Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014094.1 Kokia drynarioides strain JFW-HI SEQ_129125, whole genome shotgun sequence
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: 157447
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Warning! 2 characters in sequence are not A, C, G, or T
Found at i:543 original size:13 final size:14
Alignment explanation
Indices: 508--548 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 14
498 AATTGGGCCA
508 TTTG-TAATTGGAC
1 TTTGTTAATTGGAC
521 TTTGTT--TTGGAC
1 TTTGTTAATTGGAC
533 TTT-TTAATTGGAC
1 TTTGTTAATTGGAC
546 TTT
1 TTT
549 CTAAATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.08
12 9 0.36
13 13 0.52
14 1 0.04
ACGTcount: A:0.17, C:0.07, G:0.20, T:0.56
Consensus pattern (14 bp):
TTTGTTAATTGGAC
Found at i:627 original size:5 final size:6
Alignment explanation
Indices: 550--628 Score: 57
Period size: 6 Copynumber: 14.2 Consensus size: 6
540 TTGGACTTTC
*
550 TAAATT TAATTT TATAA-- TAAATT TAAATT TCAAA-- TAAATT TAAATT
1 TAAATT TAAATT TA-AATT TAAATT TAAATT T-AAATT TAAATT TAAATT
* *
596 TAAA-A TAAACT TAAATT TAAA-- TAAA-T TAAATT T
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT T
629 CCAATAAGTC
Statistics
Matches: 59, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
4 9 0.15
5 11 0.19
6 35 0.59
7 4 0.07
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (6 bp):
TAAATT
Found at i:634 original size:16 final size:17
Alignment explanation
Indices: 550--635 Score: 106
Period size: 17 Copynumber: 5.2 Consensus size: 17
540 TTGGACTTTC
*
550 TAAATTT-AATTTTATAA
1 TAAATTTAAATTTCA-AA
567 TAAATTTAAATTTCAAA
1 TAAATTTAAATTTCAAA
*
584 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTCAAA
*
601 TAAACTTAAATTT-AAA
1 TAAATTTAAATTTCAAA
*
617 TAAA-TTAAATTTCCAA
1 TAAATTTAAATTTCAAA
633 TAA
1 TAA
636 GTCCAGACAA
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
15 8 0.13
16 12 0.19
17 37 0.59
18 6 0.10
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATTTAAATTTCAAA
Found at i:2495 original size:30 final size:29
Alignment explanation
Indices: 2461--2832 Score: 174
Period size: 30 Copynumber: 12.7 Consensus size: 29
2451 CTAACTTTCT
*
2461 AAAAATTACATTTTGATCCTCAAACATTCC
1 AAAAATTACATTTTGACCCTCAAAC-TTCC
** *
2491 AAAAATTATGTTTT-ACCCTCGAACTTCAC
1 AAAAATTACATTTTGACCCTCAAACTTC-C
* * * *
2520 GAAAGTTACATTTTTG-CCCTCGAACTTTTC
1 AAAAATTACA-TTTTGACCCTCAAAC-TTCC
* *
2550 AAAAATTACATTTTTACCCTTAAACTTCC
1 AAAAATTACATTTTGACCCTCAAACTTCC
* * * *
2579 AAAAATTACAATTTG-CCCACTAATTTCC
1 AAAAATTACATTTTGACCCTCAAACTTCC
* * **
2607 AAAAATTCCATTTTTGA-CTTTGAACTTTCC
1 AAAAATTACA-TTTTGACCCTCAAAC-TTCC
* ** *
2637 AAAAATTACCATTTT-ACCTTGGAATTTCC
1 AAAAATTA-CATTTTGACCCTCAAACTTCC
* *
2666 -AAATTTCCATTTTTGACCC-CAAACTTTCC
1 AAAAATTACA-TTTTGACCCTCAAAC-TTCC
* * **
2695 AAAAATTACCATTTT-A-CCTCGAATTTTA
1 AAAAATTA-CATTTTGACCCTCAAACTTCC
* * * **
2723 AAAAATTCCATTTTTAACCTTGAACTTTCC
1 AAAAATTACATTTTGACCCTCAAAC-TTCC
*
2753 AAAAATTACCATTTT-ACCC-CTAAATTTCC
1 AAAAATTA-CATTTTGACCCTC-AAACTTCC
* *
2782 TAAAATTCCATTTTTTGACCCT-AAACTTTCC
1 AAAAATTACA--TTTTGACCCTCAAAC-TTCC
*
2813 AAAAATTACCATTTTTACCC
1 AAAAATTA-CATTTTGACCC
2833 CACCAGCATC
Statistics
Matches: 256, Mismatches: 59, Indels: 54
0.69 0.16 0.15
Matches are distributed among these distances:
27 8 0.03
28 46 0.18
29 74 0.29
30 100 0.39
31 26 0.10
32 2 0.01
ACGTcount: A:0.34, C:0.24, G:0.04, T:0.38
Consensus pattern (29 bp):
AAAAATTACATTTTGACCCTCAAACTTCC
Found at i:2643 original size:58 final size:58
Alignment explanation
Indices: 2531--2832 Score: 317
Period size: 58 Copynumber: 5.1 Consensus size: 58
2521 AAAGTTACAT
* * * *
2531 TTTTGCCCTCGAACTTTTCAAAAATTACATTTTT-ACCCTTAAAC-TTCCAAAAATTACAA
1 TTTTACCCT-GAA-TTTCCAAAAATTCCATTTTTGA-CCTTAAACTTTCCAAAAATTACCA
** * *
2590 TTTGCCCACT-AATTTCCAAAAATTCCATTTTTGACTTTGAACTTTCCAAAAATTACCA
1 TTTTACC-CTGAATTTCCAAAAATTCCATTTTTGACCTTAAACTTTCCAAAAATTACCA
* * **
2648 TTTTACCTTGGAATTTCC-AAATTTCCATTTTTGACCCCAAACTTTCCAAAAATTACCA
1 TTTTACCCT-GAATTTCCAAAAATTCCATTTTTGACCTTAAACTTTCCAAAAATTACCA
** * *
2706 TTTTA-CCTCGAATTTTAAAAAATTCCATTTTTAACCTTGAACTTTCCAAAAATTACCA
1 TTTTACCCT-GAATTTCCAAAAATTCCATTTTTGACCTTAAACTTTCCAAAAATTACCA
* * *
2764 TTTTACCCCTAAATTTCCTAAAATTCCATTTTTTGACCCTAAACTTTCCAAAAATTACCA
1 TTTTA-CCCTGAATTTCCAAAAATTCCA-TTTTTGACCTTAAACTTTCCAAAAATTACCA
2824 TTTTTACCC
1 -TTTTACCC
2833 CACCAGCATC
Statistics
Matches: 202, Mismatches: 31, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
57 33 0.16
58 102 0.50
59 26 0.13
60 36 0.18
61 5 0.02
ACGTcount: A:0.33, C:0.25, G:0.04, T:0.39
Consensus pattern (58 bp):
TTTTACCCTGAATTTCCAAAAATTCCATTTTTGACCTTAAACTTTCCAAAAATTACCA
Found at i:2695 original size:116 final size:117
Alignment explanation
Indices: 2551--2826 Score: 371
Period size: 116 Copynumber: 2.4 Consensus size: 117
2541 GAACTTTTCA
* * * * *
2551 AAAATTACATTTTT-ACCCTTAAAC-TTCCAAAAATTACAATTTGCCCACTAATTTCCAAAAATT
1 AAAATTCCATTTTTGACCC-TAAACTTTCCAAAAATTACCATTTGACCACGAATTTCAAAAAATT
* * * *
2614 CCATTTTTGACTTTGAACTTTCCAAAAATTACCATTTTA-CCTTGGAATTTCC-
65 CCATTTTTAACCTTGAACTTTCCAAAAATTACCATTTTACCCCT-AAATTTCCT
* * * * *
2666 AAATTTCCATTTTTGACCCCAAACTTTCCAAAAATTACCATTTTACCTCGAATTTTAAAAAATTC
1 AAAATTCCATTTTTGACCCTAAACTTTCCAAAAATTACCATTTGACCACGAATTTCAAAAAATTC
2731 CATTTTTAACCTTGAACTTTCCAAAAATTACCATTTTACCCCTAAATTTCCT
66 CATTTTTAACCTTGAACTTTCCAAAAATTACCATTTTACCCCTAAATTTCCT
2783 AAAATTCCATTTTTTGACCCTAAACTTTCCAAAAATTACCATTT
1 AAAATTCCA-TTTTTGACCCTAAACTTTCCAAAAATTACCATTT
2827 TTACCCCACC
Statistics
Matches: 140, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
115 16 0.11
116 80 0.57
117 11 0.08
118 33 0.24
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.38
Consensus pattern (117 bp):
