTTAA
Found at i:33767384 original size:60 final size:60
Alignment explanation
Indices: 33767304--33767425 Score: 208
Period size: 60 Copynumber: 2.0 Consensus size: 60
33767294 CCTGCACGTA
* *
33767304 GTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACAC
1 GTACTACACACGCGACCAATTATCCGGTACACGTAGTAGCCTGCAATTAGTACTACACAC
* *
33767364 GTACTACACACGTGGCCAATTATCCGGTACACGTAGTAGCCTGCAATTAGTACTACACAC
1 GTACTACACACGCGACCAATTATCCGGTACACGTAGTAGCCTGCAATTAGTACTACACAC
33767424 GT
1 GT
33767426 GACCTAACCA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.24
Consensus pattern (60 bp):
GTACTACACACGCGACCAATTATCCGGTACACGTAGTAGCCTGCAATTAGTACTACACAC
Found at i:33767515 original size:51 final size:51
Alignment explanation
Indices: 33767447--33767574 Score: 247
Period size: 51 Copynumber: 2.5 Consensus size: 51
33767437 CTGAAACACG
*
33767447 TAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTTTCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACAAGTGATCACAGTTTTCAGGTACGCA
33767498 TAGTAGCCTGCACTTAGTACTACACAAGTGATCACAGTTTTCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACAAGTGATCACAGTTTTCAGGTACGCA
33767549 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
33767575 TGCGACCTCA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
51 76 1.00
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (51 bp):
TAGTAGCCTGCACTTAGTACTACACAAGTGATCACAGTTTTCAGGTACGCA
Found at i:33768981 original size:15 final size:15
Alignment explanation
Indices: 33768929--33768995 Score: 68
Period size: 15 Copynumber: 4.5 Consensus size: 15
33768919 NNNNNNNNNN
*
33768929 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
*
33768943 AAGAAATCCA-AGATA
1 AAGAAACCCAGA-ATA
33768958 GAA-AAACCCAGAATA
1 -AAGAAACCCAGAATA
*
33768973 AAGAAACCCAGAGTA
1 AAGAAACCCAGAATA
33768988 AAGAAACC
1 AAGAAACC
33768996 TAAGATACGA
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
14 11 0.24
15 31 0.69
16 3 0.07
ACGTcount: A:0.60, C:0.18, G:0.15, T:0.07
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:33768995 original size:30 final size:30
Alignment explanation
Indices: 33768929--33768995 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
33768919 NNNNNNNNNN
* *
33768929 AAGAAAACCGAATAAAGAAATCCAAGATAG
1 AAGAAACCCGAATAAAGAAACCCAAGATAG
33768959 AA-AAACCCAGAATAAAGAAACCC-AGAGTA-
1 AAGAAACCC-GAATAAAGAAACCCAAGA-TAG
33768988 AAGAAACC
1 AAGAAACC
33768996 TAAGATACGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
29 10 0.31
30 22 0.69
ACGTcount: A:0.60, C:0.18, G:0.15, T:0.07
Consensus pattern (30 bp):
AAGAAACCCGAATAAAGAAACCCAAGATAG
Found at i:33775962 original size:40 final size:40
Alignment explanation
Indices: 33775910--33776141 Score: 324
Period size: 40 Copynumber: 5.8 Consensus size: 40
33775900 ATTACCACAA
* * * *
33775910 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
33775950 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
33775990 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
33776030 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * *
33776070 GCATAAATGCCTTCGGGACTTAGCCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT-ATCAACTC
* *
33776110 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
33776142 CATTCAAATG
Statistics
Matches: 179, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 174 0.97
41 4 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:33785224 original size:27 final size:27
Alignment explanation
Indices: 33785194--33785371 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
33785184 ATATTGAGTC
* * * *
33785194 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
33785221 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
33785248 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
33785276 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
33785303 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
33785330 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
33785357 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33785372 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:33785333 original size:82 final size:81
Alignment explanation
Indices: 33785215--33785370 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
33785205 TGCTATATAA
* *
33785215 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
33785280 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
33785297 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
33785361 CACTTAGTGC
65 CACTTAGTGC
33785371 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:33792084 original size:14 final size:13
Alignment explanation
Indices: 33792055--33792096 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
33792045 TTTAAAAAAT
33792055 AAAAATAATTAGA
1 AAAAATAATTAGA
*
33792068 AAAAATAATTTATA
1 AAAAATAA-TTAGA
*
33792082 AAAAATTATTAGA
1 AAAAATAATTAGA
33792095 AA
1 AA
33792097 TTAATTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (13 bp):
