Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 25 of 333
Found at i:7199104 original size:19 final size:19
Alignment explanation
Indices: 7199068--7199105 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
7199058 GGAAATAATG
*
7199068 TATTTAAAATATAGATATA
1 TATTTAAAATATACATATA
7199087 TATTTAAAA-ATAACATATA
1 TATTTAAAATAT-ACATATA
7199106 ATAAATAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (19 bp):
TATTTAAAATATACATATA
Found at i:7200106 original size:45 final size:44
Alignment explanation
Indices: 7200030--7200117 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 44
7200020 ATTGTAAATG
*
7200030 AAATTATAATTATTTTTAGATGCATAATTATCACAATTTCTATT
1 AAATTATAATTATTTTTAAATGCATAATTATCACAATTTCTATT
*
7200074 AAATTATAATTATTTTTTAAATGTATAATTATCACAATTTCTAT
1 AAATTATAATTA-TTTTTAAATGCATAATTATCACAATTTCTAT
7200118 AATTATTTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 12 0.29
45 29 0.71
ACGTcount: A:0.40, C:0.08, G:0.03, T:0.49
Consensus pattern (44 bp):
AAATTATAATTATTTTTAAATGCATAATTATCACAATTTCTATT
Found at i:7201610 original size:26 final size:26
Alignment explanation
Indices: 7201581--7201688 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
7201571 TGGTACAAAT
*
7201581 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
7201607 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
7201633 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
7201659 TGATAATGGTTTAGATAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
7201685 TGAT
1 TGAT
7201689 GGGCATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:7201643 original size:52 final size:52
Alignment explanation
Indices: 7201581--7201688 Score: 189
Period size: 52 Copynumber: 2.1 Consensus size: 52
7201571 TGGTACAAAT
*
7201581 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGATAAATATTCCA
* *
7201633 TGATAATGGGTTAGGTAAATGTTTCATGATAATGGTTTAGATAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGATAAATATTCCA
7201685 TGAT
1 TGAT
7201689 GGGCATTTCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.37
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGATAAATATTCCA
Found at i:7208395 original size:26 final size:26
Alignment explanation
Indices: 7208366--7208473 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
7208356 TAGTACAAAT
7208366 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
7208392 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
7208418 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
7208444 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
7208470 TGAT
1 TGAT
7208474 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:7217026 original size:17 final size:16
Alignment explanation
Indices: 7216984--7217032 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
7216974 AAACAACTAT
*
7216984 TAATAATATTACATAAA
1 TAATAATATTA-AAAAA
7217001 T-ATATATATTAAAAACA
1 TAATA-ATATTAAAAA-A
7217018 TAATAATATTAAAAA
1 TAATAATATTAAAAA
7217033 TACGTACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
16 6 0.21
17 19 0.68
18 3 0.11
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (16 bp):
TAATAATATTAAAAAA
Found at i:7217118 original size:27 final size:25
Alignment explanation
Indices: 7217049--7217126 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 25
7217039 CACAGTATAT
7217049 ATATACACATAATATAGTTATTAAGA
1 ATATACACATAATATAG-TATTAAGA
* *
7217075 AAATACATATAATATATAGTATTAAGA
1 ATATACACAT-A-ATATAGTATTAAGA
*
7217102 ATATACACAATACATATGGTATTAA
1 ATATACAC-ATA-ATATAGTATTAA
7217127 AAAATATAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
26 8 0.19
27 27 0.63
28 8 0.19
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (25 bp):
ATATACACATAATATAGTATTAAGA
Found at i:7217138 original size:15 final size:15
Alignment explanation
Indices: 7217115--7217145 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7217105 TACACAATAC
*
7217115 ATATGGTATTAAAAA
1 ATATAGTATTAAAAA
7217130 ATATAGTATTAAAAA
1 ATATAGTATTAAAAA
7217145 A
1 A
7217146 ACATAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (15 bp):
ATATAGTATTAAAAA
Found at i:7217591 original size:18 final size:18
Alignment explanation
Indices: 7217529--7217592 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 18
7217519 TATATATACC
7217529 TATATAATAAAACATATA
1 TATATAATAAAACATATA
*
7217547 CTAATATTAATAATA-ATA-A
1 -T-ATA-TAATAAAACATATA
**
7217566 -GGATAATAAAACATATA
1 TATATAATAAAACATATA
7217583 TATATAATAA
1 TATATAATAA
7217593 TAGTATTAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 11
0.67 0.12 0.22
Matches are distributed among these distances:
15 7 0.21
16 4 0.12
17 1 0.03
18 7 0.21
19 2 0.06
20 6 0.18
21 7 0.21
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.33
Consensus pattern (18 bp):
TATATAATAAAACATATA
Found at i:7217667 original size:14 final size:11
Alignment explanation
Indices: 7217645--7217705 Score: 52
Period size: 11 Copynumber: 5.2 Consensus size: 11
7217635 CTAATGATGC
7217645 TAAAATATATGCA
1 TAAAATATAT--A
7217658 TAATAATATATA
1 TAA-AATATATA
7217670 TAAAATATATA
1 TAAAATATATA
* *
7217681 CACAATATAGT-
1 TAAAATATA-TA
7217692 TACAAATATATA
1 TA-AAATATATA
7217704 TA
1 TA
7217706 TAATCGTAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
11 17 0.43
12 13 0.32
13 3 0.08
14 7 0.17
ACGTcount: A:0.56, C:0.07, G:0.03, T:0.34
Consensus pattern (11 bp):
TAAAATATATA
Found at i:7219106 original size:26 final size:27
Alignment explanation
Indices: 7219051--7219110 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
7219041 TATAGGTTTA
* * *
7219051 TTTTGGGCTGTTTGTTTGGAAATTGGG
1 TTTTGGGTTGTTTGGTTGGAAATGGGG
*
7219078 TTTTGGGTTG-TTGGTTGTAAATGGGG
1 TTTTGGGTTGTTTGGTTGGAAATGGGG
7219104 -TTTGGGT
1 TTTTGGGT
7219111 AATTTGGGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 7 0.24
26 13 0.45
27 9 0.31
ACGTcount: A:0.10, C:0.02, G:0.40, T:0.48
Consensus pattern (27 bp):
TTTTGGGTTGTTTGGTTGGAAATGGGG
Found at i:7219637 original size:71 final size:71
Alignment explanation
Indices: 7219521--7219662 Score: 284
Period size: 71 Copynumber: 2.0 Consensus size: 71
7219511 CAGGGAGACA
7219521 AAATCTGGTGTCTTCAATCAGCTCCAATCTTTATTCTTTATTCGGCATGTGATCCTGAGCTCAAC
1 AAATCTGGTGTCTTCAATCAGCTCCAATCTTTATTCTTTATTCGGCATGTGATCCTGAGCTCAAC
7219586 TCATTT
66 TCATTT
7219592 AAATCTGGTGTCTTCAATCAGCTCCAATCTTTATTCTTTATTCGGCATGTGATCCTGAGCTCAAC
1 AAATCTGGTGTCTTCAATCAGCTCCAATCTTTATTCTTTATTCGGCATGTGATCCTGAGCTCAAC
7219657 TCATTT
66 TCATTT
7219663 CTCGCAATAT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (71 bp):
AAATCTGGTGTCTTCAATCAGCTCCAATCTTTATTCTTTATTCGGCATGTGATCCTGAGCTCAAC
TCATTT
Found at i:7219956 original size:14 final size:14
Alignment explanation
Indices: 7219937--7219971 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
7219927 GTTGATTTTT
*
7219937 TTGAAAAACATAAA
1 TTGAAAAACAGAAA
*
7219951 TTGAAAAACAGAAT
1 TTGAAAAACAGAAA
7219965 TTGAAAA
1 TTGAAAA
7219972 TACCTCAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.06, G:0.11, T:0.23
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:7219997 original size:164 final size:164
Alignment explanation
Indices: 7219699--7220025 Score: 442
Period size: 164 Copynumber: 2.0 Consensus size: 164
7219689 AACAGACATT
* * * * *
7219699 AAAAACAAAAATTTAAAATAGCTCAGCACGTGAGCCAAGGCTTAACTCACCTCTCGCAATATGAG
1 AAAAACAAAAACTAAAAATACCTCAGCACGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAG
* * * * *
7219764 TTGGTTTTTTTGAAACTTAATTTGAAAAGCAGATTTTGAAAATACCTCGACACGCGACCCGAGGC
66 TTGATTTTTTTGAAACATAAATTGAAAAACAGAATTTGAAAATACCTCGACACGCGACCCGAGGC
7219829 TCAACTCACCTCTCGCAATATGAGTTGATTTTTG
131 TCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* **
7219863 AAAAACAGAAACTAAAAATACCTCAGCGTGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAAAAACTAAAAATACCTCAGCACGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAG
** * * * *
7219928 TTGATTTTTTTGAAAAACATAAATTGAAAAACAGAATTTGAAAATACCTC-A-GTGTGTCCTGAT
66 TTGATTTTTTTG--AAACATAAATTGAAAAACAGAATTTGAAAATACCTCGACACGCGACCCGAG
*
7219991 GCTCAACTCACCTCTCGCAATATGATTTGATTTTT
129 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
7220026 TTTTTAAAAG
Statistics
Matches: 141, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
164 108 0.77
165 1 0.01
166 32 0.23
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (164 bp):
AAAAACAAAAACTAAAAATACCTCAGCACGTGACCCAAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTTGAAACATAAATTGAAAAACAGAATTTGAAAATACCTCGACACGCGACCCGAGGC
TCAACTCACCTCTCGCAATATGAGTTGATTTTTG
Found at i:7220013 original size:89 final size:88
Alignment explanation
Indices: 7219860--7220134 Score: 329
Period size: 91 Copynumber: 3.1 Consensus size: 88
7219850 GAGTTGATTT
* * **
7219860 TTGAAAAACAGAAACTAAAAATACCTCAGCGTGTGACCCAAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAG-AATTGAAAATACCTCA--GTGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
*
7219925 GAGTTGATTTTTTTGAAAAACATAAA
63 GAGTTGATTTTTTTGAAAAACAGAAA
* *
7219951 TTGAAAAACAGAATTTGAAAATACCTCAGTGTGTCCTGATGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAA-TTGAAAATACCTCAGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
* * **
7220016 TTTGATTTTTTTTTTAAAAGTAGAAA
65 GTTGA--TTTTTTTGAAAAACAGAAA
* * * *
7220042 TTGAAAAGCCGACATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGA-ATTGAAAATACCTCAGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
*
7220107 GTTGA--TTTTTGACAAACAGAAA
65 GTTGATTTTTTTGAAAAACAGAAA
7220129 TTGAAA
1 TTGAAA
7220135 TTACCTCAGC
Statistics
Matches: 159, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
87 19 0.12
89 37 0.23
90 2 0.01
91 100 0.63
92 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (88 bp):
TTGAAAAACAGAATTGAAAATACCTCAGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTTTGAAAAACAGAAA
Found at i:7220177 original size:73 final size:72
Alignment explanation
Indices: 7220055--7220201 Score: 231
Period size: 73 Copynumber: 2.0 Consensus size: 72
7220045 AAAAGCCGAC
*
7220055 ATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAC
1 ATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-
7220120 AAACAGAA
65 AAACAGAA
* * * *
7220128 ATTGAAATTACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAA
1 ATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
*
7220193 AATAGAA
66 AACAGAA
7220200 AT
1 AT
7220202 AAAAACATCA
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
72 9 0.13
73 59 0.87
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (72 bp):
ATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAA
AACAGAA
Found at i:7220514 original size:21 final size:21
Alignment explanation
Indices: 7220488--7220530 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
7220478 TCACGAACAA
7220488 TCTGTGTTTCTCAGATATCAC
1 TCTGTGTTTCTCAGATATCAC
7220509 TCTGTGTTTCTCAGATATCAC
1 TCTGTGTTTCTCAGATATCAC
7220530 T
1 T
7220531 TTTTTGCCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.44
Consensus pattern (21 bp):
TCTGTGTTTCTCAGATATCAC
Found at i:7232125 original size:34 final size:36
Alignment explanation
Indices: 7232080--7232165 Score: 97
Period size: 34 Copynumber: 2.4 Consensus size: 36
7232070 GGACAGACAA
*
7232080 ATAAAAAATTAATAATATACGAAAC-ATA-TAATA-T
1 ATAAAACATTAATAATATAC-AAACGATAGTAATAGT
* * *
7232114 TTAAAACATTAACAATATACATACGATAGTAATAGT
1 ATAAAACATTAATAATATACAAACGATAGTAATAGT
*
7232150 ATAAAACAATAATAAT
1 ATAAAACATTAATAAT
7232166 GCATATGGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
33 3 0.07
34 20 0.48
35 5 0.12
36 14 0.33
ACGTcount: A:0.58, C:0.08, G:0.05, T:0.29
Consensus pattern (36 bp):
ATAAAACATTAATAATATACAAACGATAGTAATAGT
Found at i:7232416 original size:26 final size:27
Alignment explanation
Indices: 7232387--7232446 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 27
7232377 TATGGCGTTG
*
7232387 AAAAATACATACATAACATAGTAT-TA
1 AAAAATACATACATAACATAATATGTA
* * *
7232413 AAAAACATATACATAAGATAATATGTA
1 AAAAATACATACATAACATAATATGTA
7232440 AAAAATA
1 AAAAATA
7232447 TAATATAGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 20 0.71
27 8 0.29
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.25
Consensus pattern (27 bp):
AAAAATACATACATAACATAATATGTA
Found at i:7232747 original size:27 final size:25
Alignment explanation
Indices: 7232678--7232755 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 25
7232668 CACAATATAT
7232678 ATATACACATAATATAGTTATTAAGA
1 ATATACACATAATATAG-TATTAAGA
* *
7232704 AAATACATATAATATATAGTATTAAGA
1 ATATACACAT-A-ATATAGTATTAAGA
*
7232731 ATATACACAATACATATGGTATTAA
1 ATATACAC-ATA-ATATAGTATTAA
7232756 AAAATATAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
26 8 0.19
27 27 0.63
28 8 0.19
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (25 bp):
ATATACACATAATATAGTATTAAGA
Found at i:7232767 original size:15 final size:15
Alignment explanation
Indices: 7232744--7232774 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7232734 TACACAATAC
*
7232744 ATATGGTATTAAAAA
1 ATATAGTATTAAAAA
7232759 ATATAGTATTAAAAA
1 ATATAGTATTAAAAA
7232774 A
1 A
7232775 ACATAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (15 bp):
ATATAGTATTAAAAA
Found at i:7233446 original size:14 final size:11
Alignment explanation
Indices: 7233424--7233484 Score: 52
Period size: 11 Copynumber: 5.2 Consensus size: 11
7233414 CTAATGATGC
7233424 TAAAATATATGCA
1 TAAAATATAT--A
7233437 TAATAATATATA
1 TAA-AATATATA
7233449 TAAAATATATA
1 TAAAATATATA
* *
7233460 CACAATATAGT-
1 TAAAATATA-TA
7233471 TACAAATATATA
1 TA-AAATATATA
7233483 TA
1 TA
7233485 TATAATCGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
11 17 0.43
12 13 0.32
13 3 0.08
14 7 0.17
ACGTcount: A:0.56, C:0.07, G:0.03, T:0.34
Consensus pattern (11 bp):
TAAAATATATA
Found at i:7234344 original size:27 final size:27
Alignment explanation
Indices: 7234295--7234370 Score: 86
Period size: 27 Copynumber: 2.8 Consensus size: 27
7234285 ATGTACATAA
7234295 AAAGAGAGAAA-AAAATAAA-AAATAAACG
1 AAAGA-AGAAAGAAAA-AAAGAAAT-AACG
**
7234323 AAA-AAGAAAGAAAAAAAGAAATTTCG
1 AAAGAAGAAAGAAAAAAAGAAATAACG
7234349 AAAGAAGAAAGAAAAAAAGAAA
1 AAAGAAGAAAGAAAAAAAGAAA
7234371 ATGATGTCAA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
26 13 0.30
27 27 0.63
28 3 0.07
ACGTcount: A:0.75, C:0.03, G:0.16, T:0.07
Consensus pattern (27 bp):
AAAGAAGAAAGAAAAAAAGAAATAACG
Found at i:7234869 original size:27 final size:25
Alignment explanation
Indices: 7234838--7234897 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
7234828 TGTGGGTTTA
*
7234838 TTTTGGGTTGTTTGTTTGGAAATTGGG
1 TTTTGGGTTG-TTGGTTGGAAA-TGGG
*
7234865 TTTTGGGTTGTTGGTTGTAAATGGG
1 TTTTGGGTTGTTGGTTGGAAATGGG
*
7234890 GTTTGGGT
1 TTTTGGGT
7234898 AATTTGGGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 11 0.37
26 9 0.30
27 10 0.33
ACGTcount: A:0.10, C:0.00, G:0.40, T:0.50
Consensus pattern (25 bp):
TTTTGGGTTGTTGGTTGGAAATGGG
Found at i:7234893 original size:26 final size:27
Alignment explanation
Indices: 7234838--7234897 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
7234828 TGTGGGTTTA
* *
7234838 TTTTGGGTTGTTTGTTTGGAAATTGGG
1 TTTTGGGTTGTTTGGTTGGAAATGGGG
*
7234865 TTTTGGGTTG-TTGGTTGTAAATGGGG
1 TTTTGGGTTGTTTGGTTGGAAATGGGG
7234891 -TTTGGGT
1 TTTTGGGT
7234898 AATTTGGGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 7 0.23
26 13 0.43
27 10 0.33
ACGTcount: A:0.10, C:0.00, G:0.40, T:0.50
Consensus pattern (27 bp):
TTTTGGGTTGTTTGGTTGGAAATGGGG
Found at i:7242135 original size:73 final size:73
Alignment explanation
Indices: 7242036--7242182 Score: 267
Period size: 73 Copynumber: 2.0 Consensus size: 73
7242026 AAAAATTATT
* *
7242036 TAAATTTATTTCTTTAAGAAGTCCACTCTCATTTCGATTGTCTCCAGTTATCCAAAAAATACTGT
1 TAAATTTATTTCTTTAAGAAGTCCACTCTCATTTCGATTGTCTCCAGTAATCCAAAAAATACAGT
7242101 TCTATCAC
66 TCTATCAC
*
7242109 TAAATTTATTTCTTTAAGAAGTCCACTCTCATTTCGATTGTCTCCAGTAATCCACAAAATACAGT
1 TAAATTTATTTCTTTAAGAAGTCCACTCTCATTTCGATTGTCTCCAGTAATCCAAAAAATACAGT
7242174 TCTATCAC
66 TCTATCAC
7242182 T
1 T
7242183 CCCATTTTCA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
73 71 1.00
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.39
Consensus pattern (73 bp):
TAAATTTATTTCTTTAAGAAGTCCACTCTCATTTCGATTGTCTCCAGTAATCCAAAAAATACAGT
TCTATCAC
Found at i:7243294 original size:13 final size:13
Alignment explanation
Indices: 7243278--7243304 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7243268 GGGAAAGTTG
7243278 GGAAGGAATTAAA
1 GGAAGGAATTAAA
7243291 GGAAGGAATTAAA
1 GGAAGGAATTAAA
7243304 G
1 G
7243305 TGAGTGTGCG
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:0.52, C:0.00, G:0.33, T:0.15
Consensus pattern (13 bp):
GGAAGGAATTAAA
Found at i:7247084 original size:293 final size:288
Alignment explanation
Indices: 7246510--7247094 Score: 642
Period size: 293 Copynumber: 2.0 Consensus size: 288
7246500 TGCGTCTCTG
* *
7246510 AGATGGAGACGCTAATGCCTGCAATAAATTTGAACATACATCGATCAAGAAATTCCTAAACGCAG
1 AGATGAAGACGCTAATGCCTGCAATAAATTTGAACATACATCGATCAAGAAACTCCTAAACGCAG
* * * ** *
7246575 AATAAGTGCTTTTATTACTTTTGAGTTTGGATCAAATGATTAGCAGAAACGATGTAATTAATATG
66 AAGAAGTGCTTTTATTAC-TTT--GTTTAGATCAAATGATTAGCAGAAACAATAAAATAAATATG
* * *
7246640 AGACTTCCCAGGGTCCAGACGCTAGTAAATACTCAAACCATTACCTAAAATGTTAAACCTTAAAC
128 AGACTTCACAGAGTCCAGACGCTAGTAAATACTCAAACCATTACCTAAAACGTTAAACCTTAAAC
** * * *
7246705 CTAATATATCCCTTTTACGAGAAAAAAAAGGAAAAGAAATCAGAAGATTGTTTTTTTAAAAAAAT
193 CTAATATATCCCTTTTACGAGAAAAAAAAAAAAAACAAATCAAAAGATTG--TATTTAAAAAAAT
*** * *
7246770 CTTAAACAAATTCGGTTTTCCTCTCATCATATA
256 AAAAAAAAAATTCGCTTTTCCTCTCATCATATA
* * ** *
7246803 AGATGAAGACGCTAATGCCTGCAATCAATTTGAACATACATCGATCAATAGGCTCTTAAACGCAG
1 AGATGAAGACGCTAATGCCTGCAATAAATTTGAACATACATCGATCAAGAAACTCCTAAACGCAG
* *
7246868 AAAAAGAAGTGCTTTTATTAC-TT-TTTAGATCAAGTGCTTAGCAGAAACAATAAAATAAA-ATT
66 ---AAGAAGTGCTTTTATTACTTTGTTTAGATCAAATGATTAGCAGAAACAATAAAATAAATA-T
* * *
7246930 AGAAGACTTTACAGAGTCCAGACGCTAGTAAATACTC-AATCATTACCTAAAACGTTAAATCTTA
127 -G-AGACTTCACAGAGTCCAGACGCTAGTAAATACTCAAACCATTACCTAAAACGTTAAACCTTA
* * *
7246994 AACCTAATATA-CTCCTTTTTCGAGAAAAAACAACAAAAAACAAATTAAAAGATTG-ATTTGAAA
190 AACCTAATATATC-CCTTTTACGAGAAAAAA-AA-AAAAAACAAATCAAAAGATTGTATTTAAAA
** * *
7247057 ACGTAAAAAAAAATATTCCGCTTTTCCTTTTATCATAT
252 AAATAAAAAAAAA-ATT-CGCTTTTCCTCTCATCATAT
7247095 CGAGAAACAA
Statistics
Matches: 243, Mismatches: 38, Indels: 22
0.80 0.13 0.07
Matches are distributed among these distances:
290 1 0.00
291 44 0.18
292 55 0.23
293 108 0.44
294 18 0.07
296 17 0.07
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (288 bp):
AGATGAAGACGCTAATGCCTGCAATAAATTTGAACATACATCGATCAAGAAACTCCTAAACGCAG
AAGAAGTGCTTTTATTACTTTGTTTAGATCAAATGATTAGCAGAAACAATAAAATAAATATGAGA
CTTCACAGAGTCCAGACGCTAGTAAATACTCAAACCATTACCTAAAACGTTAAACCTTAAACCTA
ATATATCCCTTTTACGAGAAAAAAAAAAAAAACAAATCAAAAGATTGTATTTAAAAAAATAAAAA
AAAAATTCGCTTTTCCTCTCATCATATA
Found at i:7248017 original size:15 final size:16
Alignment explanation
Indices: 7247997--7248029 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
7247987 TTTATATTAG
7247997 TATTG-TATTTATAAT
1 TATTGATATTTATAAT
7248012 TATTGTATATTTATAAT
1 TATTG-ATATTTATAAT
7248029 T
1 T
7248030 GTAATCTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
17 11 0.69
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (16 bp):
TATTGATATTTATAAT
Found at i:7248489 original size:7 final size:7
Alignment explanation
Indices: 7248477--7248503 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
7248467 CATTCCATTG
7248477 TTTTTTC
1 TTTTTTC
7248484 TTTTTTC
1 TTTTTTC
7248491 TTTTTTC
1 TTTTTTC
7248498 TTTTTT