AAAATTCCATTTTTGACCCTAAACTTTCCAAAAATTACCATTTGACCACGAATTTCAAAAAATTC
CATTTTTAACCTTGAACTTTCCAAAAATTACCATTTTACCCCTAAATTTCCT
Found at i:7990 original size:10 final size:9
Alignment explanation
Indices: 7982--8058 Score: 57
Period size: 9 Copynumber: 8.0 Consensus size: 9
7972 AATAAAAAGG
7982 AAAAGAAAGA
1 AAAAGAAA-A
7992 AAAAGGAATAA
1 AAAA-GAA-AA
*
8003 AAAAGAAAG
1 AAAAGAAAA
8012 AAAAGAAAA
1 AAAAGAAAA
8021 AAAAGGAAAGGA
1 AAAA-GAAA--A
*
8033 AAAA-AGAA
1 AAAAGAAAA
* *
8041 AAAAGGAGA
1 AAAAGAAAA
8050 AAAAGAAAA
1 AAAAGAAAA
8059 GGAGAGGTCG
Statistics
Matches: 53, Mismatches: 8, Indels: 13
0.72 0.11 0.18
Matches are distributed among these distances:
8 5 0.09
9 21 0.40
10 13 0.25
11 8 0.15
12 6 0.11
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:8001 original size:26 final size:26
Alignment explanation
Indices: 7972--8021 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
7962 AGAAAAAATA
*
7972 AATAAAAAGGAAA-AGAAAGAAAAAGG
1 AATAAAAAAGAAAGA-AAAGAAAAAGG
7998 AATAAAAAAGAAAGAAAAGAAAAA
1 AATAAAAAAGAAAGAAAAGAAAAA
8022 AAAGGAAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.78, C:0.00, G:0.18, T:0.04
Consensus pattern (26 bp):
AATAAAAAAGAAAGAAAAGAAAAAGG
Found at i:8008 original size:21 final size:19
Alignment explanation
Indices: 7982--8058 Score: 79
Period size: 21 Copynumber: 4.0 Consensus size: 19
7972 AATAAAAAGG
7982 AAAAGAAAGAAAAAGGAATAA
1 AAAAGAAAGAAAAA-GAA-AA
8003 AAAAGAAAG-AAAAGAAAA
1 AAAAGAAAGAAAAAGAAAA
*
8021 AAAAGGAAAGGAAAAA-AGAA
1 AAAA-GAAA-GAAAAAGAAAA
*
8041 AAAAG-GAGAAAAAGAAAA
1 AAAAGAAAGAAAAAGAAAA
8059 GGAGAGGTCG
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
17 6 0.12
18 10 0.20
19 8 0.16
20 12 0.24
21 13 0.27
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (19 bp):
AAAAGAAAGAAAAAGAAAA
Found at i:8015 original size:30 final size:29
Alignment explanation
Indices: 7968--8028 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 29
7958 ATGAAGAAAA
*
7968 AATAAATAAAAAGGAAAAGAAAGAAAAAGG
1 AATAAATAAAAAAGAAAAGAAA-AAAAAGG
7998 AATAAA-AAAGAAAGAAAAGAAAAAAAAGG
1 AATAAATAAA-AAAGAAAAGAAAAAAAAGG
8027 AA
1 AA
8029 AGGAAAAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 12 0.41
30 17 0.59
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (29 bp):
AATAAATAAAAAAGAAAAGAAAAAAAAGG
Found at i:8029 original size:15 final size:15
Alignment explanation
Indices: 7975--8037 Score: 76
Period size: 15 Copynumber: 4.2 Consensus size: 15
7965 AAAAATAAAT
7975 AAAAAGGAAAAGAAA
1 AAAAAGGAAAAGAAA
7990 GAAAAAGGAATAA-AAA
1 -AAAAAGGAA-AAGAAA
*
8006 AGAAA-GAAAAGAAA
1 AAAAAGGAAAAGAAA
*
8020 AAAAAGGAAAGGAAA
1 AAAAAGGAAAAGAAA
8035 AAA
1 AAA
8038 GAAAAAAGGA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
13 2 0.05
14 10 0.24
15 15 0.37
16 12 0.29
17 2 0.05
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.02
Consensus pattern (15 bp):
AAAAAGGAAAAGAAA
Found at i:8035 original size:29 final size:29
Alignment explanation
Indices: 7975--8061 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 29
7965 AAAAATAAAT
7975 AAAAAG-GAAAAGAAAGAAAAAGGAATA--A
1 AAAAAGAGAAAAGAAA-AAAAAGGAA-AGGA
*
8003 AAAAGAAAGAAAAGAAAAAAAAGGAAAGGA
1 AAAA-AGAGAAAAGAAAAAAAAGGAAAGGA
* * * *
8033 AAAAAGAAAAAAGGAGAAAAAGAAAAGGA
1 AAAAAGAGAAAAGAAAAAAAAGGAAAGGA
8062 GAGGTCGAGC
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
28 5 0.10
29 30 0.61
30 14 0.29
ACGTcount: A:0.76, C:0.00, G:0.23, T:0.01
Consensus pattern (29 bp):
AAAAAGAGAAAAGAAAAAAAAGGAAAGGA
Found at i:8036 original size:30 final size:31
Alignment explanation
Indices: 7968--8041 Score: 84
Period size: 29 Copynumber: 2.5 Consensus size: 31
7958 ATGAAGAAAA
* *
7968 AATAAATAAA-AAGGAAAAGAAAGAAAAAGG
1 AATAAAAAAAGAAAGAAAAGAAAGAAAAAGG
7998 AAT-AAAAAAGAAAGAAAAGAAA-AAAAAGG
1 AATAAAAAAAGAAAGAAAAGAAAGAAAAAGG
8027 AA-AGGAAAAAAGAAA
1 AATA--AAAAAAGAAA
8042 AAAGGAGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
29 14 0.37
30 14 0.37
31 10 0.26
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (31 bp):
AATAAAAAAAGAAAGAAAAGAAAGAAAAAGG
Found at i:8042 original size:20 final size:19
Alignment explanation
Indices: 7982--8058 Score: 72
Period size: 20 Copynumber: 4.0 Consensus size: 19
7972 AATAAAAAGG
7982 AAAA-GAAAGAAAAAGGAATAA
1 AAAAGGAAAG-AAAA-GAA-AA
8003 AAAA-GAAAGAAAAGAAAA
1 AAAAGGAAAGAAAAGAAAA
8021 AAAAGGAAAGGAAAA-AAGAA
1 AAAAGGAAA-GAAAAGAA-AA
*
8041 AAAAGGAGA-AAAAGAAAA
1 AAAAGGAAAGAAAAGAAAA
8059 GGAGAGGTCG
Statistics
Matches: 51, Mismatches: 1, Indels: 11
0.81 0.02 0.17
Matches are distributed among these distances:
18 12 0.24
19 11 0.22
20 19 0.37
21 9 0.18
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (19 bp):
AAAAGGAAAGAAAAGAAAA
Found at i:8045 original size:15 final size:15
Alignment explanation
Indices: 8001--8058 Score: 64
Period size: 15 Copynumber: 3.7 Consensus size: 15
7991 AAAAAGGAAT
*
8001 AAAAAAGAAAGAAAAG
1 AAAAAAGAAA-AAAGG
*
8017 AAAAAA-AAGGAAAGG
1 AAAAAAGAA-AAAAGG
8032 AAAAAAGAAAAAAGG
1 AAAAAAGAAAAAAGG
8047 AGAAAAAGAAAA
1 A-AAAAAGAAAA
8059 GGAGAGGTCG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 18 0.50
16 18 0.50
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAAGG
Found at i:8052 original size:16 final size:16
Alignment explanation
Indices: 7975--8058 Score: 75
Period size: 16 Copynumber: 5.2 Consensus size: 16
7965 AAAAATAAAT
7975 AAAAAGGAAAAGAAAG-
1 AAAAAGGAAAA-AAAGA
7991 AAAAAGGAATAAAAAAGA
1 AAAAAGG-A-AAAAAAGA
*
8009 AAGAAAAGAAAAAAA-A
1 AA-AAAGGAAAAAAAGA
**
8025 GGAAAGG-AAAAAAGA
1 AAAAAGGAAAAAAAGA
*
8040 AAAAAGGAGAAAAAGA
1 AAAAAGGAAAAAAAGA
8056 AAA
1 AAA
8059 GGAGAGGTCG
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
14 6 0.11
15 10 0.18
16 18 0.33
17 11 0.20
18 6 0.11
19 4 0.07