AAAAATAATTAGA
Found at i:33799920 original size:34 final size:34
Alignment explanation
Indices: 33799846--33799926 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 34
33799836 TTGCAAAGTG
* *
33799846 AGGGTTCGCATAACATATAGGCTCTCATAGACCT
1 AGGGTTCGCATAACATATAAGCTCACATAGACCT
* * *
33799880 AGGGTTCACATAACATGTAAGCTCACATAGACTT
1 AGGGTTCGCATAACATATAAGCTCACATAGACCT
**
33799914 TTGGTTCGCATAA
1 AGGGTTCGCATAA
33799927 TACATAGGTT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (34 bp):
AGGGTTCGCATAACATATAAGCTCACATAGACCT
Found at i:33800169 original size:28 final size:28
Alignment explanation
Indices: 33800111--33800169 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
33800101 TTATGACTTA
* * ***
33800111 CATGTATTGACTCTCAAGTATTAATTTG
1 CATGTATTAACTCACAAGTATTAACCCG
*
33800139 CATGTATTAACTCACAAGTGTTAACCCG
1 CATGTATTAACTCACAAGTATTAACCCG
33800167 CAT
1 CAT
33800170 ATTTTGACTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.36
Consensus pattern (28 bp):
CATGTATTAACTCACAAGTATTAACCCG
Found at i:33800410 original size:16 final size:15
Alignment explanation
Indices: 33800381--33800419 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
33800371 GGGTCGTAGT
*
33800381 AGGGGTTCGTATACA
1 AGGGGTTCGCATACA
33800396 AGGGGATTCGCATACA
1 AGGGG-TTCGCATACA
33800412 AGGGGTTC
1 AGGGGTTC
33800420 ACATGTCAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.26, C:0.15, G:0.36, T:0.23
Consensus pattern (15 bp):
AGGGGTTCGCATACA
Found at i:33802861 original size:46 final size:46
Alignment explanation
Indices: 33802764--33802935 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 46
33802754 CCCAGGTTCC
* * * * *
33802764 GAGCTCTTGCATATGTTCCGGGCTCAAGAATATAGGAATAGGTTCT
1 GAGCTCCTGCATATGTTGCAGACTCAAGAATATAGGAATAGTTTCT
* * *
33802810 AAGCTCCTGCATATGTTGCAGACTCAAGAATACAGGAACAAGTTTC-
1 GAGCTCCTGCATATGTTGCAGACTCAAGAATATAGGAA-TAGTTTCT
* * * **
33802856 GAGCTCCTGCATGTGTTGCAAACTCAAAAATATAGGTTTAGTTTCT
1 GAGCTCCTGCATATGTTGCAGACTCAAGAATATAGGAATAGTTTCT
* *
33802902 GAGCT-CTGGCATATGTTGGAGACTCGAGAATATA
1 GAGCTCCT-GCATATGTTGCAGACTCAAGAATATA
33802936 TCAATATTAA
Statistics
Matches: 102, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
45 8 0.08
46 89 0.87
47 5 0.05
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (46 bp):
GAGCTCCTGCATATGTTGCAGACTCAAGAATATAGGAATAGTTTCT
Found at i:33809452 original size:34 final size:34
Alignment explanation
Indices: 33809355--33809444 Score: 119
Period size: 34 Copynumber: 2.6 Consensus size: 34
33809345 GGTTCGCATC
** *
33809355 TAGGGTTCACATAACATATAGGCTCGCATAGA-CT
1 TAGGGTTTGCATAACATATAGGCTCGCACA-ACCT
*
33809389 TAGGGTTTGCATAACATGTAGGCTCGCACAACCT
1 TAGGGTTTGCATAACATATAGGCTCGCACAACCT
*
33809423 TAGGGTTTGCATAATATATAGG
1 TAGGGTTTGCATAACATATAGG
33809445 TTTGCACACT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
33 1 0.02
34 48 0.98
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (34 bp):
TAGGGTTTGCATAACATATAGGCTCGCACAACCT
Found at i:33809665 original size:14 final size:14
Alignment explanation
Indices: 33809622--33809668 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
33809612 ATGTGATTTA
*
33809622 TGACTCGCAAGTAT
1 TGACTCGCATGTAT
* **
33809636 TGATTCGCATACAT
1 TGACTCGCATGTAT
33809650 TGACTCGCATGTAT
1 TGACTCGCATGTAT
33809664 TGACT
1 TGACT
33809669 TGCAGATGTT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (14 bp):
TGACTCGCATGTAT
Found at i:33809680 original size:28 final size:28
Alignment explanation
Indices: 33809622--33809683 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
33809612 ATGTGATTTA
*
33809622 TGACTCGCAAGTATTGATTCGCATACAT
1 TGACTCGCAAGTATTGATTCGCAGACAT
* **
33809650 TGACTCGCATGTATTGACTT-GCAGATGT
1 TGACTCGCAAGTATTGA-TTCGCAGACAT
33809678 TGACTC
1 TGACTC
33809684 ACATATACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 27 0.93
29 2 0.07
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (28 bp):
TGACTCGCAAGTATTGATTCGCAGACAT
Found at i:33811985 original size:21 final size:22
Alignment explanation
Indices: 33811961--33812005 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
33811951 GTATAATTTA
33811961 TATGAATGAAGTATG-AAATAT
1 TATGAATGAAGTATGAAAATAT
* * *
33811982 TATGACTGAATTGTGAAAATAT
1 TATGAATGAAGTATGAAAATAT
33812004 TA
1 TA
33812006 ATTATATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.44, C:0.02, G:0.18, T:0.36
Consensus pattern (22 bp):
TATGAATGAAGTATGAAAATAT
Found at i:33829148 original size:33 final size:34
Alignment explanation
Indices: 33829086--33829152 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
33829076 TTTCATTGAG
33829086 AACAAACAAAAAATGAGAATTTTTTTAAATTAAA
1 AACAAACAAAAAATGAGAATTTTTTTAAATTAAA
*
33829120 AACAAACAATAAATGAGAA-TTTTTTAAATTAAA
1 AACAAACAAAAAATGAGAATTTTTTTAAATTAAA
33829153 GAATCTTTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 14 0.44
34 18 0.56
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.30
Consensus pattern (34 bp):