1 TTTTTT
7248504 TTTACAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTC
Found at i:7258882 original size:10 final size:10
Alignment explanation
Indices: 7258869--7258906 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
7258859 TGGAATATGG
*
7258869 ATAAATAAAA
1 ATAAATAAAT
7258879 ATAAATAAAT
1 ATAAATAAAT
7258889 A-AAATAGAAT
1 ATAAATA-AAT
7258899 ATAAATAA
1 ATAAATAA
7258907 GATAAAGATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 5 0.20
10 15 0.60
11 5 0.20
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (10 bp):
ATAAATAAAT
Found at i:7258888 original size:14 final size:16
Alignment explanation
Indices: 7258869--7258906 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
7258859 TGGAATATGG
*
7258869 ATAAATAAAA-ATAA-
1 ATAAATAAAATAGAAT
7258883 ATAAATAAAATAGAAT
1 ATAAATAAAATAGAAT
7258899 ATAAATAA
1 ATAAATAA
7258907 GATAAAGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.48
15 3 0.14
16 8 0.38
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (16 bp):
ATAAATAAAATAGAAT
Found at i:7266875 original size:12 final size:12
Alignment explanation
Indices: 7266853--7266888 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
7266843 AACAAAAAAT
7266853 TGAAGTAAATAAG
1 TGAA-TAAATAAG
7266866 TGAATAAATAAG
1 TGAATAAATAAG
*
7266878 TGAGTAAATAA
1 TGAATAAATAA
7266889 CTAAAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 18 0.82
13 4 0.18
ACGTcount: A:0.56, C:0.00, G:0.19, T:0.25
Consensus pattern (12 bp):
TGAATAAATAAG
Found at i:7267641 original size:33 final size:33
Alignment explanation
Indices: 7267562--7267740 Score: 145
Period size: 33 Copynumber: 5.5 Consensus size: 33
7267552 GTGGACTTTA
* *
7267562 TCTGTGTTTACTGTCCCAACGGACTATCTCTAT
1 TCTGTGTTTACTGTCCTAACAGACTATCTCTAT
* * * * *
7267595 TATATGTTAACTGTCCTAACAGACTATCTTTGT
1 TCTGTGTTTACTGTCCTAACAGACTATCTCTAT
***
7267628 TCTGTGTTTACTGTCCTAGTGGACTA--TCTAT
1 TCTGTGTTTACTGTCCTAACAGACTATCTCTAT
* * * *
7267659 TCTGCGTTTATTGTCCCAAC-GAACTATCTTTAT
1 TCTGTGTTTACTGTCCTAACAG-ACTATCTCTAT
* * *
7267692 TATGTGTTTATTGT-CTCAACAGATTATCTCT-T
1 TCTGTGTTTACTGTCCT-AACAGACTATCTCTAT
7267724 T-TGTGTTTACTGTCCTA
1 TCTGTGTTTACTGTCCTA
7267741 GCGAACTATT
Statistics
Matches: 113, Mismatches: 27, Indels: 14
0.73 0.18 0.09
Matches are distributed among these distances:
30 1 0.01
31 34 0.30
32 5 0.04
33 72 0.64
34 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.15, T:0.45
Consensus pattern (33 bp):
TCTGTGTTTACTGTCCTAACAGACTATCTCTAT
Found at i:7267713 original size:97 final size:92
Alignment explanation
Indices: 7267539--7267741 Score: 264
Period size: 97 Copynumber: 2.2 Consensus size: 92
7267529 ACTTACCGGG
* *
7267539 GTTTACTGTCCTAGTGGACTTTATCTGTGTTTACTGTCCCAACGGACTATCTCTATTATATGTTA
1 GTTTACTGTCCTAGTGGACTTTATCTGCGTTTACTGTCCCAACGAACTATCTCTATTATATGTTA
*
7267604 ACTGTCCTAACAGACTATCTTTGTTCTGT
66 ACTGTCCTAACAGACTATCTCT-TT-TGT
* * *
7267633 GTTTACTGTCCTAGTGGACTATCTATTCTGCGTTTATTGTCCCAACGAACTATCTTTATTATGTG
1 GTTTACTGTCCTAGTGGACT-T-TA-TCTGCGTTTACTGTCCCAACGAACTATCTCTATTATATG
* * *
7267698 TTTATTGT-CTCAACAGATTATCTCTTTTGT
63 TTAACTGTCCT-AACAGACTATCTCTTTTGT
7267728 GTTTACTGTCCTAG
1 GTTTACTGTCCTAG
7267742 CGAACTATTT
Statistics
Matches: 96, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
94 20 0.21
95 18 0.19
96 6 0.06
97 52 0.54
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (92 bp):
GTTTACTGTCCTAGTGGACTTTATCTGCGTTTACTGTCCCAACGAACTATCTCTATTATATGTTA
ACTGTCCTAACAGACTATCTCTTTTGT
Found at i:7272296 original size:32 final size:32
Alignment explanation
Indices: 7272251--7272319 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
7272241 GATCTACACA
7272251 GGCAATGTCAATCTGGGCGTGTGGGCCACATG
1 GGCAATGTCAATCTGGGCGTGTGGGCCACATG
*
7272283 GGCAATG-CTAATCTGGGTGTGTGGGCCACATG
1 GGCAATGTC-AATCTGGGCGTGTGGGCCACATG
7272315 GGCAA
1 GGCAA
7272320 ACCACACGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
31 1 0.03
32 34 0.97
ACGTcount: A:0.20, C:0.20, G:0.38, T:0.22
Consensus pattern (32 bp):
GGCAATGTCAATCTGGGCGTGTGGGCCACATG
Found at i:7273162 original size:11 final size:11
Alignment explanation
Indices: 7273146--7273192 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
7273136 CCACGTTAGC
7273146 AAATTATTTTA
1 AAATTATTTTA
*
7273157 AAATTATTGTA
1 AAATTATTTTA
*
7273168 AAA-AATTATTA
1 AAATTATT-TTA
*
7273179 AAATGATTTTA
1 AAATTATTTTA
7273190 AAA
1 AAA
7273193 CCATCATCGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
10 3 0.10
11 24 0.80
12 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (11 bp):
AAATTATTTTA
Found at i:7293330 original size:19 final size:19
Alignment explanation
Indices: 7293266--7293322 Score: 114
Period size: 19 Copynumber: 3.0 Consensus size: 19
7293256 TATCTAAACA
7293266 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
7293285 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
7293304 CCAGAAAAGTAAATCATTT
1 CCAGAAAAGTAAATCATTT
7293323 TCCAAAAATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (19 bp):
CCAGAAAAGTAAATCATTT
Found at i:7294281 original size:17 final size:17
Alignment explanation
Indices: 7294247--7294281 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
7294237 TCTGAATCCA
*
7294247 AAATAACATAATAAAAT
1 AAATAACATAACAAAAT
*
7294264 AAATAACATAACACAAT
1 AAATAACATAACAAAAT
7294281 A
1 A
7294282 TTTACCATGT
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:0.69, C:0.11, G:0.00, T:0.20
Consensus pattern (17 bp):
AAATAACATAACAAAAT
Found at i:7297720 original size:22 final size:22
Alignment explanation
Indices: 7297695--7297737 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
7297685 TAATAAAAAG
7297695 AATATCTACAAAATATTCCTAA
1 AATATCTACAAAATATTCCTAA
* *
7297717 AATATTTACAGAATATTCCTA
1 AATATCTACAAAATATTCCTA
7297738 CACTCCCCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (22 bp):
AATATCTACAAAATATTCCTAA
Found at i:7301449 original size:22 final size:22
Alignment explanation
Indices: 7301424--7301466 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
7301414 TAATAAAAAG
7301424 AATATCTACAAAATATTCCTAA
1 AATATCTACAAAATATTCCTAA
* *
7301446 AATATTTACAGAATATTCCTA
1 AATATCTACAAAATATTCCTA
7301467 CAAAGATGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (22 bp):
AATATCTACAAAATATTCCTAA
Found at i:7302976 original size:23 final size:23
Alignment explanation
Indices: 7302946--7302992 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
7302936 CCCTTGGAAA
7302946 TAAATAGTCTCTCTAATTTTAAT
1 TAAATAGTCTCTCTAATTTTAAT
7302969 TAAATAGTCTCTCTAATTTTAAT
1 TAAATAGTCTCTCTAATTTTAAT
7302992 T
1 T
7302993 TCAAACGATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.13, G:0.04, T:0.49
Consensus pattern (23 bp):
TAAATAGTCTCTCTAATTTTAAT
Found at i:7304045 original size:15 final size:15
Alignment explanation
Indices: 7304025--7304055 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7304015 ATTGAGAAAT
7304025 TTTTAAAAGTTCAAA
1 TTTTAAAAGTTCAAA
*
7304040 TTTTAAAAGTTGAAA
1 TTTTAAAAGTTCAAA
7304055 T
1 T
7304056 GTGGAAATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (15 bp):
TTTTAAAAGTTCAAA
Found at i:7304507 original size:22 final size:22
Alignment explanation
Indices: 7304468--7304520 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
7304458 AAATTTTGAG
*
7304468 AAATTATAAGTATTAAATTAAA-
1 AAATTATAAGTA-TAAAATAAAT
7304490 AAATTATTAAGTA-AAAATAAAT
1 AAATTA-TAAGTATAAAATAAAT
7304512 AAATATATA
1 AAAT-TATA
7304521 TATATATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 7 0.26
22 12 0.44
23 8 0.30
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (22 bp):
AAATTATAAGTATAAAATAAAT
Found at i:7304521 original size:2 final size:2
Alignment explanation
Indices: 7304514--7304543 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
7304504 AAATAAATAA
*
7304514 AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7304544 TGAGAGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7306092 original size:25 final size:25
Alignment explanation
Indices: 7306058--7306109 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
7306048 GTGAAGCGGT
7306058 GAAGTCTTTAGCTTACGCTTTCACC
1 GAAGTCTTTAGCTTACGCTTTCACC
7306083 GAAGTCTTTAGCTTACGCTTTCACC
1 GAAGTCTTTAGCTTACGCTTTCACC
7306108 GA
1 GA
7306110 GCCAGCATGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (25 bp):
GAAGTCTTTAGCTTACGCTTTCACC
Found at i:7317433 original size:2 final size:2
Alignment explanation
Indices: 7317426--7317458 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
7317416 TGTAAAAGAT
*
7317426 GA GA GA GA GA GA GA GA GA GA GA GA GC GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
7317459 CTGAGAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.45, C:0.03, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7319082 original size:31 final size:31
Alignment explanation
Indices: 7319047--7319106 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
7319037 TCTTGCACTA
7319047 AATCCAACCAAAAACAGCAAATATAGCATTG
1 AATCCAACCAAAAACAGCAAATATAGCATTG
* *
7319078 AATCCAACCAAATACAGCAAATGTAGCAT
1 AATCCAACCAAAAACAGCAAATATAGCAT
7319107 AAAAAAATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.50, C:0.23, G:0.10, T:0.17
Consensus pattern (31 bp):
AATCCAACCAAAAACAGCAAATATAGCATTG
Found at i:7319828 original size:13 final size:14
Alignment explanation
Indices: 7319802--7319830 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
7319792 ACTACCGACG
7319802 AATTAAACCATTAT
1 AATTAAACCATTAT
7319816 AATTAAA-CATTAT
1 AATTAAACCATTAT
7319829 AA
1 AA
7319831 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:7323751 original size:79 final size:80
Alignment explanation
Indices: 7323609--7323789 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
7323599 TACTCGTTCA
* **