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.01
Consensus pattern (16 bp):
AAAAAGGAAAAAAAGA
Found at i:8058 original size:22 final size:21
Alignment explanation
Indices: 7987--8058 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 21
7977 AAAGGAAAAG
7987 AAAGAAAAAGGAATAAAAAAG--
1 AAAGAAAAA-GAA-AAAAAAGAA
*
8008 AAAG-AAAAGAAAAAAAAGGA
1 AAAGAAAAAGAAAAAAAAGAA
* *
8028 AAGGAAAAAAGAAAAAAGGAGAA
1 AAAG-AAAAAGAAAAAA-AAGAA
8051 AAAGAAAA
1 AAAGAAAA
8059 GGAGAGGTCG
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
18 7 0.17
19 3 0.07
20 7 0.17
21 4 0.10
22 15 0.36
23 6 0.14
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (21 bp):
AAAGAAAAAGAAAAAAAAGAA
Found at i:8060 original size:14 final size:14
Alignment explanation
Indices: 8008--8063 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
7998 AATAAAAAAG
* *
8008 AAAGAAAAGAAAAA
1 AAAGAAAAGGAGAA
*
8022 AAAGGAAAGGA-AA
1 AAAGAAAAGGAGAA
8035 AAAGAAAAAAGGAGAA
1 AAAG--AAAAGGAGAA
8051 AAAGAAAAGGAGA
1 AAAGAAAAGGAGA
8064 GGTCGAGCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
13 6 0.17
14 18 0.50
15 6 0.17
16 6 0.17
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (14 bp):
AAAGAAAAGGAGAA
Found at i:9429 original size:39 final size:38
Alignment explanation
Indices: 9385--9493 Score: 119
Period size: 39 Copynumber: 2.8 Consensus size: 38
9375 TCACCATCAG
* * *
9385 CCAATCTCTTACGCCGAGCCTAGGGCAGATTGCAGCCAT
1 CCAATCTCTTAC-CCGATCATGGGGCAGATTGCAGCCAT
* * ** *
9424 TCAATCTTTTACCCCGATCATGGGGCAGATCACAGCTAT
1 CCAATCTCTTA-CCCGATCATGGGGCAGATTGCAGCCAT
*
9463 CCAATCTCTGACCCGATCATGGGGCAGATTG
1 CCAATCTCTTACCCGATCATGGGGCAGATTG
9494 TAGTTATCTA
Statistics
Matches: 56, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
38 18 0.32
39 37 0.66
40 1 0.02
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (38 bp):
CCAATCTCTTACCCGATCATGGGGCAGATTGCAGCCAT
Found at i:9866 original size:210 final size:210
Alignment explanation
Indices: 9504--11029 Score: 1838
Period size: 210 Copynumber: 7.3 Consensus size: 210
9494 TAGTTATCTA
* * * *
9504 AAACAATAAAGCAGTTACCTTCTTGATGAGATACAGAGAAGTGAATCAGATCCGTCTTTCTGATG
1 AAACAATAAAGCGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATG
* * * ** * * * * *
9569 AGATACAGAAAAGCGGATTGAAATAAACGATGCAGTCATCTTCCTAATGAGATACTGAAAAGTAG
66 AGACACAGAGAAGTGGATCAAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAG
* * * * *
9634 ACCAAATTAATGAAACCAAAGCTCGATGTGAGCGAAACTTCGAACCCTAGCTTTCTTATGAGGTA
131 ACCAAATCAATGAAACCAAAGCTCAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGGTA
9699 CTGAGAAGCAGGTCG
196 CTGAGAAGCAGGTCG
*
9714 AAACAATAAAGCGGTTACCTTCCTGATGAGATATAGAGAAGTGAACCAGATCCGTCTTCCTGATG
1 AAACAATAAAGCGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATG
* * ** * * *
9779 AGATACAGAGAAGCGGATTGAAACAAGCAATGCAGTCATCTTCTTGATGAGATACTGAGAAGTAG
66 AGACACAGAGAAGTGGATCAAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAG
* * * * *
9844 ACCAAATCAATGAAACCAAAGCTCAATGTGAGTGAAACTTCGAATCTCAGCTTTCTAATGAGGTA
131 ACCAAATCAATGAAACCAAAGCTCAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGGTA
*
9909 CTAAGAAGCAGGTCG
196 CTGAGAAGCAGGTCG
* ** * * * *
9924 AAGA-ACTAAAGCATTTACCTTCCTAATGAGATACAGAGAAATGAACTAGATCCATCTTCCTGAT
1 AA-ACAATAAAGCGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGAT
* * * *
9988 TAGACATAGAGAAGTGGATCAAAACAAGCGATGCGGTCATCTTCCTGATAAGATACTAAGAAGTA
65 GAGACACAGAGAAGTGGATCAAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTA
* * **
10053 GACCAAATCGATGAAACCAAAGCTCGATACGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGGT
130 GACCAAATCAATGAAACCAAAGCTCAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGGT
* *
10118 ATTGAGAAGTAGGTCG
195 ACTGAGAAGCAGGTCG
* * * * ** * * *
10134 AAGCAATAAAGTGGTTACCTTCTTGATGAGATACAAAGAAGTGAGTCAGATCCATCTTACTGATA
1 AAACAATAAAGCGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATG
* * ** * * *
10199 AGATACAGAGAAGCGGATTGAAACAATCGATGCGGTCACCTTCTTGATGAGATACTGAGAAGTAG
66 AGACACAGAGAAGTGGATCAAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAG
* * * *
10264 ACCAAATCAATGAAACCAAAGCTCAATGTGAGTGAAACTTCGAACCCCAACATCCTGATAAGGTA
131 ACCAAATCAATGAAACCAAAGCTCAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGGTA
10329 CTGAGAAGCAGGTCG
196 CTGAGAAGCAGGTCG
* * * * *
10344 AAGCAATAAAGCGGTTACCTTCTTGATGAGATACAAAGAAGTGAACGAGATCCGTCTTCCTGATT
1 AAACAATAAAGCGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATG
* * *
10409 AGACACAGAGAAGTAGATCAAAACAAGTGATGCGGTCATCTTCCTAATGAGATACTGAGAAGTAG
66 AGACACAGAGAAGTGGATCAAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAG
* * * * * * * *
10474 ACCAAATAAATGAAACC-AAGCTCAAAGCGATCAAAACTTCGAGCCCCAACTTCCTAATGAGGTA
131 ACCAAATCAATGAAACCAAAGCTCAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGGTA
10538 CTGAGAAGCAGGTC-
196 CTGAGAAGCAGGTCG
* *
10552 AAAGCAATAAAGCGGTTACCTTCCTAATGAGATACAGAGAAGTGAACCAGATTCGTCTTCCTGAT
1 AAA-CAATAAAGCGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGAT
* * * * *
10617 GAGACATAGAGAAGTGGATCAAAACAAGTGATACGGTCATCTTCCTGATGAGATACAGAGAAATA
65 GAGACACAGAGAAGTGGATCAAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTA
* * * * * *
10682 GACGAAATCAATGAAAGCAAAGCTCGATGTGAGTGAAACTTCAAACCCCAGCTTCCTCATGAGGT
130 GACCAAATCAATGAAACCAAAGCTCAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGGT
*
10747 ATTGAGAAGCAGGTCG
195 ACTGAGAAGCAGGTCG
* * * *
10763 AAGCAATAAAGCGGTTACCTTCCTGATGAGATACAAATAAGTGAACCAGACCCGTCTTCCTGATG
1 AAACAATAAAGCGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATG
* * * * * *
10828 AGACATAAAGAAGTGGATCAAAACAAGTGATGCGATCATCTTCCTAATTAGATACTGAGAAGTAG
66 AGACACAGAGAAGTGGATCAAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAG
* * * * *
10893 ACCAAATCAATGAAACCAGA-CTCAAAGTGAGC-AAATCTTTGAACCCCAGCTTCCTGATTAGAT