AACAAACAAAAAATGAGAATTTTTTTAAATTAAA
Found at i:33841252 original size:21 final size:21
Alignment explanation
Indices: 33841227--33841285 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
33841217 CCATTTATCA
33841227 TTTATTTTTATTGTTTTT-TAT
1 TTTATTTTTA-TGTTTTTATAT
*
33841248 TTTATTTTTA-GTTTTTATTT
1 TTTATTTTTATGTTTTTATAT
*
33841268 TTTATTGTTATGTTTTTA
1 TTTATTTTTATGTTTTTA
33841286 GACTTCCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.18
20 11 0.32
21 17 0.50
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (21 bp):
TTTATTTTTATGTTTTTATAT
Found at i:33843292 original size:42 final size:42
Alignment explanation
Indices: 33843232--33843339 Score: 137
Period size: 42 Copynumber: 2.5 Consensus size: 42
33843222 ATATGTGTTA
*
33843232 TCGTGTAAGACCACGTCTGGGACAATTGCATCG-TACTTGATT
1 TCGTGTAAGACC-CGTCTGGGACAATGGCATCGATACTTGATT
*
33843274 TCGTGTAAGACCCTGTCTGGGACAATGGCATCGATATTTGATT
1 TCGTGTAAGACCC-GTCTGGGACAATGGCATCGATACTTGATT
* * *
33843317 ACATGTAAGAACACGTCTGGGAC
1 TCGTGTAAG-ACCCGTCTGGGAC
33843340 GTTGGCATTG
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
41 1 0.02
42 30 0.52
43 24 0.41
44 3 0.05
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (42 bp):
TCGTGTAAGACCCGTCTGGGACAATGGCATCGATACTTGATT
Found at i:33843346 original size:43 final size:42
Alignment explanation
Indices: 33843235--33843352 Score: 123
Period size: 43 Copynumber: 2.8 Consensus size: 42
33843225 TGTGTTATCG
* * *
33843235 TGTAAGACCACGTCTGGGACAATT-GCATCGTACTTGATTTCG
1 TGTAAGAACACGTCTGGGAC-ATTGGCATCGTACTTGATTACA
* * *
33843277 TGTAAG-ACCCTGTCTGGGACAATGGCATCGATATTTGATTACA
1 TGTAAGAACAC-GTCTGGGACATTGGCATCG-TACTTGATTACA
* *
33843320 TGTAAGAACACGTCTGGGACGTTGGCATTGTAC
1 TGTAAGAACACGTCTGGGACATTGGCATCGTAC
33843353 GAGCTTTCCT
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
41 4 0.07
42 23 0.38
43 31 0.51
44 3 0.05
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (42 bp):
TGTAAGAACACGTCTGGGACATTGGCATCGTACTTGATTACA
Found at i:33853493 original size:25 final size:25
Alignment explanation
Indices: 33853465--33853528 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
33853455 ACTAATATTA
33853465 GAACATAGAACTTAG-CTTAAGTTTG
1 GAACATAGAA-TTAGACTTAAGTTTG
* * **
33853490 GAACTTAGGATTAGACTTAAGTTAA
1 GAACATAGAATTAGACTTAAGTTTG
*
33853515 GAACTTAGAATTAG
1 GAACATAGAATTAG
33853529 GTTTAGTCTT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
24 4 0.12
25 29 0.88
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.31
Consensus pattern (25 bp):
GAACATAGAATTAGACTTAAGTTTG
Found at i:33853552 original size:31 final size:31
Alignment explanation
Indices: 33853494--33853553 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
33853484 AGTTTGGAAC
33853494 TTAGGATTAGACTTAAGTTAAGAACTTAGAA
1 TTAGGATTAGACTTAAGTTAAGAACTTAGAA
* * *
33853525 TTAGGTTTAGTCTTAGGATTAAG-ACTTAG
1 TTAGGATTAGACTTAAG-TTAAGAACTTAG
33853554 GACTTAAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 20 0.80
32 5 0.20
ACGTcount: A:0.35, C:0.07, G:0.22, T:0.37
Consensus pattern (31 bp):
TTAGGATTAGACTTAAGTTAAGAACTTAGAA
Found at i:33864569 original size:11 final size:11
Alignment explanation
Indices: 33864533--33864588 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
33864523 CATGGTATGT
33864533 ATGATATGCAC
1 ATGATATGCAC
* *
33864544 ATGACATG--T
1 ATGATATGCAC
33864553 ATGATATGCAC
1 ATGATATGCAC
*
33864564 ATGATATG--T
1 ATGATATGCAC
33864573 ATGATATGCAC
1 ATGATATGCAC
33864584 ATGAT
1 ATGAT
33864589 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:33864588 original size:20 final size:20
Alignment explanation
Indices: 33864522--33864588 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
33864512 ATTTTGATAA
*
33864522 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
33864542 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
33864562 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
33864582 ACATGAT
1 ACATGAT
33864589 GTAATCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:33864703 original size:23 final size:24
Alignment explanation
Indices: 33864637--33864732 Score: 151
Period size: 24 Copynumber: 4.0 Consensus size: 24
33864627 GGAGGAAGTG
33864637 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
33864661 TAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
33864685 TAAAAGGGCTT-TGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTAT
*
33864708 TAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAG-GGCTTATGCC-CCAGTTAT
33864733 ATGATAAAGC
Statistics
Matches: 68, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
23 19 0.28
24 41 0.60
25 8 0.12
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTATGCCCCAGTTAT
Found at i:33864729 original size:48 final size:48
Alignment explanation
Indices: 33864637--33864732 Score: 151
Period size: 47 Copynumber: 2.0 Consensus size: 48
33864627 GGAGGAAGTG
*
33864637 TAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTAGGCCCCAGTTAT
33864685 TAAAAGGGCTT-TGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 TAAAAGGGCTTATGCCCCAGTTATTAAAAG-GGCTTAGGCC-CCAGTTAT
33864733 ATGATAAAGC
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
47 23 0.51
48 22 0.49
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (48 bp):
TAAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTAGGCCCCAGTTAT
Found at i:33864960 original size:31 final size:31
Alignment explanation
Indices: 33864925--33864987 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
33864915 CGTTTACAGT
33864925 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
33864956 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
33864987 A
1 A
33864988 GTATGAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:33865848 original size:83 final size:83
Alignment explanation
Indices: 33865756--33865921 Score: 269
Period size: 83 Copynumber: 2.0 Consensus size: 83
33865746 AAGCACATAA
* * * *
33865756 CTTGTCTTATTTGTTGGCATGTTTGACCAAGATATTTTGGTTATTTGCTTGCACCTTTTTAAGAA
1 CTTGTCTTATTTGTTGGCATGTTTGACCAAGATATTTTGATGATGTACTTGCACCTTTTTAAGAA
33865821 TCATGTGCAGCCAATCTT
66 TCATGTGCAGCCAATCTT
* *
33865839 CTTGTCTTATTTGTTGGCATGTTTGACCAAGATATTTTTATGATGTACTTGCACCTTTTTAAGGA
1 CTTGTCTTATTTGTTGGCATGTTTGACCAAGATATTTTGATGATGTACTTGCACCTTTTTAAGAA
*
33865904 TCTTGTGCAGCCAATCTT
66 TCATGTGCAGCCAATCTT
33865922 GTGTTTATCA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 76 1.00
ACGTcount: A:0.20, C:0.17, G:0.18, T:0.45
Consensus pattern (83 bp):
CTTGTCTTATTTGTTGGCATGTTTGACCAAGATATTTTGATGATGTACTTGCACCTTTTTAAGAA
TCATGTGCAGCCAATCTT
Found at i:33869303 original size:103 final size:104
Alignment explanation
Indices: 33869059--33869324 Score: 419
Period size: 103 Copynumber: 2.6 Consensus size: 104
33869049 GTTGTACATA
** *
33869059 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
33869124 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
33869163 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
33869227 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
33869266 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
33869325 AATAACGGTT
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:33871048 original size:17 final size:17
Alignment explanation
Indices: 33870976--33871050 Score: 75
Period size: 17 Copynumber: 4.5 Consensus size: 17
33870966 CACTTAGTAT
* *
33870976 AGCTCGCAGTTCAGCAG
1 AGCTCGCAATTTAGCAG
33870993 AGCTCGCAATTTAGCAG
1 AGCTCGCAATTTAGCAG
* *
33871010 AGCTCACACATGTT---AT
1 AGCTCGCA-AT-TTAGCAG
33871026 AGCTCGCAATTTAGCAG
1 AGCTCGCAATTTAGCAG
33871043 AGCTCGCA
1 AGCTCGCA
33871051 TAATAGCATA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
14 2 0.04
15 2 0.04
16 8 0.17
17 31 0.66
18 2 0.04
19 2 0.04
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (17 bp):
AGCTCGCAATTTAGCAG
Found at i:33873034 original size:18 final size:18
Alignment explanation
Indices: 33873013--33873051 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
33873003 GCATATTCAG
33873013 ATTCAGACACATAAT-CAA
1 ATTCAGACACA-AATGCAA
*
33873031 ATTCAGATACAAATGCAA
1 ATTCAGACACAAATGCAA
33873049 ATT
1 ATT
33873052 TTGATACAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.49, C:0.18, G:0.08, T:0.26
Consensus pattern (18 bp):
ATTCAGACACAAATGCAA
Found at i:33878998 original size:102 final size:100
Alignment explanation
Indices: 33878879--33879066 Score: 331
Period size: 102 Copynumber: 1.9 Consensus size: 100
33878869 CCTATATATA
*
33878879 TGAAATATGCTTTGGTAATTGCTTATAATTGATAAATTGAGTTTTTGAAAATTTGATCATATAAT
1 TGAAATATGCTTTGGTAACTGCTTATAATTGATAAATTGAGTTTTTGAAAATTTGATCATATAAT
33878944 ATAGGGAAAAGAAAAGAAAAAAAACGATACCCATCAT
66 AT-GGGAAAA-AAAAGAAAAAAAACGATACCCATCAT
* *
33878981 TGAAATATGCTTTGGTAACTGCTTATAATTGATAAATTGATTTTTTGGAAATTTGATCATATAAT
1 TGAAATATGCTTTGGTAACTGCTTATAATTGATAAATTGAGTTTTTGAAAATTTGATCATATAAT
33879046 ATGGGAAAAAAAAGAAAAAAA
66 ATGGGAAAAAAAAGAAAAAAA
33879067 TAATAGCCGC
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
100 12 0.14
101 7 0.08
102 64 0.77
ACGTcount: A:0.44, C:0.06, G:0.16, T:0.34
Consensus pattern (100 bp):
TGAAATATGCTTTGGTAACTGCTTATAATTGATAAATTGAGTTTTTGAAAATTTGATCATATAAT
ATGGGAAAAAAAAGAAAAAAAACGATACCCATCAT
Found at i:33885979 original size:6 final size:6
Alignment explanation
Indices: 33885968--33886002 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
33885958 CCAATATGAT
33885968 TAATAC TAATAC TAATAC TAATAC TAATAC TAATA
1 TAATAC TAATAC TAATAC TAATAC TAATAC TAATA
33886003 AAAAGATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.34
Consensus pattern (6 bp):
TAATAC
Found at i:33891744 original size:24 final size:24
Alignment explanation
Indices: 33891717--33891765 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
33891707 CTTTTCTGAT
*
33891717 ATTTCTTTCTTTAGATTACGCCAA
1 ATTTCTTTCTTTAAATTACGCCAA
*
33891741 ATTTCTTTCTTTAAATTAGGCCAA
1 ATTTCTTTCTTTAAATTACGCCAA
33891765 A
1 A