7323609 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
7323674 TTAGTAAC-TCGCACC
66 ATAGTAACTTAGCA-C
**
7323689 AATGCCTTCGGG-CTTAGCCCGAA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGAATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
7323751 ATATGGTCACTTAGCAC
64 ATATAGTAACTTAGCAC
*
7323768 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
7323790 GACATCATTC
Statistics
Matches: 87, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
78 4 0.05
79 58 0.67
80 25 0.29
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:7323791 original size:40 final size:40
Alignment explanation
Indices: 7323588--7323791 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
7323578 CGGAATTTAA
** *
7323588 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
7323628 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
7323668 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
7323707 CC-GAAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
7323747 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
7323787 CCGGA
1 CCGGA
7323792 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 4 0.03
39 30 0.22
40 91 0.65
41 14 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:7331918 original size:79 final size:80
Alignment explanation
Indices: 7331750--7331934 Score: 189
Period size: 79 Copynumber: 2.3 Consensus size: 80
7331740 GCTACTCGTT
* * * *
7331750 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCAGGACTTAGCCCGGAAT-TAGTAACTCGCAAAAATGCCTTCGGGACTTAACCCG
* *
7331814 AATTTAGTAACTCGCAC
64 AATATAGTAACTAGCAC
* ** *
7331831 CAATGCCTTCAGG-CTTAGCCCGGAATTAGTAACTCGCAAAAATGCCTTC-GGATCTTAGTCCGG
1 CAAAGCCTTCAGGACTTAGCCCGGAATTAGTAACTCGCAAAAATGCCTTCGGGA-CTTAACCCGA
* *
7331894 ATATGGTCACTTAGCA-
65 ATATAGTAAC-TAGCAC
*
7331910 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCAGGACTTAGCCCGGA
7331935 CATCATTCGA
Statistics
Matches: 86, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
78 3 0.03
79 56 0.65
80 24 0.28
81 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (80 bp):
CAAAGCCTTCAGGACTTAGCCCGGAATTAGTAACTCGCAAAAATGCCTTCGGGACTTAACCCGAA
TATAGTAACTAGCAC
Found at i:7331934 original size:40 final size:40
Alignment explanation
Indices: 7331731--7331934 Score: 211
Period size: 40 Copynumber: 5.1 Consensus size: 40
7331721 CGAAATTTAA
** *
7331731 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
7331771 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
7331811 CCGAATTTAGTAACTCGCACCAATGCCTTCAGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
7331850 CCGGA-ATTAGTAACTCGCAAAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
7331890 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
7331930 CCGGA
1 CCGGA
7331935 CATCATTCGA
Statistics
Matches: 136, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 31 0.23
40 92 0.68
41 11 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:7336392 original size:9 final size:9
Alignment explanation
Indices: 7336378--7336498 Score: 63
Period size: 9 Copynumber: 13.4 Consensus size: 9
7336368 TAAGTATAAT
7336378 TAAGTTATG
1 TAAGTTATG
7336387 TAAGTTATG
1 TAAGTTATG
* * *
7336396 ATATGATATA
1 -TAAGTTATG
*
7336406 T-ATTTATG
1 TAAGTTATG
7336414 T-A-TTATG
1 TAAGTTATG
7336421 TAAGTTATG
1 TAAGTTATG
* *
7336430 CAAATTATG
1 TAAGTTATG
*
7336439 TAAGATATGATA
1 TAAG-T-T-ATG
*
7336451 TATATTTATG
1 TA-AGTTATG
7336461 T-A-TTATG
1 TAAGTTATG
*
7336468 TAAGTTTTG
1 TAAGTTATG
*
7336477 TAAATTATG
1 TAAGTTATG
*
7336486 TAAATTATG
1 TAAGTTATG
7336495 TAAG
1 TAAG
7336499 ATATAATATA
Statistics
Matches: 85, Mismatches: 18, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
7 12 0.14
8 8 0.09
9 47 0.55
10 10 0.12
11 2 0.02
12 5 0.06
13 1 0.01
ACGTcount: A:0.37, C:0.01, G:0.16, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:7336427 original size:43 final size:43
Alignment explanation
Indices: 7336378--7336485 Score: 153
Period size: 47 Copynumber: 2.4 Consensus size: 43
7336368 TAAGTATAAT
*
7336378 TAAGTTATGTAAGTTATGATATGATATATATTTATGTATTATG
1 TAAGTTATGTAAATTATGATATGATATATATTTATGTATTATG
*
7336421 TAAGTTATGCAAATTATGTAAGATATGATATATATTTATGTATTATG
1 TAAGTTATGTAAATTA--T--GATATGATATATATTTATGTATTATG
*
7336468 TAAGTTTTGTAAATTATG
1 TAAGTTATGTAAATTATG
7336486 TAAATTATGT
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
43 15 0.26
45 2 0.04
47 40 0.70
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.47
Consensus pattern (43 bp):
TAAGTTATGTAAATTATGATATGATATATATTTATGTATTATG
Found at i:7336455 original size:47 final size:47
Alignment explanation
Indices: 7336395--7336488 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
7336385 TGTAAGTTAT
7336395 GATATGATATATATTTATGTATTATGTAAGTTATGCAAATTATGTAA
1 GATATGATATATATTTATGTATTATGTAAGTTATGCAAATTATGTAA
* *
7336442 GATATGATATATATTTATGTATTATGTAAGTTTTGTAAATTATGTAA
1 GATATGATATATATTTATGTATTATGTAAGTTATGCAAATTATGTAA
7336489 ATTATGTAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.37, C:0.01, G:0.15, T:0.47
Consensus pattern (47 bp):
GATATGATATATATTTATGTATTATGTAAGTTATGCAAATTATGTAA
Found at i:7336893 original size:105 final size:105
Alignment explanation
Indices: 7336770--7337234 Score: 765
Period size: 105 Copynumber: 4.4 Consensus size: 105
7336760 CAATATTTAA
* *
7336770 AAATATAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGATAAAATATTTTTCGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG
7336835 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
66 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
*
7336875 AAATATAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG
*
7336940 ATTAAATTAAAATAAATAAAATAAAATATTTAAAATAAATCTTT
66 ATTAAATT---A-AAATAAAATAAAATATTTAAAATAAAACTTT
* *
7336984 AAATACAATTTAATTTAATGAGGTAATTTAAAAATAAAATAAAAGTAGATAAAATATTTTTCGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG
*
7337049 ATTAAATTAAATTAAAATAAAATATTTAAAATAAAACTTT
66 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
* * * *
7337089 AAATGCAATTTACTTTAATTAGCTAATTTAAAAATAAAATAAAAGTACACAAAATA-TTTTCGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG
7337153 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
66 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
*
7337193 AATTACAATTTAATTTAATTAGGTAA-TT-AAAATAAAATAAAA
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAA
7337235 CTTTAGCGGC
Statistics
Matches: 338, Mismatches: 18, Indels: 11
0.92 0.05 0.03
Matches are distributed among these distances:
102 14 0.04
103 2 0.01
104 69 0.20
105 151 0.45
106 1 0.00
108 1 0.00
109 100 0.30
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (105 bp):
AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTG
ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTT
Found at i:7337145 original size:214 final size:209
Alignment explanation
Indices: 7336770--7337234 Score: 781
Period size: 214 Copynumber: 2.2 Consensus size: 209
7336760 CAATATTTAA
*
7336770 AAATATAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGATAAAATATTTTTCGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGATAAAATATTTTTCGTG
* *
7336835 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTTAAATATAATTTAATTTAATTAGGTA
66 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGCTA
*
7336900 ATTTAAAAATAAAATAAAAGTAGACAAAATATTTTTCGTGATTAAATTAAAATAAATAAAATAAA
131 ATTTAAAAATAAAATAAAAGTACACAAAATA-TTTTCGTGATTAAATT---A-AAATAAAATAAA
*
7336965 ATATTTAAAATAAATCTTT
191 ATATTTAAAATAAAACTTT
*
7336984 AAATACAATTTAATTTAATGAGGTAATTTAAAAATAAAATAAAAGTAGATAAAATATTTTTCGTG
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGATAAAATATTTTTCGTG
* * *
7337049 ATTAAATTAAATTAAAATAAAATATTTAAAATAAAACTTTAAATGCAATTTACTTTAATTAGCTA
66 ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGCTA
7337114 ATTTAAAAATAAAATAAAAGTACACAAAATATTTTCGTGATTAAATTAAAATAAAATAAAATATT
131 ATTTAAAAATAAAATAAAAGTACACAAAATATTTTCGTGATTAAATTAAAATAAAATAAAATATT
7337179 TAAAATAAAACTTT
196 TAAAATAAAACTTT
*
7337193 AATTACAATTTAATTTAATTAGGTAA-TT-AAAATAAAATAAAA
1 AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAA
7337235 CTTTAGCGGC
Statistics
Matches: 240, Mismatches: 11, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
207 14 0.06
208 2 0.01
209 54 0.22
210 1 0.00
213 16 0.07
214 153 0.64
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (209 bp):
AAATACAATTTAATTTAATTAGGTAATTTAAAAATAAAATAAAAGTAGATAAAATATTTTTCGTG
ATTAAATTAAAATAAAATAAAATATTTAAAATAAAACTTTAAATACAATTTAATTTAATTAGCTA
ATTTAAAAATAAAATAAAAGTACACAAAATATTTTCGTGATTAAATTAAAATAAAATAAAATATT
TAAAATAAAACTTT
Found at i:7340796 original size:75 final size:74
Alignment explanation
Indices: 7340618--7340780 Score: 202
Period size: 74 Copynumber: 2.2 Consensus size: 74
7340608 TAATACTCGA
* * * * * *
7340618 TCTTTGGCGGCATTTTTAAAAGGCACCGCTAAAGCCACTAAAAGCTCAATAAAAAAGACGGCGTT
1 TCTTTTGCGGCGTTTCTAAAAAGCGCCGCTAAAGCCAATAAAAGCTCAATAAAAAAGACGGCGTT
*
7340683 TTGCAAAAT
66 GTGCAAAAT
* * *
7340692 TCTTTTGCGGCGTTTCTAAAAAGCGCCGCTAAAGCCAATAAAGGCTTAATAGAAAATGACGGCGT
1 TCTTTTGCGGCGTTTCTAAAAAGCGCCGCTAAAGCCAATAAAAGCTCAATA-AAAAAGACGGCGT
**
7340757 TGTGTTAAAT
65 TGTGCAAAAT
7340767 T-TTTTGCGGCGTTT
1 TCTTTTGCGGCGTTT
7340781 TTTGTAAAGC
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
74 56 0.74
75 20 0.26
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (74 bp):
TCTTTTGCGGCGTTTCTAAAAAGCGCCGCTAAAGCCAATAAAAGCTCAATAAAAAAGACGGCGTT
GTGCAAAAT
Found at i:7342313 original size:29 final size:29
Alignment explanation
Indices: 7342280--7342338 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
7342270 AACCACCATA
*
7342280 TTCAATTTTTAGAGGATAAGACAAGAGAG
1 TTCAATTTTTAGAGGATAAGACAAAAGAG
7342309 TTCAATTTTTAGAGGATAAGACAAAAGAG
1 TTCAATTTTTAGAGGATAAGACAAAAGAG
7342338 T
1 T
7342339 GCTGATAGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.29