131 ACCAAATCAATGAAACCAAAGCTCAATGTGAGCGAAA-CTTCGAACCCCAGCTTCCTGATGAGGT
* *
10956 ACTAAGAAGCAAGTCG
195 ACTGAGAAGCAGGTCG
* ** * * * * ** * *
10972 AAGCAATAAAATGGTCATCTTCTTGACGAGACGCAGAGAAGTGAACCAAATCTGTCTT
1 AAACAATAAAGCGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTT
11030 TCTAGTAAAA
Statistics
Matches: 1131, Mismatches: 179, Indels: 13
0.85 0.14 0.01
Matches are distributed among these distances:
208 5 0.00
209 270 0.24
210 853 0.75
211 3 0.00
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.22
Consensus pattern (210 bp):
AAACAATAAAGCGGTTACCTTCCTGATGAGATACAGAGAAGTGAACCAGATCCGTCTTCCTGATG
AGACACAGAGAAGTGGATCAAAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAG
ACCAAATCAATGAAACCAAAGCTCAATGTGAGCGAAACTTCGAACCCCAGCTTCCTGATGAGGTA
CTGAGAAGCAGGTCG
Found at i:12392 original size:17 final size:17
Alignment explanation
Indices: 12372--12418 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
12362 TTGAATAAGC
*
12372 TTAAATTTATAATAAAT
1 TTAAATTTAAAATAAAT
* *
12389 TTAAACTTAAAATGAAT
1 TTAAATTTAAAATAAAT
*
12406 TAAAATTTAAAAT
1 TTAAATTTAAAAT
12419 CTAAAATTAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
TTAAATTTAAAATAAAT
Found at i:15003 original size:29 final size:30
Alignment explanation
Indices: 14971--15029 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
14961 TATAGTTTAA
*
14971 TGTGTAATTGTATACATG-AATTTTGATTT
1 TGTGCAATTGTATACATGAAATTTTGATTT
*
15000 TGTGCAATTTTATACATGAAATTTTGATTT
1 TGTGCAATTGTATACATGAAATTTTGATTT
15030 GATCCAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.29, C:0.05, G:0.15, T:0.51
Consensus pattern (30 bp):
TGTGCAATTGTATACATGAAATTTTGATTT
Found at i:15038 original size:30 final size:29
Alignment explanation
Indices: 14976--15038 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
14966 TTTAATGTGT
*
14976 AATTGTATACATGAATTTTGATTTTGTGC
1 AATTGTATACATGAATTTTGATTTTGTCC
*
15005 AATTTTATACATGAAATTTTGA-TTTGATCC
1 AATTGTATACATG-AATTTTGATTTTG-TCC
15035 AATT
1 AATT
15039 CTTGTAAACT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 16 0.53
30 14 0.47
ACGTcount: A:0.32, C:0.08, G:0.13, T:0.48
Consensus pattern (29 bp):
AATTGTATACATGAATTTTGATTTTGTCC
Found at i:15440 original size:17 final size:17
Alignment explanation
Indices: 15418--15452 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
15408 CTTTAGCTTT
15418 TTTTATATCATATTATA
1 TTTTATATCATATTATA
*
15435 TTTTATATCGTATTATA
1 TTTTATATCATATTATA
15452 T
1 T
15453 AAATATATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (17 bp):
TTTTATATCATATTATA
Found at i:20362 original size:21 final size:20
Alignment explanation
Indices: 20336--20376 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
20326 CTCCATCTGA
20336 AAAAAAATACTTTTGAAAAGT
1 AAAAAAATACTTTT-AAAAGT
* *
20357 AAAAAATTTCTTTTAAAAGT
1 AAAAAAATACTTTTAAAAGT
20377 TACTTGTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (20 bp):
AAAAAAATACTTTTAAAAGT
Found at i:25266 original size:22 final size:21
Alignment explanation
Indices: 25233--25275 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
25223 TTACATGTAA
*
25233 TTATTAAGTAAATTATATTGT
1 TTATTAAGTAAATAATATTGT
*
25254 TTATGTAATTAAATAATATTGT
1 TTAT-TAAGTAAATAATATTGT
25276 ACTTCATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (21 bp):
TTATTAAGTAAATAATATTGT
Found at i:27941 original size:22 final size:24
Alignment explanation
Indices: 27916--27960 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
27906 ATAAGAAAAA
27916 TTATTA-TG-ATTTATTAAAAATT
1 TTATTAGTGAATTTATTAAAAATT
27938 TTATTATGTGAATTTATTAAAAA
1 TTATTA-GTGAATTTATTAAAAA
27961 ACTTTTATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 6 0.30
24 2 0.10
25 12 0.60
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATTAGTGAATTTATTAAAAATT
Found at i:27968 original size:24 final size:25
Alignment explanation
Indices: 27924--27970 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
27914 AATTATTATG
**
27924 ATTTATTAAAAATTTTATTATGTGA
1 ATTTATTAAAAAACTTATTATGTGA
27949 ATTTATTAAAAAACTT-TTATGT
1 ATTTATTAAAAAACTTATTATGT
27971 TCAATTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.51
Consensus pattern (25 bp):
ATTTATTAAAAAACTTATTATGTGA
Found at i:27976 original size:25 final size:25
Alignment explanation
Indices: 27924--27986 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
27914 AATTATTATG
** *
27924 ATTTATTAAAAATTTTATTATGTGA
1 ATTTATTAAAAAACTTATTATGTCA
27949 ATTTATTAAAAAACTT-TTATGTTCA
1 ATTTATTAAAAAACTTATTATG-TCA
* *
27974 ATTAATAAAAAAA
1 ATTTATTAAAAAA
27987 AAAGAAGAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 5 0.16
25 27 0.84
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (25 bp):
ATTTATTAAAAAACTTATTATGTCA
Found at i:33623 original size:81 final size:82
Alignment explanation
Indices: 33488--33646 Score: 293
Period size: 81 Copynumber: 2.0 Consensus size: 82
33478 GGAGAGATAG
*
33488 AGAGAGAAAGGAAAGGTAAGGGACTTTCTATTTGTATTACATTTTAAGTTGCTCTTATATCGCAG
1 AGAGAGAAAGGAAAGGGAAGGGACTTTCTATTTGTATTACATTTTAAGTTGCTCTTATATCGCAG
33553 GTGGTTGATGGAGGGGT
66 GTGGTTGATGGAGGGGT
*
33570 AGAGAGAGA-GAAAGGGAAGGGACTTTCTATTTGTATTACATTTTAAGTTGCTCTTATATCGCAG
1 AGAGAGAAAGGAAAGGGAAGGGACTTTCTATTTGTATTACATTTTAAGTTGCTCTTATATCGCAG
33634 GTGGTTGATGGAG
66 GTGGTTGATGGAG
33647 CACATTGTGT
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
81 67 0.89
82 8 0.11
ACGTcount: A:0.28, C:0.09, G:0.30, T:0.33
Consensus pattern (82 bp):
AGAGAGAAAGGAAAGGGAAGGGACTTTCTATTTGTATTACATTTTAAGTTGCTCTTATATCGCAG
GTGGTTGATGGAGGGGT
Found at i:41624 original size:4 final size:4
Alignment explanation
Indices: 41610--41653 Score: 61
Period size: 4 Copynumber: 10.8 Consensus size: 4
41600 AAATTTGAAG
* *
41610 GAAA AAAA GAAA GAAA AAAGA GAAA GAAA GAAA GAAA GAAA GAA