33891766 AGTCCAGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (24 bp):
ATTTCTTTCTTTAAATTACGCCAA
Found at i:33893085 original size:14 final size:15
Alignment explanation
Indices: 33893059--33893089 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
33893049 GATATTAACC
33893059 ATTGGATGTGATTAA
1 ATTGGATGTGATTAA
33893074 ATTGGA-GTGATTAA
1 ATTGGATGTGATTAA
33893088 AT
1 AT
33893090 ATTGACCGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.35, C:0.00, G:0.26, T:0.39
Consensus pattern (15 bp):
ATTGGATGTGATTAA
Found at i:33896618 original size:40 final size:40
Alignment explanation
Indices: 33896485--33896619 Score: 159
Period size: 41 Copynumber: 3.4 Consensus size: 40
33896475 GACTTCGAGT
* * * *
33896485 CGATGAGGCACTGGGTGCCAA-TT--TACTTCGGTTTAAC
1 CGATGAGACACTGGGTGTCAATTTACTACTTCGATTTATC
* * *
33896522 CAATGAGACACTGGGTGTCAATTTACTATTTCAGATTTATT
1 CGATGAGACACTGGGTGTCAATTTACTACTTC-GATTTATC
*
33896563 CGATGAGACACTGGGTGTCAATTTACTACTTCGAATTATC
1 CGATGAGACACTGGGTGTCAATTTACTACTTCGATTTATC
*
33896603 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
33896620 CCAAACTTGT
Statistics
Matches: 82, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
37 18 0.22
38 2 0.02
40 27 0.33
41 35 0.43
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAATTTACTACTTCGATTTATC
Found at i:33897816 original size:18 final size:19
Alignment explanation
Indices: 33897787--33897822 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
33897777 CACGGCCGTA
33897787 TGCTCAAACCGTGTGCAAG
1 TGCTCAAACCGTGTGCAAG
33897806 TGCTC-AACCGTGTGCAA
1 TGCTCAAACCGTGTGCAA
33897823 TTCTGACTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.22
Consensus pattern (19 bp):
TGCTCAAACCGTGTGCAAG
Found at i:33907504 original size:27 final size:27
Alignment explanation
Indices: 33907450--33907506 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
33907440 AAGAGAAAGA
* * *
33907450 AAAAGTAAATTAATTAGTAATAATAAT
1 AAAAGTAAATTAATTAGCAAGAAAAAT
* *
33907477 AAAATTAAATTAATTTGCAAGAAAAAT
1 AAAAGTAAATTAATTAGCAAGAAAAAT
33907504 AAA
1 AAA
33907507 TGGCTAAAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (27 bp):
AAAAGTAAATTAATTAGCAAGAAAAAT
Found at i:33908620 original size:13 final size:13
Alignment explanation
Indices: 33908602--33908627 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33908592 GCTCAGCAGG
33908602 GACACGCCCGTGT
1 GACACGCCCGTGT
33908615 GACACGCCCGTGT
1 GACACGCCCGTGT
33908628 TCGATTACTT
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:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:33917216 original size:16 final size:16
Alignment explanation
Indices: 33917197--33917247 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
33917187 AAAAACATAA
33917197 TTTTTCGAAAATATGG
1 TTTTTCGAAAATATGG
* ** *
33917213 TTTTTGGATCATA--A
1 TTTTTCGAAAATATGG
33917227 TTTTTCGAAAATATGG
1 TTTTTCGAAAATATGG
33917243 TTTTT
1 TTTTT
33917248 GGATCACATT
Statistics
Matches: 25, Mismatches: 8, Indels: 4
0.68 0.22 0.11
Matches are distributed among these distances:
14 10 0.40
16 15 0.60
ACGTcount: A:0.27, C:0.06, G:0.16, T:0.51
Consensus pattern (16 bp):
TTTTTCGAAAATATGG
Found at i:33917227 original size:30 final size:30
Alignment explanation
Indices: 33917192--33917253 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
33917182 GGGAAAAAAA
33917192 CATAATTTTTCGAAAATATGGTTTTTGGAT
1 CATAATTTTTCGAAAATATGGTTTTTGGAT
33917222 CATAATTTTTCGAAAATATGGTTTTTGGAT
1 CATAATTTTTCGAAAATATGGTTTTTGGAT
33917252 CA
1 CA
33917254 CATTAAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (30 bp):
CATAATTTTTCGAAAATATGGTTTTTGGAT
Found at i:33918129 original size:50 final size:50
Alignment explanation
Indices: 33918010--33918354 Score: 358
Period size: 50 Copynumber: 6.8 Consensus size: 50
33918000 TTTGTGAGAA
* * * *
33918010 CACATGTGTAGTACTATGTGCAGGCTACTATGTGT-TTAAGATAGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGAT--TGTTAGGT
33918062 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGTTAGGT
* * * * *
33918112 CGCATGTGTAGTACTAAGTGCAGGCTACTATC-CGTACCT-GATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTA-CGTGTA-CTAGATTG-TTAGGT
*
33918163 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGTTAGGT
* * * * *
33918213 CGCATGTGTAGTACTAAGTGCAGGCTACTATC-CGTACCT-GATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTA-CGTGTA-CTAGATTG-TTAGGT
* *
33918264 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGTTAGGT
* * * * * * *
33918314 CACATTTTTAGTTCCAAGTGTAGGCTACTATGCGTACTAGA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGA
33918355 GAGCTTCGAT
Statistics
Matches: 245, Mismatches: 37, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
50 123 0.50
51 84 0.34
52 37 0.15
53 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGTTAGGT
Found at i:33918199 original size:101 final size:101
Alignment explanation
Indices: 33918061--33918364 Score: 502
Period size: 101 Copynumber: 3.0 Consensus size: 101