Consensus pattern (29 bp):
TTCAATTTTTAGAGGATAAGACAAAAGAG
Found at i:7342483 original size:12 final size:13
Alignment explanation
Indices: 7342461--7342497 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
7342451 GATATGTTTG
7342461 TATTAATTTTTTA
1 TATTAATTTTTTA
7342474 TATT-ATTTTTTA
1 TATTAATTTTTTA
*
7342486 TATAAATTTTTT
1 TATTAATTTTTT
7342498 TAAAAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TATTAATTTTTTA
Found at i:7342689 original size:11 final size:11
Alignment explanation
Indices: 7342675--7342727 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
7342665 ATACAATAAC
7342675 AACAAAATAGT
1 AACAAAATAGT
* *
7342686 AACAACATAAT
1 AACAAAATAGT
***
7342697 AGTGAAATAGT
1 AACAAAATAGT
7342708 AACAAAATAGT
1 AACAAAATAGT
*
7342719 AAAAAAATA
1 AACAAAATA
7342728 ACAGCTTTTT
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.64, C:0.08, G:0.09, T:0.19
Consensus pattern (11 bp):
AACAAAATAGT
Found at i:7342726 original size:22 final size:22
Alignment explanation
Indices: 7342669--7342727 Score: 55
Period size: 22 Copynumber: 2.7 Consensus size: 22
7342659 AGAGTTATAC
* *
7342669 AATAACAACAAAATAGTAACAA
1 AATAATAAAAAAATAGTAACAA
* ***
7342691 CATAATAGTGAAATAGTAACAA
1 AATAATAAAAAAATAGTAACAA
*
7342713 AATAGTAAAAAAATA
1 AATAATAAAAAAATA
7342728 ACAGCTTTTT
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.64, C:0.08, G:0.08, T:0.19
Consensus pattern (22 bp):
AATAATAAAAAAATAGTAACAA
Found at i:7343994 original size:15 final size:16
Alignment explanation
Indices: 7343974--7344003 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7343964 TTATTTTGAT
7343974 TTTTTAAAAA-AATTA
1 TTTTTAAAAATAATTA
7343989 TTTTTAAAAATAATT
1 TTTTTAAAAATAATT
7344004 TAAAAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTTTAAAAATAATTA
Found at i:7344010 original size:13 final size:13
Alignment explanation
Indices: 7343976--7344014 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
7343966 ATTTTGATTT
*
7343976 TTTAAAAAAATTA
1 TTTAAAAAAATAA
**
7343989 TTTTTAAAAATAA
1 TTTAAAAAAATAA
7344002 TTTAAAAAAATAA
1 TTTAAAAAAATAA
7344015 AAAATCTAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTTAAAAAAATAA
Found at i:7344926 original size:25 final size:25
Alignment explanation
Indices: 7344893--7344941 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
7344883 TAGTTGATTT
* *
7344893 TTTTTTTTTTTTG-CTTCAATCAAG
1 TTTTTATTTTATGACTTCAATCAAG
7344917 TTTTTATTTTATGACTTCAATCAAG
1 TTTTTATTTTATGACTTCAATCAAG
7344942 CATGGACAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.22, C:0.12, G:0.08, T:0.57
Consensus pattern (25 bp):
TTTTTATTTTATGACTTCAATCAAG
Found at i:7345990 original size:21 final size:23
Alignment explanation
Indices: 7345947--7345992 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
7345937 GACTCGAAAG
*
7345947 TTTGATAAAATTTTTGAAGTTTT
1 TTTGATAAAATTTTTGAAATTTT
7345970 TTTG-TAAAATTTTT-AAATTTT
1 TTTGATAAAATTTTTGAAATTTT
7345991 TT
1 TT
7345993 ACATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.36
22 10 0.45
23 4 0.18
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (23 bp):
TTTGATAAAATTTTTGAAATTTT
Found at i:7349072 original size:46 final size:46
Alignment explanation
Indices: 7349019--7349384 Score: 446
Period size: 46 Copynumber: 7.9 Consensus size: 46
7349009 TTCTGAAATA
*
7349019 AAATGTGTAAGACCATGGTTGAAAGATACCTTGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
*
7349065 AAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* *
7349111 AAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* * *
7349157 AAATGTGTAAGACCATGGTTGAAAGATTCCATGGTAACATGATATA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
** *
7349203 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATGTGACATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* ** ** * *
7349249 AAAAGAATAAGACCATGGTTGAAAGATACCAATATGGCAATGTAACATG
1 AAATGTGTAAGACCATGGTTGAAAGATACC---ATGGCAACATGATATG
*** * *
7349298 AAATGAACAAGACCATGGTTGAAAGATACCATGGCAACCTGACA-G
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* * * * *
7349343 AAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 -AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
7349385 TCGAAGATAA
Statistics
Matches: 286, Mismatches: 30, Indels: 8
0.88 0.09 0.02
Matches are distributed among these distances:
45 1 0.00
46 242 0.85
49 43 0.15
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.23
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
Found at i:7350387 original size:15 final size:16
Alignment explanation
Indices: 7350367--7350399 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
7350357 ATATATATTT
7350367 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
7350382 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
7350399 T
1 T
7350400 ATAACCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:7350472 original size:21 final size:22
Alignment explanation
Indices: 7350446--7350532 Score: 69
Period size: 22 Copynumber: 4.1 Consensus size: 22
7350436 GTTTTAAGAA
*
7350446 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
7350467 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
7350489 GTT-TTTAAATATTTGATTTATTAT
1 -TTGTTTTAATATTT-ATTT-TTAT
*
7350513 AT-TTTTAA-A-TT-TTTTTAT
1 TTGTTTTAATATTTATTTTTAT
7350531 TT
1 TT
7350533 AATGAAATAA
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
18 5 0.09
19 3 0.05
21 12 0.22
22 20 0.36
23 11 0.20
24 4 0.07
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:7350517 original size:24 final size:22
Alignment explanation
Indices: 7350460--7350522 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
7350450 TTTAGTATTA
*
7350460 TTTTTAT-TTGTTTTAATATTTG
1 TTTTTATATT-TTTAAATATTTG
*
7350482 TTTTTATGTTTTTAAATATTTG
1 TTTTTATATTTTTAAATATTTG
7350504 ATTTATTATATTTTTAAAT
1 -TTT-TTATATTTTTAAAT
7350523 TTTTTTATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
22 18 0.50
23 5 0.14
24 13 0.36
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.68
Consensus pattern (22 bp):
TTTTTATATTTTTAAATATTTG
Found at i:7354289 original size:10 final size:9
Alignment explanation
Indices: 7354271--7354319 Score: 55
Period size: 10 Copynumber: 5.2 Consensus size: 9
7354261 AACATATTAG
7354271 AAAATTATA
1 AAAATTATA
7354280 AAAATATATA
1 AAAAT-TATA
7354290 GAAAATTATA
1 -AAAATTATA
7354300 AAAA-TATA
1 AAAATTATA
*
7354308 AACACTTATA
1 AA-AATTATA
7354318 AA
1 AA
7354320 GGTATTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
8 6 0.17
9 10 0.29
10 14 0.40
11 5 0.14
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (9 bp):
AAAATTATA
Found at i:7354319 original size:18 final size:20
Alignment explanation
Indices: 7354264--7354307 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
7354254 TTTTTAGAAC
7354264 ATAT-TAGAAAATTATAAAA
1 ATATATAGAAAATTATAAAA
7354283 ATATATAGAAAATTATAAAA
1 ATATATAGAAAATTATAAAA
7354303 ATATA
1 ATATA
7354308 AACACTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (20 bp):
ATATATAGAAAATTATAAAA
Found at i:7354429 original size:19 final size:18
Alignment explanation
Indices: 7354402--7354462 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 18
7354392 AAAATAGAAC
*
7354402 TTATAAAAAAGATATAAAA
1 TTATTAAAAAGATA-AAAA
*
7354421 TTATTAAAAATATAAAAA
1 TTATTAAAAAGATAAAAA
* *
7354439 CTAATAAAAAATGTATAAAAA
1 -TTATTAAAAA-G-ATAAAAA
7354460 TTA
1 TTA
7354463 AAATTTAACC
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
18 4 0.12
19 20 0.61
20 2 0.06
21 7 0.21
ACGTcount: A:0.66, C:0.02, G:0.03, T:0.30
Consensus pattern (18 bp):
TTATTAAAAAGATAAAAA
Found at i:7354958 original size:17 final size:17
Alignment explanation
Indices: 7354891--7354969 Score: 63
Period size: 17 Copynumber: 4.5 Consensus size: 17
7354881 TAAGGGGATT
*
7354891 TTTCTGATTTTTTATAAAA
1 TTTCT-ATTTTTT-TATAA
7354910 TTT-TA-TTTTTTATAA
1 TTTCTATTTTTTTATAA
*
7354925 CTTTTCTACTATTTTTATAA
1 --TTTCTA-TTTTTTTATAA
*
7354945 TTTCTATTTTTTTATGA
1 TTTCTATTTTTTTATAA
*
7354962 TTTTTATT
1 TTTCTATT
7354970 GTTGTTATTT
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
15 4 0.08
16 5 0.10
17 20 0.40
18 9 0.18
19 3 0.06
20 9 0.18
ACGTcount: A:0.24, C:0.06, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTCTATTTTTTTATAA
Found at i:7385761 original size:71 final size:74
Alignment explanation
Indices: 7385603--7385786 Score: 230
Period size: 71 Copynumber: 2.5 Consensus size: 74
7385593 AAAATAAATA
* * * *
7385603 ATTAAATCTCAAAATTTAACACATTGGATAGATAAAAACGAGTAATATGGGGGGTTTGATGGATT
1 ATTAAATCTCAAAATTTAACACAATAGATAGATCAAAAC-AGTAATATGGGAGGTTTGATGGATT
*
7385668 TAACCGCTCC
65 TAACCGCTAC
* * * *
7385678 ATAAAATTTCAAAATTTAACACAATAGATAGATCAAAAC-G-AATAT-TGAGGTTTGGTGGATTT
1 ATTAAATCTCAAAATTTAACACAATAGATAGATCAAAACAGTAATATGGGAGGTTTGATGGATTT
* *
7385740 AACTGGTAC
66 AACCGCTAC
*
7385749 ATTAAATCTCAAAATTTAACACAATAGATAAATCAAAA
1 ATTAAATCTCAAAATTTAACACAATAGATAGATCAAAA
7385787 TGAGTACTAT
Statistics
Matches: 95, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
71 55 0.58
72 5 0.05
73 1 0.01
75 34 0.36
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.29
Consensus pattern (74 bp):
ATTAAATCTCAAAATTTAACACAATAGATAGATCAAAACAGTAATATGGGAGGTTTGATGGATTT
AACCGCTAC
Found at i:7385830 original size:54 final size:54
Alignment explanation
Indices: 7385748--7385851 Score: 163
Period size: 54 Copynumber: 1.9 Consensus size: 54
7385738 TTAACTGGTA
* * *
7385748 CATTAAATCTCAAAATTTAACACAATAGATAAATCAAAATGAGTACTATAGCTT
1 CATTAAATCTCAAAATTTAACACAATAGATAAACCAAAACGAGTAATATAGCTT
* *
7385802 CATTAAATCTCAATATTTAACACAATAGATAGACCAAAACGAGTAATATA
1 CATTAAATCTCAAAATTTAACACAATAGATAAACCAAAACGAGTAATATA
7385852 TGGGTTTGGT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 45 1.00