1 GAAA GAAA GAAA GAAA GAA-A GAAA GAAA GAAA GAAA GAAA GAA
41654 GGAGAAGAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
4 32 0.91
5 3 0.09
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:41662 original size:25 final size:25
Alignment explanation
Indices: 41610--41659 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
41600 AAATTTGAAG
41610 GAAAAAAAGAAAGAAAAAAGAGAAA
1 GAAAAAAAGAAAGAAAAAAGAGAAA
* *
41635 GAAAGAAAGAAAGAAAGAAGGAGAA
1 GAAAAAAAGAAAGAAA-AAAGAGAA
41660 GAAGGGGAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (25 bp):
GAAAAAAAGAAAGAAAAAAGAGAAA
Found at i:41716 original size:12 final size:13
Alignment explanation
Indices: 41695--41723 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
41685 AATGTAATGT
41695 ATTT-ATTTTTAA
1 ATTTAATTTTTAA
41707 ATTTAATTTTTAA
1 ATTTAATTTTTAA
41720 ATTT
1 ATTT
41724 TTTAATTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.25
13 12 0.75
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
ATTTAATTTTTAA
Found at i:41849 original size:16 final size:16
Alignment explanation
Indices: 41828--41870 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
41818 GGAAGAAATG
41828 TAAGTTTAATTAATTT
1 TAAGTTTAATTAATTT
**
41844 TAAGTTTGGTTAATTT
1 TAAGTTTAATTAATTT
*
41860 TAAATTTAATT
1 TAAGTTTAATT
41871 TTAAAATATT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (16 bp):
TAAGTTTAATTAATTT
Found at i:41908 original size:25 final size:24
Alignment explanation
Indices: 41877--41963 Score: 65
Period size: 23 Copynumber: 3.6 Consensus size: 24
41867 AATTTTAAAA
41877 TATTTTAATTTGTTAGTTATTTGAT
1 TATTTTAATTTGTTAGTTATTTG-T
* * *
41902 TATTTTAAGTTATTTG-T-TTTGTT
1 TATTTTAATTTGTTAGTTATTTG-T
* *
41925 TAATTTAATTT-TTAATTAATTTGT
1 TATTTTAATTTGTTAGTT-ATTTGT
41949 TA-TTTAATGTTGTTA
1 TATTTTAAT-TTGTTA
41964 TAGTTGCGTA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
22 2 0.04
23 21 0.43
24 6 0.12
25 20 0.41
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.64
Consensus pattern (24 bp):
TATTTTAATTTGTTAGTTATTTGT
Found at i:43702 original size:43 final size:43
Alignment explanation
Indices: 43620--43704 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
43610 ATTAATATGT
* *
43620 TAAATTATATTACTTGACTCGTGTTAATATGGTTGCATGTTAC
1 TAAATTATATTACTTGACTCGTATTAATATGCTTGCATGTTAC
* *
43663 TAAATTATATTACTTTACTCTTATTAATAT-CTTGACATGTTA
1 TAAATTATATTACTTGACTCGTATTAATATGCTTG-CATGTTA
43705 TTAATTGTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 3 0.08
43 34 0.92
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.47
Consensus pattern (43 bp):
TAAATTATATTACTTGACTCGTATTAATATGCTTGCATGTTAC
Found at i:44327 original size:45 final size:45
Alignment explanation
Indices: 44259--44385 Score: 182
Period size: 45 Copynumber: 2.8 Consensus size: 45
44249 CCATAGCTCA
*
44259 TCAAGCCAAGGATATCAGTCTCAGTTTGACGAGCCACCGCAATAC
1 TCAAGCCAAGGATATCAGCCTCAGTTTGACGAGCCACCGCAATAC
44304 TCAAGCCAAGGATATCAGCCTCAGTTTGACGAGCCACCGCAATAC
1 TCAAGCCAAGGATATCAGCCTCAGTTTGACGAGCCACCGCAATAC
** * ** * *
44349 TCAAGAGAAGGATGTCAGGTTGAGTTCGACGAGCCAC
1 TCAAGCCAAGGATATCAGCCTCAGTTTGACGAGCCAC
44386 ATTAATACTC
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 74 1.00
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.19
Consensus pattern (45 bp):
TCAAGCCAAGGATATCAGCCTCAGTTTGACGAGCCACCGCAATAC
Found at i:44415 original size:21 final size:21
Alignment explanation
Indices: 44389--44432 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
44379 GAGCCACATT
44389 AATACTCTACTCCTCCCGGGC
1 AATACTCTACTCCTCCCGGGC
* *
44410 AATACTCTAGTCCTCCGGGGC
1 AATACTCTACTCCTCCCGGGC
44431 AA
1 AA
44433 ATGGACCCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (21 bp):
AATACTCTACTCCTCCCGGGC
Found at i:53383 original size:2 final size:2
Alignment explanation
Indices: 53376--53401 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
53366 CACAAAAGAA
53376 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
53402 TTTTGAGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:53916 original size:42 final size:42
Alignment explanation
Indices: 53869--53953 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
53859 GTAATGCCTT
53869 GTTACTCCTTTACAACACCATTTTATTGTTACTACATGAGAA
1 GTTACTCCTTTACAACACCATTTTATTGTTACTACATGAGAA
53911 GTTACTCCTTTACAACACCATTTTATTGTTACTACATGAGAA
1 GTTACTCCTTTACAACACCATTTTATTGTTACTACATGAGAA
53953 G
1 G
53954 ATGAAACTAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.38
Consensus pattern (42 bp):
GTTACTCCTTTACAACACCATTTTATTGTTACTACATGAGAA
Found at i:55226 original size:97 final size:97
Alignment explanation
Indices: 55046--55234 Score: 231
Period size: 97 Copynumber: 1.9 Consensus size: 97
55036 TGGAAAAAGA
* * ** *
55046 TATTCGATTATCTCGATTTGAAGAAAAGTCACACCTAGTAAGTTAAGGCTTAAATCTTCAGAATC
1 TATTCGATTATCTCGATTTGAAGAAAAATCACACCTAGTAAGTTAAGACACAAATCTTCAAAATC
55111 AGAGATAAAGAAACATTGCCTCGATTTAAGGG
66 AGAGATAAAGAAACATTGCCTCGATTTAAGGG
* ** *
55143 TATTCGATTATTTCGATTT-AAGGAAAAATTGCACCTAGTAAGTTAAGACACAAATTTTCAAAAC
1 TATTCGATTATCTCGATTTGAA-GAAAAATCACACCTAGTAAGTTAAGACACAAATCTTCAAAA-
* *
55207 TCA-ATATAGAAG-AATATTGCCTCGATTT
64 TCAGAGATA-AAGAAACATTGCCTCGATTT
55235 TAAAGTTTTC
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
96 2 0.03
97 70 0.90
98 6 0.08
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (97 bp):
TATTCGATTATCTCGATTTGAAGAAAAATCACACCTAGTAAGTTAAGACACAAATCTTCAAAATC
AGAGATAAAGAAACATTGCCTCGATTTAAGGG
Found at i:55592 original size:59 final size:58
Alignment explanation
Indices: 55529--55761 Score: 214
Period size: 59 Copynumber: 4.0 Consensus size: 58
55519 GTTTGAGGAT
*
55529 AAAAATGGAATTTTTAGACA-TCCAATGGTAAAATGGTAATTTTTGGAAAAATCGAGGTC
1 AAAAATGGAATTTTTAGA-AGTTCAA-GGTAAAATGGTAATTTTTGGAAAAATCGAGGTC