33918051 TAGTTTTAGG
*
33918061 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGTTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGTTAGGTCGCATGTGTAGTAC
33918126 TAAGTGCAGGCTACTATCCGTACCTGATAGCTTCGA
66 TAAGTGCAGGCTACTATCCGTACCTGATAGCTTCGA
33918162 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGTTAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGTTAGGTCGCATGTGTAGTAC
33918227 TAAGTGCAGGCTACTATCCGTACCTGATAGCTTCGA
66 TAAGTGCAGGCTACTATCCGTACCTGATAGCTTCGA
* * * * *
33918263 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTCACATTTTTAGTTC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGTTAGGTCGCATGTGTAGTAC
* * * *
33918328 CAAGTGTAGGCTACTATGCGTA-CTAGAGAGCTTCGA
66 TAAGTGCAGGCTACTATCCGTACCT-GATAGCTTCGA
33918364 T
1 T
33918365 TACAAGGGTG
Statistics
Matches: 192, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
100 2 0.01
101 190 0.99
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATTGTTAGGTCGCATGTGTAGTAC
TAAGTGCAGGCTACTATCCGTACCTGATAGCTTCGA
Found at i:33925823 original size:17 final size:18
Alignment explanation
Indices: 33925785--33925831 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
33925775 GGCCCAGAAC
*
33925785 CCCACAAGCCTGTGTGGG
1 CCCACAAGCCCGTGTGGG
*
33925803 CCCACATGCCCGTGT-GG
1 CCCACAAGCCCGTGTGGG
33925820 CCCACACAGCCC
1 CCCACA-AGCCC
33925832 AAATCGGTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.17, C:0.45, G:0.26, T:0.13
Consensus pattern (18 bp):
CCCACAAGCCCGTGTGGG
Found at i:33929389 original size:61 final size:58
Alignment explanation
Indices: 33929324--33929439 Score: 169
Period size: 61 Copynumber: 1.9 Consensus size: 58
33929314 AGTAATTATC
* *
33929324 TTAATATAAAATTTAATTTAATATTTATCTTATAGATAAATATTCTATTAATTTAATAGAT
1 TTAATATAAAATTTAATCTAATATTTATC-T-T-GATAAATATTATATTAATTTAATAGAT
* *
33929385 TTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATA
1 TTAATATAAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
33929440 TTAACGTGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 22 0.43
59 1 0.02
60 1 0.02
61 27 0.53
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (58 bp):
TTAATATAAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATAGAT
Found at i:33934515 original size:6 final size:6
Alignment explanation
Indices: 33934486--33934547 Score: 70
Period size: 6 Copynumber: 10.2 Consensus size: 6
33934476 AGAGGAAAAC
* * * *
33934486 AAAATA AACATA ACAAGA AGAATA AAAATA AAAATA AAAGATA AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA-ATA AAAATA
*
33934535 AACATA AAAATA A
1 AAAATA AAAATA A
33934548 TCGGACTCAA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
6 40 0.87
7 6 0.13
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:33937682 original size:5 final size:5
Alignment explanation
Indices: 33937672--33937717 Score: 51
Period size: 5 Copynumber: 9.0 Consensus size: 5
33937662 TTTTTCTTGC
33937672 AATTT AATTT AATTT AATTT AATTTT ACTATTT -A-TT AATTT AATTT
1 AATTT AATTT AATTT AATTT AA-TTT A--ATTT AATTT AATTT AATTT
33937718 TTCTTTCTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
3 2 0.06
4 2 0.06
5 24 0.67
6 4 0.11
7 3 0.08
8 1 0.03
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (5 bp):
AATTT
Found at i:33959234 original size:10 final size:10
Alignment explanation
Indices: 33959219--33959252 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
33959209 CGGGGAAAAG
*
33959219 AGAAAAGAAA
1 AGAAAAGAGA
*
33959229 AGAAAAGAGG
1 AGAAAAGAGA
33959239 AGAAAAGAGA
1 AGAAAAGAGA
33959249 AGAA
1 AGAA
33959253 GATAGGGGAG
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:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (10 bp):
AGAAAAGAGA
Found at i:33959282 original size:58 final size:59
Alignment explanation
Indices: 33959220--33959337 Score: 211
Period size: 58 Copynumber: 2.0 Consensus size: 59
33959210 GGGGAAAAGA
*
33959220 GAAAAGAAAAGAAAAGAGGAGAAAAGAGAAGAAGATA-GGGGAGGGCAGTACGATGAAG
1 GAAAAGAAAAGAAAAGAGGAGAAAAGAGAAGAAGATAGGGGGAGGGAAGTACGATGAAG
*
33959278 GAAAAGAAAAGAAAATAGGAGAAAAGAGAAGAAGATAGGGGGAGGGAAGTACGATGAAG
1 GAAAAGAAAAGAAAAGAGGAGAAAAGAGAAGAAGATAGGGGGAGGGAAGTACGATGAAG
33959337 G
1 G
33959338 GCGAGGGGGA
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
58 36 0.63
59 21 0.37
ACGTcount: A:0.53, C:0.03, G:0.38, T:0.06
Consensus pattern (59 bp):
GAAAAGAAAAGAAAAGAGGAGAAAAGAGAAGAAGATAGGGGGAGGGAAGTACGATGAAG
Found at i:33959303 original size:20 final size:20
Alignment explanation
Indices: 33959278--33959316 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33959268 TACGATGAAG
33959278 GAAAAGAAAAGAAAATAGGA
1 GAAAAGAAAAGAAAATAGGA
* *
33959298 GAAAAGAGAAGAAGATAGG
1 GAAAAGAAAAGAAAATAGG
33959317 GGGAGGGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.31, T:0.05
Consensus pattern (20 bp):
GAAAAGAAAAGAAAATAGGA
Found at i:33959520 original size:13 final size:13
Alignment explanation
Indices: 33959502--33959527 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33959492 CGTGTTGGGC