ACGTcount: A:0.49, C:0.15, G:0.08, T:0.28
Consensus pattern (54 bp):
CATTAAATCTCAAAATTTAACACAATAGATAAACCAAAACGAGTAATATAGCTT
Found at i:7385994 original size:127 final size:127
Alignment explanation
Indices: 7385675--7386009 Score: 383
Period size: 127 Copynumber: 2.6 Consensus size: 127
7385665 ATTTAACCGC
* * * *
7385675 TCCATAAAATTTCAAAATTTAACACAATAGATAGATCAAAACGAAT-AT-TGAGGTTTGGTGGAT
1 TCCATTAAATATCAATATTTAACACAATAGATAGATCAAAACGAGTAATATGAGGTTTGGTGGAT
* * * * * * *
7385738 TTAACTGGTACATTAAATCTCAAAATTTAACACAATAGATAAATCAAAATGAGTACTATAGC
66 TTAATTGCTCCATTAAATCTCAAAATTTAACAAAATAGATAAATCAAAACGAGTAATATAGA
* * *
7385800 TTCATTAAATCTCAATATTTAACACAATAGATAGACCAAAACGAGTAATAT-ATGGGTTTGGTGG
1 TCCATTAAATATCAATATTTAACACAATAGATAGATCAAAACGAGTAATATGA--GGTTTGGTGG
*
7385864 ATTTAATTGCTCCATTAAATCTCAAATTTTAACAAAATAGATAAATC-AAACGAGTAATAT-GAA
64 ATTTAATTGCTCCATTAAATCTCAAAATTTAACAAAATAGATAAATCAAAACGAGTAATATAG-A
* * * * * * * *
7385927 TCCATTAAATATTAGTATTTAACACAATAAATATATCAAAATGAGTAATATGAGAATTTGATAGA
1 TCCATTAAATATCAATATTTAACACAATAGATAGATCAAAACGAGTAATATGAG-GTTTGGTGGA
*
7385992 TTTAATCGCTCCATTAAA
65 TTTAATTGCTCCATTAAA
7386010 ATTTGATTTG
Statistics
Matches: 177, Mismatches: 26, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
125 40 0.23
126 5 0.03
127 79 0.45
128 53 0.30
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (127 bp):
TCCATTAAATATCAATATTTAACACAATAGATAGATCAAAACGAGTAATATGAGGTTTGGTGGAT
TTAATTGCTCCATTAAATCTCAAAATTTAACAAAATAGATAAATCAAAACGAGTAATATAGA
Found at i:7387665 original size:20 final size:17
Alignment explanation
Indices: 7387624--7387658 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
7387614 TTTTAAAATG
7387624 TAAATTTAGTAACATGA
1 TAAATTTAGTAACATGA
7387641 TAAATTTAGTAACATGA
1 TAAATTTAGTAACATGA
7387658 T
1 T
7387659 GAAAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (17 bp):
TAAATTTAGTAACATGA
Found at i:7390474 original size:80 final size:81
Alignment explanation
Indices: 7390367--7390526 Score: 279
Period size: 80 Copynumber: 2.0 Consensus size: 81
7390357 ACACACGCCC
*
7390367 GTGTGCTCGACCGTGTGGGGGAAAATTAGGCTTGGTTTAAGCCATATTTCTCATCCACATCAAGC
1 GTGTGCTCGACCGTGTGGGGGAAAATTAGGCTTGGTTTAAGCCACATTTCTCATCCACATCAAGC
7390432 ATACCTAAGCCACAAT
66 ATACCTAAGCCACAAT
*
7390448 GTGT-CTCGACCGTGTAGGGGG-TAATTAGGCTTGGTTTAAGCCACATTTCTCATCCACATCAAG
1 GTGTGCTCGACCGTGT-GGGGGAAAATTAGGCTTGGTTTAAGCCACATTTCTCATCCACATCAAG
7390511 CATACCTAAGCCACAA
65 CATACCTAAGCCACAA
7390527 CATTTAATAC
Statistics
Matches: 76, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
80 67 0.88
81 9 0.12
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (81 bp):
GTGTGCTCGACCGTGTGGGGGAAAATTAGGCTTGGTTTAAGCCACATTTCTCATCCACATCAAGC
ATACCTAAGCCACAAT
Found at i:7391499 original size:43 final size:42
Alignment explanation
Indices: 7391452--7391558 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 42
7391442 TATCCCAGAT
* *
7391452 ATGGTTTTACATGCTATCACACATTGATGCCAATGTCCCAAAC
1 ATGGTTTTACATG-TATCACACAATGATACCAATGTCCCAAAC
* * * *
7391495 ATGGTTTTACACGATATCATATAATGATACCAATGTCCCAGAC
1 ATGGTTTTACATG-TATCACACAATGATACCAATGTCCCAAAC
*
7391538 ATGGTCTTACATGTAATCACA
1 ATGGTTTTACATGT-ATCACA
7391559 TCTCTGTAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 1 0.02
43 52 0.98
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (42 bp):
ATGGTTTTACATGTATCACACAATGATACCAATGTCCCAAAC
Found at i:7394059 original size:11 final size:10
Alignment explanation
Indices: 7394043--7394113 Score: 52
Period size: 11 Copynumber: 6.6 Consensus size: 10
7394033 GTCTTTCCCC
7394043 TTTTCTTTCCT
1 TTTTCTTT-CT
7394054 TTTTCTTTCT
1 TTTTCTTTCT
*
7394064 TTTTCCCTTCT
1 TTTT-CTTTCT
* *
7394075 GTTTCGTTTAT
1 TTTTC-TTTCT
7394086 TCTTTCTTTCT
1 T-TTTCTTTCT
*
7394097 TTTCTATTTCT
1 TTT-TCTTTCT
*
7394108 ATTTCT
1 TTTTCT
7394114 ATTTCTTTTA
Statistics
Matches: 47, Mismatches: 9, Indels: 9
0.72 0.14 0.14
Matches are distributed among these distances:
10 11 0.23
11 32 0.68
12 4 0.09
ACGTcount: A:0.04, C:0.23, G:0.03, T:0.70
Consensus pattern (10 bp):
TTTTCTTTCT
Found at i:7394068 original size:29 final size:29
Alignment explanation
Indices: 7394040--7394094 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
7394030 TTGGTCTTTC
*
7394040 CCCTTTTCTTTCCTTT-TTCTTTCTTTTT
1 CCCTTCTCTTTCCTTTATTCTTTCTTTTT
* *
7394068 CCCTTCTGTTTCGTTTATTCTTTCTTT
1 CCCTTCTCTTTCCTTTATTCTTTCTTT
7394095 CTTTTCTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 13 0.57
29 10 0.43
ACGTcount: A:0.02, C:0.27, G:0.04, T:0.67
Consensus pattern (29 bp):
CCCTTCTCTTTCCTTTATTCTTTCTTTTT
Found at i:7394114 original size:12 final size:11
Alignment explanation
Indices: 7394092--7394122 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
7394082 TTATTCTTTC
7394092 TTTCTTTTCTA
1 TTTCTTTTCTA
7394103 TTTCTATTTCTA
1 TTTCT-TTTCTA
7394115 TTTCTTTT
1 TTTCTTTT
7394123 ATTTTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTCTTTTCTA
Found at i:7394411 original size:13 final size:14
Alignment explanation
Indices: 7394393--7394421 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
7394383 AACTAACTTC
7394393 ATAAATATTT-CTA
1 ATAAATATTTACTA
7394406 ATAAATATTTACTA
1 ATAAATATTTACTA
7394420 AT
1 AT
7394422 CTAATTTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (14 bp):
ATAAATATTTACTA
Found at i:7395895 original size:15 final size:15
Alignment explanation
Indices: 7395850--7395896 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
7395840 TGTAATTTCT
*
7395850 TTTTTAAATGTG-T-
1 TTTTTAAATTTGATA
* *
7395863 TTTTTAAATTTAAAA
1 TTTTTAAATTTGATA
7395878 TTTTTAAATTTGATA
1 TTTTTAAATTTGATA
7395893 TTTT
1 TTTT
7395897 ATTTTGGTGG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
13 10 0.37
15 17 0.63
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (15 bp):
TTTTTAAATTTGATA
Found at i:7399682 original size:8 final size:8
Alignment explanation
Indices: 7399640--7399664 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
7399630 ATATAGACTA
7399640 AATAAAAT
1 AATAAAAT
7399648 AATAAAAT
1 AATAAAAT
7399656 AATAAAAT
1 AATAAAAT
7399664 A
1 A
7399665 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:7399688 original size:29 final size:31
Alignment explanation
Indices: 7399637--7399715 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 31
7399627 TATATATAGA
*
7399637 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* *
7399666 CTTATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAATTAT
7399697 CTAATT-AAATAATAAAATA
1 CTAATTAAAATAATAAAATA
7399716 TCACCAACAT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
28 6 0.15
29 14 0.34
30 7 0.17
31 14 0.34
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:7407555 original size:50 final size:50
Alignment explanation
Indices: 7407431--7407679 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
7407421 GATAATAACA
* * ** * *
7407431 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
7407482 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
7407532 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
7407582 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCAGGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
7407637 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
7407680 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:7407609 original size:100 final size:104
Alignment explanation
Indices: 7407430--7407679 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
7407420 TGATAATAAC
**
7407430 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
7407495 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCGATCTTAAGG
* *
7407532 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
7407595 TCCCAGACATGGTCTTACAGGGGACCTCTCAGGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTC--GATCTTAAGG
* *
7407637 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
7407680 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCGATCTTAAGG
Found at i:7407795 original size:13 final size:13
Alignment explanation
Indices: 7407774--7407805 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
7407764 GCTTGGATCA
*
7407774 TCATCAAATAAAT
1 TCATAAAATAAAT
7407787 TCATAAAATAAAT
1 TCATAAAATAAAT
7407800 TCATAA
1 TCATAA
7407806 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:7417472 original size:24 final size:25
Alignment explanation
Indices: 7417445--7417493 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
7417435 GCTTTTTTAT
*
7417445 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
7417469 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
7417494 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:7417486 original size:25 final size:23
Alignment explanation
Indices: 7417457--7417521 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 23
7417447 AATAAAAAAC
*
7417457 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
7417482 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
7417503 -TTAAAACA-AAAAACAAATA
1 TTTAAAACATAAAAACAAATA
7417522 AAAAATAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
19 10 0.26
20 8 0.21
21 1 0.03
23 5 0.13
24 3 0.08
25 11 0.29
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:7417516 original size:19 final size:20
Alignment explanation
Indices: 7417483--7417521 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
7417473 TCAAATACAT
7417483 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
7417503 TTAAAACA-AAAAACAAATA
1 TTAAAACATAAAAACAAATA
7417522 AAAAATAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.18
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:7419331 original size:3 final size:3
Alignment explanation
Indices: 7419323--7419368 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
7419313 TTGAATTATT
*