* *
55588 AAAAATGGAATTTTT-GAAGTTCGAGAGTAAAATGGTAATTTTT-GAAAAATTTG-GTGTC
1 AAAAATGGAATTTTTAGAAGTTCAAG-GTAAAATGGTAATTTTTGGAAAAA-TCGAG-GTC
* * *
55646 AAAAATGGAA-TTTTAGAAATTTCAGGGGTAAAAAT-GTAATTTTTGGAAAAATCGAGGCC
1 AAAAATGGAATTTTTAG-AAGTTCA-AGGT-AAAATGGTAATTTTTGGAAAAATCGAGGTC
* **
55705 AAAAATGGAA-TTTTGGAAAGTTTGAGCGTAAAAAT-GTAATTTTT-GAAAAATTCGAGG
1 AAAAATGGAATTTTTAG-AAGTTCAAG-GT-AAAATGGTAATTTTTGGAAAAA-TCGAGG
55762 GTCGAAGTAT
Statistics
Matches: 149, Mismatches: 13, Indels: 24
0.80 0.07 0.13
Matches are distributed among these distances:
57 13 0.09
58 45 0.30
59 78 0.52
60 13 0.09
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.32
Consensus pattern (58 bp):
AAAAATGGAATTTTTAGAAGTTCAAGGTAAAATGGTAATTTTTGGAAAAATCGAGGTC
Found at i:55602 original size:30 final size:28
Alignment explanation
Indices: 55523--55761 Score: 146
Period size: 29 Copynumber: 8.1 Consensus size: 28
55513 GAGATAGTTT
* *
55523 GAGGATAAAAATGGAATTTTT-AGACATCC
1 GAGG-TAAAAATGGAATTTTTGAAAAAT-C
*
55552 AATGGT-AAAATGGTAATTTTTGGAAAAATC
1 GA-GGTAAAAATGG-AATTTTT-GAAAAATC
**
55582 GAGGTCAAAAATGGAATTTTTG-AAGTTC
1 GAGGT-AAAAATGGAATTTTTGAAAAATC
*
55610 GAGAGT-AAAATGGTAATTTTTGAAAAATTT
1 GAG-GTAAAAATGG-AATTTTTGAAAAA-TC
* **
55640 G-GTGTCAAAAATGGAATTTTAGAAATTTC
1 GAG-GT-AAAAATGGAATTTTTGAAAAATC
* *
55669 AGGGGTAAAAATGTAATTTTTGGAAAAATC
1 -GAGGTAAAAATGGAATTTTT-GAAAAATC
* * ** *
55699 GAGGCCAAAAATGGAATTTTGGAAAGTTT
1 GAGG-TAAAAATGGAATTTTTGAAAAATC
*
55728 GAGCGTAAAAATGTAATTTTTGAAAAATTC
1 GAG-GTAAAAATGGAATTTTTGAAAAA-TC
55758 GAGG
1 GAGG
55762 GTCGAAGTAT
Statistics
Matches: 161, Mismatches: 31, Indels: 36
0.71 0.14 0.16
Matches are distributed among these distances:
27 7 0.04
28 22 0.14
29 63 0.39
30 50 0.31
31 19 0.12
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (28 bp):
GAGGTAAAAATGGAATTTTTGAAAAATC
Found at i:55628 original size:117 final size:118
Alignment explanation
Indices: 55499--55756 Score: 314
Period size: 117 Copynumber: 2.2 Consensus size: 118
55489 TGAAAGGGGC
* * * *
55499 AAAATGGTAATTTTGAGATAGTTTGAG-GAT-AAAAATGGAATTTTTAGACA-TCCAATGGT-AA
1 AAAATGGTAATTTTGA-AAAATTTG-GTG-TCAAAAATGGAA-TTTTAGAAATTCCAAGGGTAAA
* *
55560 AATGGTAATTTTTGGAAAAATCGAGGTCAAAAATGGAATTTTTG-AAGTTCGAGAGT-
62 AAT-GTAATTTTTGGAAAAATCGAGGCCAAAAATGGAATTTTGGAAAGTTCGAGAGTA
* *
55616 AAAATGGTAATTTTTGAAAAATTTGGTGTCAAAAATGGAATTTTAGAAATTTCAGGGGTAAAAAT
1 AAAATGGTAA-TTTTGAAAAATTTGGTGTCAAAAATGGAATTTTAGAAATTCCAAGGGTAAAAAT
* *
55681 GTAATTTTTGGAAAAATCGAGGCCAAAAATGGAATTTTGGAAAGTTTGAGCGTA
65 GTAATTTTTGGAAAAATCGAGGCCAAAAATGGAATTTTGGAAAGTTCGAGAGTA
55735 AAAAT-GTAATTTTTGAAAAATT
1 AAAATGGTAA-TTTTGAAAAATT
55757 CGAGGGTCGA
Statistics
Matches: 124, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
116 10 0.08
117 71 0.57
118 38 0.31
119 5 0.04
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.33
Consensus pattern (118 bp):
AAAATGGTAATTTTGAAAAATTTGGTGTCAAAAATGGAATTTTAGAAATTCCAAGGGTAAAAATG
TAATTTTTGGAAAAATCGAGGCCAAAAATGGAATTTTGGAAAGTTCGAGAGTA
Found at i:55630 original size:58 final size:59
Alignment explanation
Indices: 55558--55761 Score: 240
Period size: 59 Copynumber: 3.5 Consensus size: 59
55548 ATCCAATGGT
*
55558 AAAATGGTAATTTTTGGAAAAA-TCGAGGTCAAAAATGGAATTTTTG-AAGTTCGAGAGT-
1 AAAAT-GTAATTTTT-GAAAAATTCGAGGTCAAAAATGGAATTTTAGAAAGTTCGAGAGTA
* * *
55616 AAAATGGTAATTTTTGAAAAATTTG-GTGTCAAAAATGGAATTTTAGAAATTTC-AGGGGTA
1 AAAAT-GTAATTTTTGAAAAATTCGAG-GTCAAAAATGGAATTTTAGAAAGTTCGA-GAGTA
* * * *
55676 AAAATGTAATTTTTGGAAAAA-TCGAGGCCAAAAATGGAATTTTGGAAAGTTTGAGCGTA
1 AAAATGTAATTTTT-GAAAAATTCGAGGTCAAAAATGGAATTTTAGAAAGTTCGAGAGTA
55735 AAAATGTAATTTTTGAAAAATTCGAGG
1 AAAATGTAATTTTTGAAAAATTCGAGG
55762 GTCGAAGTAT
Statistics
Matches: 127, Mismatches: 10, Indels: 17
0.82 0.06 0.11
Matches are distributed among these distances:
57 7 0.06
58 42 0.33
59 65 0.51
60 13 0.10
ACGTcount: A:0.41, C:0.05, G:0.23, T:0.32
Consensus pattern (59 bp):
AAAATGTAATTTTTGAAAAATTCGAGGTCAAAAATGGAATTTTAGAAAGTTCGAGAGTA
Found at i:57603 original size:17 final size:17
Alignment explanation
Indices: 57581--57688 Score: 139
Period size: 17 Copynumber: 6.3 Consensus size: 17
57571 TGGATTTTTA
*
57581 TTAAATTTATAAT-AAT
1 TTAAATTTAAAATAAAT
57597 TTGAAATTTAAAAATAAAT
1 TT-AAATTT-AAAATAAAT
* *
57616 TTAAACTTAAATTAAAT
1 TTAAATTTAAAATAAAT
57633 TTAAATTTAAAATAAAT
1 TTAAATTTAAAATAAAT
*
57650 TTAAATTTAAAACAAAT
1 TTAAATTTAAAATAAAT
57667 TT-AATCTTAAAATAAAT
1 TTAAAT-TTAAAATAAAT
57684 TTAAA
1 TTAAA
57689 ATGAGTTTGG
Statistics
Matches: 80, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
16 5 0.06
17 59 0.74
18 11 0.14
19 5 0.06
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.41
Consensus pattern (17 bp):
TTAAATTTAAAATAAAT
Found at i:57620 original size:6 final size:6
Alignment explanation
Indices: 57594--57660 Score: 75
Period size: 6 Copynumber: 11.3 Consensus size: 6
57584 AATTTATAAT
** *
57594 AATTTGA AATTTA AAAATA AATTTA AACTTA AA-TTA AATTTA AATTTA
1 AATTT-A AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
*
57642 AA-ATA AATTTA AATTTA AA
1 AATTTA AATTTA AATTTA AA
57661 ACAAATTTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
5 9 0.18
6 37 0.73
7 5 0.10
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (6 bp):
AATTTA
Found at i:57653 original size:23 final size:24
Alignment explanation
Indices: 57600--57660 Score: 81
Period size: 23 Copynumber: 2.6 Consensus size: 24
57590 TAATAATTTG
** *
57600 AAATTTAAAAATAAATTTAAACTT
1 AAATTTAAATTTAAATTTAAACAT
57624 AAA-TTAAATTTAAATTTAAA-AT
1 AAATTTAAATTTAAATTTAAACAT
57646 AAATTTAAATTTAAA
1 AAATTTAAATTTAAA
57661 ACAAATTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 4 0.12
23 26 0.79
24 3 0.09
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (24 bp):