33959502 CACACGCCCGTGT
1 CACACGCCCGTGT
33959515 CACACGCCCGTGT
1 CACACGCCCGTGT
33959528 GGCTCGAGAT
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:0.15, C:0.46, G:0.23, T:0.15
Consensus pattern (13 bp):
CACACGCCCGTGT
Found at i:33967242 original size:17 final size:17
Alignment explanation
Indices: 33967220--33967263 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
33967210 ACTGAAAATG
33967220 GGTCCACACGTTCATGT
1 GGTCCACACGTTCATGT
*
33967237 GGTCCACACATTCATGT
1 GGTCCACACGTTCATGT
*
33967254 GGCCCACACG
1 GGTCCACACG
33967264 GTCTGGACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.20, C:0.34, G:0.23, T:0.23
Consensus pattern (17 bp):
GGTCCACACGTTCATGT
Found at i:33969938 original size:43 final size:42
Alignment explanation
Indices: 33969891--33969985 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 42
33969881 TCCCGGACGT
* * ** *
33969891 GGTCTTATATGTAATTCA-ATATCGATGCCTCTGTCCCAAACAG
1 GGTCTTATACG-AAATCAGATA-CGATGCCAATGTCCCAAACAA
* *
33969934 GGTCTTACACGAAATCAGATACGATGCCAATGTCCCAGACAA
1 GGTCTTATACGAAATCAGATACGATGCCAATGTCCCAAACAA
33969976 GGTCTTATAC
1 GGTCTTATAC
33969986 ATAAATCACA
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
42 31 0.72
43 12 0.28
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (42 bp):
GGTCTTATACGAAATCAGATACGATGCCAATGTCCCAAACAA
Found at i:33981400 original size:166 final size:166
Alignment explanation
Indices: 33981124--33981455 Score: 610
Period size: 166 Copynumber: 2.0 Consensus size: 166
33981114 CGACCTCGAA
* *
33981124 AGGGGGCTCTCCAGAACTTTTCTGGAACACAGAACCAGACGCCGTGAATTACTGGAAGGAAGCCA
1 AGGGGGCTCTCCAGAACTTTTCTGGAACACAGAACCACACGCCGAGAATTACTGGAAGGAAGCCA
* *
33981189 GACGATCCATCTCAAAATCCAGAGCTATTCCAAGACTGCAGATCTCTCTCAGAATTCCTTCAGGG
66 GACGATCCATCTCAAAAGCCAGAGCTATTCCAAGACTGAAGATCTCTCTCAGAATTCCTTCAGGG
33981254 GTTTTAGAGTTTTCTTTATGTTTTGTTATTTTTATT
131 GTTTTAGAGTTTTCTTTATGTTTTGTTATTTTTATT
* *
33981290 AGGGGGCTCTCCAGAACTTTTCTGGAACGCAGAACCACACGCCGAGAATTACTTGAAGGAAGCCA
1 AGGGGGCTCTCCAGAACTTTTCTGGAACACAGAACCACACGCCGAGAATTACTGGAAGGAAGCCA
33981355 GACGATCCATCTCAAAAGCCAGAGCTATTCCAAGACTGAAGATCTCTCTCAGAATTCCTTCAGGG
66 GACGATCCATCTCAAAAGCCAGAGCTATTCCAAGACTGAAGATCTCTCTCAGAATTCCTTCAGGG
33981420 GTTTTAGAGTTTTCTTTATGTTTTGTTATTTTTATT
131 GTTTTAGAGTTTTCTTTATGTTTTGTTATTTTTATT
33981456 CTTCTGAGAT
Statistics
Matches: 160, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
166 160 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (166 bp):
AGGGGGCTCTCCAGAACTTTTCTGGAACACAGAACCACACGCCGAGAATTACTGGAAGGAAGCCA
GACGATCCATCTCAAAAGCCAGAGCTATTCCAAGACTGAAGATCTCTCTCAGAATTCCTTCAGGG
GTTTTAGAGTTTTCTTTATGTTTTGTTATTTTTATT
Found at i:33994148 original size:21 final size:21
Alignment explanation
Indices: 33994110--33994150 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33994100 ATTACTCCAA
*
33994110 AGAAGCCGATTGATTCATCAC
1 AGAAGCCGATTCATTCATCAC
33994131 AGAAGCCGGATTCA-TCATCA
1 AGAAGCC-GATTCATTCATCA
33994151 AGACTGAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (21 bp):
AGAAGCCGATTCATTCATCAC
Found at i:33994216 original size:47 final size:47
Alignment explanation
Indices: 33994147--33994239 Score: 186
Period size: 47 Copynumber: 2.0 Consensus size: 47
33994137 CGGATTCATC
33994147 ATCAAGACTGAAGATCTCTCCTCAATTCCCCTTCAGGAGTTTTGGGT
1 ATCAAGACTGAAGATCTCTCCTCAATTCCCCTTCAGGAGTTTTGGGT
33994194 ATCAAGACTGAAGATCTCTCCTCAATTCCCCTTCAGGAGTTTTGGG
1 ATCAAGACTGAAGATCTCTCCTCAATTCCCCTTCAGGAGTTTTGGG
33994240 GTTTCTTTAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (47 bp):
ATCAAGACTGAAGATCTCTCCTCAATTCCCCTTCAGGAGTTTTGGGT
Found at i:33995200 original size:20 final size:19
Alignment explanation
Indices: 33995166--33995204 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
33995156 ATCAGACGAG
* *
33995166 TCATAAACGATTACAGATGC
1 TCATAAACAAGTACA-ATGC
33995186 TCATAAACAAGTACAATGC
1 TCATAAACAAGTACAATGC
33995205 CGACGTCCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.44, C:0.21, G:0.13, T:0.23
Consensus pattern (19 bp):
TCATAAACAAGTACAATGC
Found at i:33995297 original size:42 final size:43
Alignment explanation
Indices: 33995209--33995354 Score: 138
Period size: 43 Copynumber: 3.4 Consensus size: 43
33995199 CAATGCCGAC
* **
33995209 GTCCCAGAC-GTGGTCTTATATGTAATTCAATATCGATGCCTCT
1 GTCCCAGACAG-GGTCTTATATGTAAATCAATATCGATGCCAAT
* * *
33995252 GTCCTAGAGAGGGTCTTACATG-AAATCAGATA-CGATGCCAAT
1 GTCCCAGACAGGGTCTTATATGTAAATCA-ATATCGATGCCAAT
* * * *
33995294 GTCCCAGACATGGTCTTATATGTAAATCTCA-ATCGAGGCCTAT
1 GTCCCAGACAGGGTCTTATATGTAAATC-AATATCGATGCCAAT
*
33995337 GTCCCAGACACGGTCTTA
1 GTCCCAGACAGGGTCTTA
33995355 CACGATGTCT
Statistics
Matches: 84, Mismatches: 14, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
42 32 0.38
43 51 0.61
44 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (43 bp):
GTCCCAGACAGGGTCTTATATGTAAATCAATATCGATGCCAAT
Found at i:33999080 original size:225 final size:225