7419323 TCA TCA TCA TCA TCA TCA CCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
7419369 TATTATTATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.33, C:0.35, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:7419496 original size:26 final size:25
Alignment explanation
Indices: 7419467--7419522 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 25
7419457 TTATTTTCTT
7419467 TATTTTATTACTATTAACATTAGTAC
1 TATTTTATTACTATT-ACATTAGTAC
* *
7419493 TATTTTTATTACTATTACTTTATTAC
1 TA-TTTTATTACTATTACATTAGTAC
7419519 TATT
1 TATT
7419523 ACTACTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 2 0.07
26 12 0.44
27 13 0.48
ACGTcount: A:0.30, C:0.11, G:0.02, T:0.57
Consensus pattern (25 bp):
TATTTTATTACTATTACATTAGTAC
Found at i:7419499 original size:41 final size:41
Alignment explanation
Indices: 7419444--7419523 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
7419434 CATCATTATT
* * *
7419444 ATTATTACAATTTTTATTTTCT-TTATTTTATTACTATTAAC
1 ATTAGTACAATTTTTA-TTACTATTACTTTATTACTATTAAC
*
7419485 ATTAGTACTATTTTTATTACTATTACTTTATTACTATTA
1 ATTAGTACAATTTTTATTACTATTACTTTATTACTATTA
7419524 CTACTAATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 4 0.12
41 30 0.88
ACGTcount: A:0.30, C:0.10, G:0.01, T:0.59
Consensus pattern (41 bp):
ATTAGTACAATTTTTATTACTATTACTTTATTACTATTAAC
Found at i:7419560 original size:20 final size:20
Alignment explanation
Indices: 7419535--7419574 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7419525 TACTAATATC
*
7419535 ACTATTATCATTTTTTTATT
1 ACTATTATCATTTTATTATT
*
7419555 ACTATTATTATTTTATTATT
1 ACTATTATCATTTTATTATT
7419575 TTTTTTACTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (20 bp):
ACTATTATCATTTTATTATT
Found at i:7419597 original size:27 final size:27
Alignment explanation
Indices: 7419537--7419600 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
7419527 CTAATATCAC
* *
7419537 TATTATCATTTTTTTATTACTATTATTA
1 TATTATTA-TTTTTTATTACTATTAATA
*
7419565 TTTTATTATTTTTT-TTACTATCTAATA
1 TATTATTATTTTTTATTACTAT-TAATA
7419592 TATTATTAT
1 TATTATTAT
7419601 ACCTTTTATC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 7 0.23
27 18 0.58
28 6 0.19
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (27 bp):
TATTATTATTTTTTATTACTATTAATA
Found at i:7422462 original size:44 final size:44
Alignment explanation
Indices: 7422399--7422490 Score: 175
Period size: 44 Copynumber: 2.1 Consensus size: 44
7422389 TTTGGTTAGT
7422399 ATACATGGGGAATAACTACAAAAAGAAAGTTCGCGAAATATCAA
1 ATACATGGGGAATAACTACAAAAAGAAAGTTCGCGAAATATCAA
*
7422443 ATACATGGGGAATAACTACAAAAAGAAAGTTCGCGAGATATCAA
1 ATACATGGGGAATAACTACAAAAAGAAAGTTCGCGAAATATCAA
7422487 ATAC
1 ATAC
7422491 CTGGAACCAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.18
Consensus pattern (44 bp):
ATACATGGGGAATAACTACAAAAAGAAAGTTCGCGAAATATCAA
Found at i:7431784 original size:87 final size:87
Alignment explanation
Indices: 7431528--7432170 Score: 941
Period size: 87 Copynumber: 7.4 Consensus size: 87
7431518 GCATTCGTAA
* * * * * * ** *
7431528 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAAATCTTGTCTCCCTAAACAATA
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCT-GAATTTACAGATCTTATCACCCTAAGTAGTA
** ** *
7431593 GTGG-AGTAGATCGAAGACGAAGG
65 G-GGAAACAGATCGAAGGTGATGG
*
7431616 GCCTT-AACTCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCACCCTAAGTAGT
1 GCCTTAAAC-CCCTAAGCAGTAGGGTAACAGGCTG-AATTTACAGATCTTATCACCCTAAGTAGT
7431680 AGGGAAACAGATCGAAGGTGATGG
64 AGGGAAACAGATCGAAGGTGATGG
7431704 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTAG
* *
7431769 GGAAACAGATTGAAGGTGATAG
66 GGAAACAGATCGAAGGTGATGG
* *
7431791 ACCTTAAACCCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTA
1 GCCTTAAA-CCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTA
*
7431856 GGGAAACAGATCGAAGGTAATGG
65 GGGAAACAGATCGAAGGTGATGG
* * *
7431879 GCCTTAAACCCCTAAGCAGTAGGATAACAGGCTGAATTTACGGATCTTATCACCCTAAGCAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTAG
* * *
7431944 GCAAACAGATCAAAAGTGATGG
66 GGAAACAGATCGAAGGTGATGG
7431966 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTAG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTAG
7432031 GGAAACAGATCGAAGGTGATGG
66 GGAAACAGATCGAAGGTGATGG
*
7432053 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATTTTATCACCCTAAGTAGTA-
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTAG
* *
7432117 GGAGAACAGATCAAAGATGATGG
66 GGA-AACAGATCGAAGGTGATGG
*
7432140 GCCTTAAACCCCTAAGCAGTAGGTTAACAGG
1 GCCTTAAACCCCTAAGCAGTAGGGTAACAGG
7432171 TTGGAAATCA
Statistics
Matches: 509, Mismatches: 40, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
86 3 0.01
87 323 0.63
88 180 0.35
89 3 0.01
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (87 bp):
GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTAG
GGAAACAGATCGAAGGTGATGG
Found at i:7432125 original size:43 final size:43
Alignment explanation
Indices: 7431625--7432118 Score: 293
Period size: 44 Copynumber: 11.3 Consensus size: 43
7431615 GGCCTTAACT
*
7431625 CCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTATCA
1 CCCTAAGCAGTAGGGTAACAGGCTG-AATTTACAGATCTTATCA
* * * * * ** ** *
7431669 CCCTAAGTAGTAGGGAAACA-GATCGAAGGTGATGGGCCTTA-AA
1 CCCTAAGCAGTAGGGTAACAGGCT-GAA-TTTACAGATCTTATCA
7431712 CCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCA
1 -CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCA
* * ** * * * * * *
7431756 CCCTAAGTAGTAGGGAAACAGATTGAAGGTGATAGACCTTAAACC
1 CCCTAAGCAGTAGGGTAACAGGCTGAA-TTTACAGATCTT-ATCA
*
7431801 CCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTATCA
1 CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCA
* * * ** ** *
7431844 CCCTAAGTAGTAGGGAAACA-GATCGAAGGTA-ATGGGCCTTA-AA
1 CCCTAAGCAGTAGGGTAACAGGCT-GAATTTACA--GATCTTATCA
* *
7431887 CCCCTAAGCAGTAGGATAACAGGCTGAATTTACGGATCTTATCA
1 -CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCA
** * ** * * ** ** *
7431931 CCCTAAGCAGTAGGCAAACAGATCAAAAGTGATGGGCCTTA-AA
1 CCCTAAGCAGTAGGGTAACAG-GCTGAATTTACAGATCTTATCA
7431974 CCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCA
1 -CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCA
* * * * * ** ** *
7432018 CCCTAAGTAGTAGGGAAACA-GATCGAAGGTGATGGGCCTTA-AA
1 CCCTAAGCAGTAGGGTAACAGGCT-GAA-TTTACAGATCTTATCA
*
7432061 CCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATTTTATCA
1 -CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCA
*
7432105 CCCTAAGTAGTAGG
1 CCCTAAGCAGTAGG
7432119 AGAACAGATC
Statistics
Matches: 327, Mismatches: 101, Indels: 45
0.69 0.21 0.10
Matches are distributed among these distances:
42 5 0.02
43 138 0.42
44 152 0.46
45 32 0.10
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (43 bp):
CCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCA
Found at i:7432169 original size:44 final size:43
Alignment explanation
Indices: 7431669--7432169 Score: 187
Period size: 44 Copynumber: 11.5 Consensus size: 43
7431659 GATCTTATCA
* * *
7431669 CCCTAAGTAGTAGGGAAACAGATCGAAGGTGATGGGCCTTAAAC
1 CCCTAAGCAGTAGGGTAACAGATCGAA-ATGATGGGCCTTAAAC
* * * ** ** *
7431713 CCCTAAGCAGTAGGGTAACAG-GCTGAATTTACAGATCTT-ATC
1 CCCTAAGCAGTAGGGTAACAGATC-GAAATGATGGGCCTTAAAC
* * * * * *
7431755 ACCCTAAGTAGTAGGGAAACAGATTGAAGGTGATAGACCTTAAACC
1 -CCCTAAGCAGTAGGGTAACAGATCGAA-ATGATGGGCCTTAAA-C
* * * * ** ** *
7431801 CCCTAAGTAGTAGGGTAACAG-GCTGAATTTACAGATCTT-ATC
1 CCCTAAGCAGTAGGGTAACAGATC-GAAATGATGGGCCTTAAAC
* * * *
7431843 ACCCTAAGTAGTAGGGAAACAGATCGAAGGTAATGGGCCTTAAAC
1 -CCCTAAGCAGTAGGGTAACAGATCGAA-ATGATGGGCCTTAAAC
* * * * * ** *
7431888 CCCTAAGCAGTAGGATAACAG-GCTGAATTTACGGATCTT-ATC
1 CCCTAAGCAGTAGGGTAACAGATC-GAAATGATGGGCCTTAAAC
** *
7431930 ACCCTAAGCAGTAGGCAAACAGATCAAAAGTGATGGGCCTTAAAC
1 -CCCTAAGCAGTAGGGTAACAGATCGAAA-TGATGGGCCTTAAAC
* * * ** ** *
7431975 CCCTAAGCAGTAGGGTAACAG-GCTGAATTTACAGATCTT-ATC
1 CCCTAAGCAGTAGGGTAACAGATC-GAAATGATGGGCCTTAAAC
* * *
7432017 ACCCTAAGTAGTAGGGAAACAGATCGAAGGTGATGGGCCTTAAAC
1 -CCCTAAGCAGTAGGGTAACAGATCGAA-ATGATGGGCCTTAAAC
* * * ** ** * *
7432062 CCCTAAGCAGTAGGGTAACAG-GCTGAATTTA-CAGATTTTATC
1 CCCTAAGCAGTAGGGTAACAGATC-GAAATGATGGGCCTTAAAC
* *
7432104 ACCCTAAGTAGTAGGAG-AACAGATCAAAGATGATGGGCCTTAAAC
1 -CCCTAAGCAGTAGG-GTAACAGATCGAA-ATGATGGGCCTTAAAC
*
7432149 CCCTAAGCAGTAGGTTAACAG
1 CCCTAAGCAGTAGGGTAACAG
7432170 GTTGGAAATC
Statistics
Matches: 328, Mismatches: 101, Indels: 56
0.68 0.21 0.12
Matches are distributed among these distances:
42 12 0.04
43 134 0.41
44 146 0.45
45 35 0.11
46 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.22
Consensus pattern (43 bp):
CCCTAAGCAGTAGGGTAACAGATCGAAATGATGGGCCTTAAAC
Found at i:7432254 original size:262 final size:259
Alignment explanation
Indices: 7431529--7432191 Score: 870
Period size: 262 Copynumber: 2.5 Consensus size: 259
7431519 CATTCGTAAG
* * * * * ** *
7431529 CCTT-AACCCCCTAAGCAGTAGGGTAACAGGCTAAAAATTACAAATCTTGTCTCCCTAAACAATA
1 CCTTAAACCCCCTAAGCAGTAGGGTAACAGGCT-GAATTTACAGATCTTATCACCCTAAGTAGTA
** * * *
7431593 GTGG-AGTAGATCGAAGACGAA-GGGCCTT-AACTCCCTAAGCAGTAGGGTAACAGGCTGAAAAT
65 G-GGAAACAGATCAAAGA-TAATGGGCCTTAAAC-CCCTAAGCAGTAGGATAACAGGCTG-AAAT
* * * * * *
7431655 TACAGATCTTATCACCCTAAGTAGTAGGGAAACAGATCGAAGGTGATGGGCCTTAAACCCCTAAG
126 CAAAGATCTTATCACCCTAAGCAGTAGGCAAACAGATCAAAAGTGAT--G-CTTAAACCCCTAAG
*
7431720 CAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTAGGGAAACAGATTGAAGG
188 CAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTAGGGAAACAGATCGAAGG
7431785 TGATAGA
253 TGATAGA
*
7431792 CCTTAAACCCCCTAAGTAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTAG
1 CCTTAAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTAG
* * * * **
7431857 GGAAACAGATCGAAGGTAATGGGCCTTAAACCCCTAAGCAGTAGGATAACAGGCTGAATTTACGG
66 GGAAACAGATCAAAGATAATGGGCCTTAAACCCCTAAGCAGTAGGATAACAGGCTGAAATCAAAG