AAATTTAAATTTAAATTTAAACAT
Found at i:58102 original size:49 final size:49
Alignment explanation
Indices: 58048--58210 Score: 199
Period size: 49 Copynumber: 3.3 Consensus size: 49
58038 CGGCTTAAAT
* *
58048 TTTCCTTTCATG-CTTTTGAGATATAAGGTTCGCCATTGCGACCTAAACC
1 TTTCCTTTCGTGTC-TTTGAGGTATAAGGTTCGCCATTGCGACCTAAACC
* * *
58097 TTTCCTTTCGTGTCTCTGAGGTATAAGGTTCGTCGTTGCGACCTAAACC
1 TTTCCTTTCGTGTCTTTGAGGTATAAGGTTCGCCATTGCGACCTAAACC
* *
58146 TTTCCCTTT-GTGTCTTTGAGGTACT-AGGTTCGCCATTGCAACTTAAACC
1 TTT-CCTTTCGTGTCTTTGAGGTA-TAAGGTTCGCCATTGCGACCTAAACC
58195 TTTCCCTTT-GTGTCTT
1 TTT-CCTTTCGTGTCTT
58211 GGCGGTACTG
Statistics
Matches: 101, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
49 94 0.93
50 7 0.07
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (49 bp):
TTTCCTTTCGTGTCTTTGAGGTATAAGGTTCGCCATTGCGACCTAAACC
Found at i:58218 original size:49 final size:49
Alignment explanation
Indices: 58073--58495 Score: 348
Period size: 49 Copynumber: 8.6 Consensus size: 49
58063 TTGAGATATA
* * *
58073 AGGTTCGCCATTGCGACCTAAACCTTT-CCTTTCGTGTCTCTGAGGTA-T
1 AGGTTCGCCGTTGCGACTTAAACCTTTCCCTTT-GTGTCTTTGAGGTACT
* *
58121 AAGGTTCGTCGTTGCGACCTAAACCTTTCCCTTTGTGTCTTTGAGGTACT
1 -AGGTTCGCCGTTGCGACTTAAACCTTTCCCTTTGTGTCTTTGAGGTACT
* * * *
58171 AGGTTCGCCATTGCAACTTAAACCTTTCCCTTTGTGTCTTGGCGGTACT
1 AGGTTCGCCGTTGCGACTTAAACCTTTCCCTTTGTGTCTTTGAGGTACT
* * ** *
58220 -GGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCCTGT-TTTCGTGGTACT
1 AGG-TTCGCCGTTGCGACTTAAACCTTTCCCTTTGTGTCTTT-GAGGTACT
* * * * * *
58269 AGATTCGCTGTTGCGGCTTAAATCTTTCTCTTTATG-CTTCTGAGGTA-T
1 AGGTTCGCCGTTGCGACTTAAACCTTTCCCTTTGTGTCTT-TGAGGTACT
* * * *
58317 AAGGTTCGCTGTTGCTACTTAAACCTTTCTCC-TTGTATC-TTCACGGTACT
1 -AGGTTCGCCGTTGCGACTTAAACCTTTC-CCTTTGTGTCTTTGA-GGTACT
* * **
58367 -GGATTCGCCGTTGCGGCTTAATTCC-TTCCCTTCATGTCTTTGAGGTACT
1 AGG-TTCGCCGTTGCGACTTAA-ACCTTTCCCTTTGTGTCTTTGAGGTACT
* * * * *
58416 AGGTTCGTCATTGCGACTTAAACTTTTCCCTTTATG-CTTCTGAGGTGC-
1 AGGTTCGCCGTTGCGACTTAAACCTTTCCCTTTGTGTCTT-TGAGGTACT
*
58464 ACGGTTCGTCGTTGCGACTTAAACCTTTCCCT
1 A-GGTTCGCCGTTGCGACTTAAACCTTTCCCT
58496 CCATATCTTC
Statistics
Matches: 306, Mismatches: 48, Indels: 40
0.78 0.12 0.10
Matches are distributed among these distances:
48 16 0.05
49 272 0.89
50 18 0.06
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.39
Consensus pattern (49 bp):
AGGTTCGCCGTTGCGACTTAAACCTTTCCCTTTGTGTCTTTGAGGTACT
Found at i:58232 original size:98 final size:98
Alignment explanation
Indices: 58073--58546 Score: 355
Period size: 98 Copynumber: 4.8 Consensus size: 98
58063 TTGAGATATA
* * * * *
58073 AGGTTCGCCATTGCGACCTAAACCTTT-CCTTTCGTGTCTCTGAGGTA-TAAGGTTCGTCGTTGC
1 AGGTTCGCCGTTGCGACTTAAACCTTTCCCTTT-ATGTCTTTGAGGTACT-AGGTTCGCCGTTGC
*
58136 GACCTAAACCTTTCCCTTTGTGTCTTTGAGGTACT
64 GACTTAAACCTTTCCCTTTGTGTCTTTGAGGTACT
* * * * *
58171 AGGTTCGCCATTGCAACTTAAACCTTTCCCTTTGTGTCTTGGCGGTACT-GGATTCGCCGTTGCG
1 AGGTTCGCCGTTGCGACTTAAACCTTTCCCTTTATGTCTTTGAGGTACTAGG-TTCGCCGTTGCG
* * ** *
58235 GCTTAAATCTTTCCCTTCCTGT-TTTCGTGGTACT
65 ACTTAAACCTTTCCCTTTGTGTCTTT-GAGGTACT
* * * * * *
58269 AGATTCGCTGTTGCGGCTTAAATCTTTCTCTTTATG-CTTCTGAGGTA-TAAGGTTCGCTGTTGC
1 AGGTTCGCCGTTGCGACTTAAACCTTTCCCTTTATGTCTT-TGAGGTACT-AGGTTCGCCGTTGC
* * *
58332 TACTTAAACCTTTCTCC-TTGTATC-TTCACGGTACT
64 GACTTAAACCTTTC-CCTTTGTGTCTTTGA-GGTACT
* * * * *
58367 -GGATTCGCCGTTGCGGCTTAATTCC-TTCCCTTCATGTCTTTGAGGTACTAGGTTCGTCATTGC
1 AGG-TTCGCCGTTGCGACTTAA-ACCTTTCCCTTTATGTCTTTGAGGTACTAGGTTCGCCGTTGC
* * *
58430 GACTTAAACTTTTCCCTTTATG-CTTCTGAGGTGC-
64 GACTTAAACCTTTCCCTTTGTGTCTT-TGAGGTACT
* ** * *
58464 ACGGTTCGTCGTTGCGACTTAAACCTTTCCCTCCATATC-TTCATGGTACT-GGATTCGCCGTTG
1 A-GGTTCGCCGTTGCGACTTAAACCTTTCCCTTTATGTCTTTGA-GGTACTAGG-TTCGCCGTTG
* *
58527 CGGCTTAAATCTTTTCCCTT
63 CGACTTAAA-CCTTTCCCTT
58547 CATGTTTCAT
Statistics
Matches: 298, Mismatches: 55, Indels: 45
0.75 0.14 0.11
Matches are distributed among these distances:
97 20 0.07
98 249 0.84
99 29 0.10
ACGTcount: A:0.15, C:0.26, G:0.20, T:0.39
Consensus pattern (98 bp):
AGGTTCGCCGTTGCGACTTAAACCTTTCCCTTTATGTCTTTGAGGTACTAGGTTCGCCGTTGCGA
CTTAAACCTTTCCCTTTGTGTCTTTGAGGTACT
Found at i:58315 original size:147 final size:145
Alignment explanation
Indices: 58076--58553 Score: 518
Period size: 147 Copynumber: 3.2 Consensus size: 145
58066 AGATATAAGG
* * * * * * * * *
58076 TTCGCCATTGCGACCTAAACCTTTCCTTTCGTGTCTCTGAGGTA-TAAGGTTCGTCGTTGCGACC
1 TTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGT-TTTGAGGTACT-AGATTCGTCGTTGCGACT
* *
58140 TAAACCTTTCCCTTTGTGTCTT-TGAGGTACTAGGTTCGCCATTGCAACTTAAACCTTTCCCTTT
64 TAAA-CTTTCCCTTTATG-CTTCTGAGGTACTAGGTTCGCCGTTGCAACTTAAACCTTTCCCTTT
* **
58204 GTGTCTTGGCGGTACTGGA
127 GTATCTTCACGGTACTGGA
* * *
58223 TTCGCCGTTGCGGCTTAAATCTTTCCCTTCCTGTTTTCGTGGTACTAGATTCG-CTGTTGCGGCT
1 TTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTTTT-GAGGTACTAGATTCGTC-GTTGCGACT
* * *
58287 TAAATCTTTCTCTTTATGCTTCTGAGGTA-TAAGGTTCGCTGTTGCTACTTAAACCTTTCTCC-T
64 TAAA-CTTTCCCTTTATGCTTCTGAGGTACT-AGGTTCGCCGTTGCAACTTAAACCTTTC-CCTT
58350 TGTATCTTCACGGTACTGGA
126 TGTATCTTCACGGTACTGGA
* * * *
58370 TTCGCCGTTGCGGCTTAATTCCTTCCCTTCATGTCTTTGAGGTACTAGGTTCGTCATTGCGACTT
1 TTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGT-TTTGAGGTACTAGATTCGTCGTTGCGACTT
* * * ***
58435 AAACTTTTCCCTTTATGCTTCTGAGGTGC-ACGGTTCGTCGTTGCGACTTAAACCTTTCCCTCCA
65 AAAC-TTTCCCTTTATGCTTCTGAGGTACTA-GGTTCGCCGTTGCAACTTAAACCTTTCCCTTTG
*
58499 TATCTTCATGGTACTGGA
128 TATCTTCACGGTACTGGA
58517 TTCGCCGTTGCGGCTTAAATCTTTTCCCTTCATGTTT
1 TTCGCCGTTGCGGCTTAAATC-TTTCCCTTCATGTTT
58554 CATCGTACTG
Statistics
Matches: 280, Mismatches: 38, Indels: 26
0.81 0.11 0.08
Matches are distributed among these distances:
146 11 0.04
147 250 0.89
148 19 0.07