Alignment explanation
Indices: 33998672--33999123 Score: 778
Period size: 225 Copynumber: 2.0 Consensus size: 225
33998662 GGAAAAACTA
* *
33998672 GTTTAACCTTTCAACAATTAGGCAAAAGCATGATCGGTGAGTGTTTGGAATAGCTGTTTGTAGAC
1 GTTTAACCTTTCAACAATTAGGCAAAAGCATGATCGGTGAGTGTTTGGAATAGCTATTGGTAGAC
** *
33998737 ACTATTCATTGTGTTAATTGGGAGCTCAGGAATAGCCTAAACCCCTATCCTAAGTTCTAAACGTA
66 ACTATTCATAATGTTAATTGGGAGCTCAGGAATAGCCTAAACCCCTATCCTAAGTTCCAAACGTA
*
33998802 AGCTTCCTTATACCCTTTGTTTAATTTAAAAAGTATGTGATTGTGTTATGCGCACTGAGTATTAA
131 AGCTTCCTTATACCCTTTGTTTAATTTAAAAAGTATGTGATTGTGTGATGCGCACTGAGTATTAA
33998867 GTTGTGATAATGTGACATGTAATATATATT
196 GTTGTGATAATGTGACATGTAATATATATT
* * *
33998897 GTTTAAGCTTTCAGCAATTAGGCAAAAGCATGATCGGTGAGTGTTTGGATTAGCTATTGGTAGAC
1 GTTTAACCTTTCAACAATTAGGCAAAAGCATGATCGGTGAGTGTTTGGAATAGCTATTGGTAGAC
* * *
33998962 ACTATTCATAATGTTAATTGGGAGCTTAGGAATAGCCTAAACCCCTATGCTAAGTTCCGAACGTA
66 ACTATTCATAATGTTAATTGGGAGCTCAGGAATAGCCTAAACCCCTATCCTAAGTTCCAAACGTA
*
33999027 AGCTTCCTTATACCCTTTGTTTAATTTCAAAAGTATGTGATTGTGTGATGCGCACTGAGTATTAA
131 AGCTTCCTTATACCCTTTGTTTAATTTAAAAAGTATGTGATTGTGTGATGCGCACTGAGTATTAA
*
33999092 GTTGTGATAATGTGACATGTGATATATATT
196 GTTGTGATAATGTGACATGTAATATATATT
33999122 GT
1 GT
33999124 GATAGCTCTT
Statistics
Matches: 213, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
225 213 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (225 bp):
GTTTAACCTTTCAACAATTAGGCAAAAGCATGATCGGTGAGTGTTTGGAATAGCTATTGGTAGAC
ACTATTCATAATGTTAATTGGGAGCTCAGGAATAGCCTAAACCCCTATCCTAAGTTCCAAACGTA
AGCTTCCTTATACCCTTTGTTTAATTTAAAAAGTATGTGATTGTGTGATGCGCACTGAGTATTAA
GTTGTGATAATGTGACATGTAATATATATT
Found at i:34001844 original size:7 final size:7
Alignment explanation
Indices: 34001831--34001884 Score: 81
Period size: 7 Copynumber: 7.7 Consensus size: 7
34001821 AAGTACTCAC
34001831 CTTTGTG
1 CTTTGTG
*
34001838 TTTTGTG
1 CTTTGTG
*
34001845 TTTTGTG
1 CTTTGTG
*
34001852 TTTTGTG
1 CTTTGTG
34001859 CTTTGTG
1 CTTTGTG
34001866 CTTTGTG
1 CTTTGTG
34001873 CTTTGTG
1 CTTTGTG
34001880 CTTTG
1 CTTTG
34001885 GGCAATGAGA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.00, C:0.09, G:0.28, T:0.63
Consensus pattern (7 bp):
CTTTGTG
Found at i:34023616 original size:10 final size:10
Alignment explanation
Indices: 34023601--34023625 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
34023591 TATAATGTCC
34023601 TAAATTAACT
1 TAAATTAACT
34023611 TAAATTAACT
1 TAAATTAACT
34023621 TAAAT
1 TAAAT
34023626 GAGAAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (10 bp):
TAAATTAACT
Found at i:34024984 original size:12 final size:12
Alignment explanation
Indices: 34024949--34025000 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
34024939 AATTTGAGTT
*
34024949 TTATATTTATTA
1 TTATTTTTATTA
34024961 TTATCTTATTTATTA
1 TTA--TT-TTTATTA
*
34024976 TTATTTTTAGTA
1 TTATTTTTATTA
*
34024988 TTATTATTATTA
1 TTATTTTTATTA
34025000 T
1 T
34025001 CGTTATTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
12 20 0.61
13 2 0.06
14 1 0.03
15 10 0.30
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (12 bp):
TTATTTTTATTA
Found at i:34025048 original size:3 final size:3
Alignment explanation
Indices: 34025040--34025143 Score: 93
Period size: 3 Copynumber: 35.0 Consensus size: 3
34025030 CACTACCGTC
* * ** *
34025040 ATT ATT ATT A-T AGT ATT ATT AGT ATT ATT ATT ACC ATT ATT TTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
34025087 ATC ATT ATT TTT ATT ATC ATT ATT TTT ATT ATC ATT ATT TTT ATT ATC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
34025135 ATT ATT ATT
1 ATT ATT ATT
34025144 TTTTTAAACC
Statistics
Matches: 77, Mismatches: 23, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
2 2 0.03
3 75 0.97
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:34025080 original size:15 final size:15
Alignment explanation
Indices: 34025062--34025140 Score: 140
Period size: 15 Copynumber: 5.3 Consensus size: 15
34025052 GTATTATTAG
* *
34025062 TATTATTATTACCAT
1 TATTTTTATTATCAT
34025077 TATTTTTATTATCAT
1 TATTTTTATTATCAT
34025092 TATTTTTATTATCAT
1 TATTTTTATTATCAT
34025107 TATTTTTATTATCAT
1 TATTTTTATTATCAT
34025122 TATTTTTATTATCAT
1 TATTTTTATTATCAT
34025137 TATT
1 TATT
34025141 ATTTTTTTAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 62 1.00
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.65
Consensus pattern (15 bp):
TATTTTTATTATCAT
Found at i:34025101 original size:30 final size:30
Alignment explanation
Indices: 34025053--34025140 Score: 140
Period size: 30 Copynumber: 2.9 Consensus size: 30
34025043 ATTATTATAG
* * * *
34025053 TATTATTAGTATTATTATTACCATTATTTT
1 TATTATCATTATTTTTATTATCATTATTTT
34025083 TATTATCATTATTTTTATTATCATTATTTT
1 TATTATCATTATTTTTATTATCATTATTTT
34025113 TATTATCATTATTTTTATTATCATTATT
1 TATTATCATTATTTTTATTATCATTATT
34025141 ATTTTTTTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.64
Consensus pattern (30 bp):
TATTATCATTATTTTTATTATCATTATTTT
Done.