7431922 ATCTTATCACCCTAAGCAGTAGGCAAACAGATCAAAAGTGATGGGCCTTAAACCCCTAAGCAGTA
131 ATCTTATCACCCTAAGCAGTAGGCAAACAGATCAAAAGTGAT--G-CTTAAACCCCTAAGCAGTA
*
7431987 GGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTAGGGAAACAGATCGAAGGTGATG
193 GGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTAGGGAAACAGATCGAAGGTGATA
*
7432052 GG
258 GA
*
7432054 CCTTAAA-CCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATTTTATCACCCTAAGTAGTA-
1 CCTTAAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTAG
* * *
7432117 GGAGAACAGATCAAAGATGATGGGCCTTAAACCCCTAAGCAGTAGGTTAACAGGTTGGAAATCAA
66 GGA-AACAGATCAAAGATAATGGGCCTTAAACCCCTAAGCAGTAGGATAACAGGCT-GAAATCAA
7432182 AGATCTTATC
129 AGATCTTATC
7432192 TCTCTGAGTA
Statistics
Matches: 360, Mismatches: 34, Indels: 13
0.88 0.08 0.03
Matches are distributed among these distances:
260 3 0.01
261 101 0.28
262 157 0.44
263 69 0.19
264 30 0.08
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (259 bp):
CCTTAAACCCCCTAAGCAGTAGGGTAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTAG
GGAAACAGATCAAAGATAATGGGCCTTAAACCCCTAAGCAGTAGGATAACAGGCTGAAATCAAAG
ATCTTATCACCCTAAGCAGTAGGCAAACAGATCAAAAGTGATGCTTAAACCCCTAAGCAGTAGGG
TAACAGGCTGAATTTACAGATCTTATCACCCTAAGTAGTAGGGAAACAGATCGAAGGTGATAGA
Found at i:7433939 original size:18 final size:17
Alignment explanation
Indices: 7433916--7433958 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
7433906 AAATACTATT
*
7433916 ATTATTTCTACTATTGTC
1 ATTATTTCTACTATTG-A
* *
7433934 ATTATTACTATTATTGA
1 ATTATTTCTACTATTGA
7433951 ATTATTTC
1 ATTATTTC
7433959 ATCATCATCA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.28, C:0.12, G:0.05, T:0.56
Consensus pattern (17 bp):
ATTATTTCTACTATTGA
Found at i:7434082 original size:3 final size:3
Alignment explanation
Indices: 7434045--7434347 Score: 78
Period size: 3 Copynumber: 103.3 Consensus size: 3
7434035 TTTCATATCG
* * *
7434045 TTA TCA TTA -TA TTA -TA TATA TTA TGTA TATA TTA TTA TT- TGCA TCA
1 TTA TTA TTA TTA TTA TTA T-TA TTA T-TA T-TA TTA TTA TTA T-TA TTA
** * * *
7434091 TTA TTA TTA TTA CAA TTT TTA TT- TTCT TTA TT- TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
** * * * * * * * *
7434135 ACA TTA GTA CTA TTT TTA TTA CTA TTA CT- TTA TTA CTA TTA CTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * * * * *
7434182 ACA TCA CTA TTA TCA TT- TTT TTA TTA TTA TTT TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
7434228 TTT TTT TTA CTA TCTA ATA -TA TTA TTA -TA CCTTA TTA TTA TTA TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA --TTA TTA TTA TTA TTA
* * * * *
7434274 -TA TT- TTC TT- TT- TTA TTA CTA TTA CTA TT- TTA TTT TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
7434317 CTA CTA TTA TTA TTA TCA ATA TTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
7434348 CACTATCGTT
Statistics
Matches: 217, Mismatches: 62, Indels: 42
0.68 0.19 0.13
Matches are distributed among these distances:
2 28 0.13
3 173 0.80
4 14 0.06
5 2 0.01
ACGTcount: A:0.30, C:0.09, G:0.01, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:7434151 original size:41 final size:41
Alignment explanation
Indices: 7434096--7434175 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
7434086 CATCATTATT
* * *
7434096 ATTATTACAATTTTTATTTTCT-TTATTTTATTACTATTAAC
1 ATTAGTACAATTTTTA-TTACTATTACTTTATTACTATTAAC
*
7434137 ATTAGTACTATTTTTATTACTATTACTTTATTACTATTA
1 ATTAGTACAATTTTTATTACTATTACTTTATTACTATTA
7434176 CTACTAACAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 4 0.12
41 30 0.88
ACGTcount: A:0.30, C:0.10, G:0.01, T:0.59
Consensus pattern (41 bp):
ATTAGTACAATTTTTATTACTATTACTTTATTACTATTAAC
Found at i:7434208 original size:14 final size:15
Alignment explanation
Indices: 7434189--7434221 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
7434179 CTAACATCAC
7434189 TATTATCATTTTT-T
1 TATTATCATTTTTAT
*
7434203 TATTATTATTTTTAT
1 TATTATCATTTTTAT
7434218 TATT
1 TATT
7434222 TTATTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (15 bp):
TATTATCATTTTTAT
Found at i:7434310 original size:23 final size:23
Alignment explanation
Indices: 7434203--7434330 Score: 77
Period size: 23 Copynumber: 5.4 Consensus size: 23
7434193 ATCATTTTTT
*
7434203 TATTATTATTTTTATTATT-TTAT
1 TATT-TTATTTTTATTATTATTAC
* *
7434226 TA-TTT-TTTTTACTATCTAATA-
1 TATTTTATTTTTATTAT-TATTAC
7434247 TATTATTATACCTTATTATTATTATTA-
1 TATT-TTAT---TT-TTATTATTATTAC
* *
7434274 TATTTTCTTTTTTATTACTATTAC
1 TATTTT-ATTTTTATTATTATTAC
* *
7434298 TATTTTATTTTTATTTTTACTAC
1 TATTTTATTTTTATTATTATTAC
7434321 TATTATTATT
1 TATT-TTATT
7434331 ATCAATATTA
Statistics
Matches: 83, Mismatches: 10, Indels: 23
0.72 0.09 0.20
Matches are distributed among these distances:
20 9 0.11
21 5 0.06
22 4 0.05
23 32 0.39
24 14 0.17
26 2 0.02
27 11 0.13
28 6 0.07
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (23 bp):
TATTTTATTTTTATTATTATTAC
Found at i:7434314 original size:29 final size:29
Alignment explanation
Indices: 7434263--7434332 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
7434253 TATACCTTAT
*
7434263 TATTATTATTATATTTTCTTTTTTATTAC
1 TATTATTATTATATTTTCTTTTTTACTAC
* *
7434292 TATTACTATTTTATTTT-TATTTTTACTAC
1 TATTATTATTATATTTTCT-TTTTTACTAC
7434321 TATTATTATTAT
1 TATTATTATTAT
7434333 CAATATTATC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
28 1 0.03
29 34 0.97
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (29 bp):
TATTATTATTATATTTTCTTTTTTACTAC
Found at i:7434503 original size:18 final size:18
Alignment explanation
Indices: 7434480--7434514 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7434470 CTTGCTTTTT
*
7434480 TCATATTTTTATTATTGC
1 TCATATTATTATTATTGC
*
7434498 TCATATTATTGTTATTG
1 TCATATTATTATTATTG
7434515 ATATTGTCGC
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:0.23, C:0.09, G:0.09, T:0.60
Consensus pattern (18 bp):
TCATATTATTATTATTGC
Found at i:7438559 original size:17 final size:16
Alignment explanation
Indices: 7438518--7438568 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
7438508 AATATTTATT
7438518 TAAAATTAATTATAAA
1 TAAAATTAATTATAAA
7438534 -AATATATTAATTATAAA
1 TAA-A-ATTAATTATAAA
7438551 CTAAAATTATATTA-AAA
1 -TAAAATTA-ATTATAAA
7438568 T
1 T
7438569 TAAGTTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
15 2 0.07
16 2 0.07
17 19 0.63
18 5 0.17
19 2 0.07
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAAATTAATTATAAA
Found at i:7438577 original size:22 final size:22
Alignment explanation
Indices: 7438513--7438577 Score: 53
Period size: 22 Copynumber: 3.0 Consensus size: 22
7438503 AGTAAAATAT
*
7438513 TTAT-TTAAAATTAATTATAAAA
1 TTATATTAAAATTAAAT-TAAAA
* * *
7438535 ATATATT-AATTATAAACTAAAA
1 TTATATTAAAAT-TAAATTAAAA
*
7438557 TTATATTAAAATTAAGTTAAA
1 TTATATTAAAATTAAATTAAA
7438578 TCAGGTCGAA
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
22 24 0.75
23 8 0.25
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
TTATATTAAAATTAAATTAAAA
Found at i:7438977 original size:22 final size:22
Alignment explanation
Indices: 7438952--7438995 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7438942 TAGTCTTATA
7438952 ATAATTTATTAATATAATAAAT
1 ATAATTTATTAATATAATAAAT
* *
7438974 ATAATTTATTATTTTAATAAAT
1 ATAATTTATTAATATAATAAAT
7438996 TATTTAATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAATTTATTAATATAATAAAT
Found at i:7439006 original size:20 final size:22
Alignment explanation
Indices: 7438952--7439007 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
7438942 TAGTCTTATA
* * *
7438952 ATAATTTATTAATATAATAAAT
1 ATAATTTAATATTTTAATAAAT
*
7438974 ATAATTTATTATTTTAATAAAT
1 ATAATTTAATATTTTAATAAAT
7438996 -T-ATTTAATATTT
1 ATAATTTAATATTT
7439008 CAATTTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 10 0.32
21 1 0.03
22 20 0.65
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATAATTTAATATTTTAATAAAT
Found at i:7439047 original size:15 final size:16
Alignment explanation
Indices: 7439020--7439050 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
7439010 ATTTTATTTT
7439020 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
7439036 AATAAT-AATTTTAAA
1 AATAATAAATTTTAAA
7439051 GAACATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:7439109 original size:15 final size:15
Alignment explanation
Indices: 7439089--7439145 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
7439079 ATTCAATATT
7439089 AATATTTTAATAATA
1 AATATTTTAATAATA
*
7439104 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
7439123 AATATATTAATAATA
1 AATATTTTAATAATA
*
7439138 AATGTTTT
1 AATATTTT
7439146 GTAGTTTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:7439620 original size:14 final size:14
Alignment explanation
Indices: 7439601--7439638 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
7439591 CCAGAAAAGT
7439601 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
7439615 AAATCATTTTCCGG
1 AAATCATTTTCCAG
*
7439629 AAGTCATTTT
1 AAATCATTTT
7439639 TAGTGAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:7441077 original size:14 final size:14
Alignment explanation
Indices: 7441058--7441087 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7441048 AAACCCTTTC
7441058 AATAATAATAGTTT
1 AATAATAATAGTTT
*
7441072 AATAATAATGGTTT
1 AATAATAATAGTTT
7441086 AA
1 AA
7441088 GAGTAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (14 bp):
AATAATAATAGTTT
Found at i:7443288 original size:18 final size:19
Alignment explanation
Indices: 7443267--7443309 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
7443257 TAATAAGTAT
*
7443267 TAATTTTTTTATAA-TTTA
1 TAATTTTTTAATAATTTTA
7443285 TAATTTTTTAATAATTTTA
1 TAATTTTTTAATAATTTTA
7443304 TAATTT
1 TAATTT
7443310 ATACTAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TAATTTTTTAATAATTTTA
Done.