ACGTcount: A:0.15, C:0.26, G:0.20, T:0.39
Consensus pattern (145 bp):
TTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGTTTTGAGGTACTAGATTCGTCGTTGCGACTTA
AACTTTCCCTTTATGCTTCTGAGGTACTAGGTTCGCCGTTGCAACTTAAACCTTTCCCTTTGTAT
CTTCACGGTACTGGA
Found at i:58526 original size:49 final size:48
Alignment explanation
Indices: 58074--58563 Score: 277
Period size: 49 Copynumber: 10.0 Consensus size: 48
58064 TGAGATATAA
* * * * *
58074 GGTTCGCCATTGCGACCTAAACCTTTCCTTTCGTGTCTCTGA-GGTA-T
1 GGTTCGCCGTTGCGACTTAAACCTTTCCCTTCATGTCT-TCATGGTACT
* * ** *
58121 AAGGTTCGTCGTTGCGACCTAAACCTTTCCCTTTGTGTCTTTGA-GGTACT
1 --GGTTCGCCGTTGCGACTTAAACCTTTCCCTTCATGTC-TTCATGGTACT
* * ** ***
58171 AGGTTCGCCATTGCAACTTAAACCTTTCCCTTTGTGTCTTGGCGGTACT
1 -GGTTCGCCGTTGCGACTTAAACCTTTCCCTTCATGTCTTCATGGTACT
* * * * *
58220 GGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCCTGTTTTCGTGGTACT
1 GG-TTCGCCGTTGCGACTTAAACCTTTCCCTTCATGTCTTCATGGTACT
* * * * * *
58269 AGATTCGCTGTTGCGGCTTAAATCTTTCTCTTTATG-CTTC-TGAGGTA-T
1 -GGTTCGCCGTTGCGACTTAAACCTTTCCCTTCATGTCTTCAT--GGTACT
* * * * *
58317 AAGGTTCGCTGTTGCTACTTAAACCTTTCTCCTT-GTATCTTCACGGTACT
1 --GGTTCGCCGTTGCGACTTAAACCTTTC-CCTTCATGTCTTCATGGTACT
* * *
58367 GGATTCGCCGTTGCGGCTTAATTCC-TTCCCTTCATGTCTTTGA-GGTACT
1 GG-TTCGCCGTTGCGACTTAA-ACCTTTCCCTTCATGTC-TTCATGGTACT
* * * *
58416 AGGTTCGTCATTGCGACTTAAACTTTTCCCTTTATG-CTTC-TGAGGTGCAC-
1 -GGTTCGCCGTTGCGACTTAAACCTTTCCCTTCATGTCTTCAT--GGT--ACT
* * *
58466 GGTTCGTCGTTGCGACTTAAACCTTTCCCTCCATATCTTCATGGTACT
1 GGTTCGCCGTTGCGACTTAAACCTTTCCCTTCATGTCTTCATGGTACT
* * *
58514 GGATTCGCCGTTGCGGCTTAAATCTTTTCCCTTCATGT-TTCATCGTACT
1 GG-TTCGCCGTTGCGACTTAAA-CCTTTCCCTTCATGTCTTCATGGTACT
58563 G
1 G
58564 AGACTTGTAG
Statistics
Matches: 356, Mismatches: 57, Indels: 56
0.76 0.12 0.12
Matches are distributed among these distances:
47 5 0.01
48 19 0.05
49 295 0.83
50 34 0.10
51 3 0.01
ACGTcount: A:0.15, C:0.26, G:0.20, T:0.39
Consensus pattern (48 bp):
GGTTCGCCGTTGCGACTTAAACCTTTCCCTTCATGTCTTCATGGTACT
Found at i:58997 original size:18 final size:18
Alignment explanation
Indices: 58976--59010 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
58966 CAAATTGCCG
*
58976 AATATTTACAAGGAACAA
1 AATAATTACAAGGAACAA
58994 AATAATTACAAGGAACA
1 AATAATTACAAGGAACA
59011 GTATTAGATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.11, G:0.11, T:0.20
Consensus pattern (18 bp):
AATAATTACAAGGAACAA
Found at i:64585 original size:29 final size:29
Alignment explanation
Indices: 64543--64602 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
64533 ATCACAGGGC
64543 GATCAGGCTTGTTCATTCATTTTTCTTCG
1 GATCAGGCTTGTTCATTCATTTTTCTTCG
64572 GATCAGGCTTGTTCATTCATTTTTCTTCG
1 GATCAGGCTTGTTCATTCATTTTTCTTCG
64601 GA
1 GA
64603 GGCACAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (29 bp):
GATCAGGCTTGTTCATTCATTTTTCTTCG
Found at i:66445 original size:155 final size:155
Alignment explanation
Indices: 66158--66466 Score: 591
Period size: 155 Copynumber: 2.0 Consensus size: 155
66148 CTAGGAGGGT
*
66158 ATTGGGGATCTTCATTTTCCTCTCTTGGGCTAACTACAGGATTTTTTCCTTTTTCTTCCTCCTGC
1 ATTGGGGATCTTCATTTTCCTCTCTTGGGCTAACTACAGGATTTTTTCCTTTTTCTGCCTCCTGC
* *
66223 AATAATTGGGTCAACCGATTGATTATGTTGCTTTGAGATTCTATAATCTGATCTCTCATATCTTG
66 AATAATTGGGTCAACCGATTGATTATGTTGCTTTGAGACTCTATAATCTGATCTCTCATATCCTG
66288 TTGGACCTTTTTCAGCTGGTCTTGA
131 TTGGACCTTTTTCAGCTGGTCTTGA
66313 ATTGGGGATCTTCATTTTCCTCTCTTGGGCTAACTACAGGATTTTTTCCTTTTTCTGCCTCCTGC
1 ATTGGGGATCTTCATTTTCCTCTCTTGGGCTAACTACAGGATTTTTTCCTTTTTCTGCCTCCTGC
66378 AATAATTGGGTCAACCGATTGATTATGTTGCTTTGAGACTCTATAATCTGATCTCTCATATCCTG
66 AATAATTGGGTCAACCGATTGATTATGTTGCTTTGAGACTCTATAATCTGATCTCTCATATCCTG
66443 TTGGACCTTTTTCAGCTGGTCTTG
131 TTGGACCTTTTTCAGCTGGTCTTG
66467 CAACTAAGTC
Statistics
Matches: 151, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
155 151 1.00
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.43
Consensus pattern (155 bp):
ATTGGGGATCTTCATTTTCCTCTCTTGGGCTAACTACAGGATTTTTTCCTTTTTCTGCCTCCTGC
AATAATTGGGTCAACCGATTGATTATGTTGCTTTGAGACTCTATAATCTGATCTCTCATATCCTG
TTGGACCTTTTTCAGCTGGTCTTGA
Found at i:70084 original size:97 final size:97
Alignment explanation
Indices: 69895--70088 Score: 223
Period size: 97 Copynumber: 2.0 Consensus size: 97
69885 AACTTTGGAA
*
69895 AAGGATATTCGATTATCTCAATTTGAAGAAAAGTCACACCTAGTAAGTTAAAGCACAAATCTTCA
1 AAGGATATTCGATTATCTCAATTTGAAGAAAAATCACACCTAGTAAGTTAAAGCACAAATCTTCA
* * *
69960 GAATCAGAGATAAAGAAACATTTCCTCGATTT
66 AAATCAGAAATAAAGAAACATTGCCTCGATTT
* * * * ** * *
69992 AAGGGTATTCGATTATTTCGATTTGAGGAAAAATTGCACCTAGTAAGTT-AAGACACAAATTTTT
1 AAGGATATTCGATTATCTCAATTTGAAGAAAAATCACACCTAGTAAGTTAAAG-CACAAATCTTC
*
70056 AAAACTC-GAAATAGAAG-AATATTGCCTCGATTT
65 AAAA-TCAGAAATA-AAGAAACATTGCCTCGATTT
70089 TAAAGTTTTC
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
96 3 0.04
97 73 0.90
98 5 0.06
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (97 bp):
AAGGATATTCGATTATCTCAATTTGAAGAAAAATCACACCTAGTAAGTTAAAGCACAAATCTTCA
AAATCAGAAATAAAGAAACATTGCCTCGATTT
Found at i:70442 original size:29 final size:30
Alignment explanation
Indices: 70410--70554 Score: 106
Period size: 30 Copynumber: 4.9 Consensus size: 30
70400 GACATCCGAT
*
70410 GGTAAAATGGTAATTTTTTAAAAAATC-GA
1 GGTAAAATGGTAATTTTTTGAAAAATCAGA
** * *
70439 GGTAAAAAATGG-AA--TTTTGAAAGTTCGGG
1 GGT--AAAATGGTAATTTTTTGAAAAATCAGA
* *
70468 GGTAAAATGATAATTTTTGGAAAAATC-GA
1 GGTAAAATGGTAATTTTTTGAAAAATCAGA
** *
70497 GGTCAAAAATGG-AA-TTTTTGAAAGTTCAGG
1 GGT--AAAATGGTAATTTTTTGAAAAATCAGA
*
70527 GGTAAAATGGTAATTTTTGGAAAAATCA
1 GGTAAAATGGTAATTTTTTGAAAAATCA
70555 AGATTATAAA
Statistics
Matches: 88, Mismatches: 17, Indels: 21
0.70 0.13 0.17
Matches are distributed among these distances:
27 6 0.07
28 18 0.20
29 23 0.26
30 28 0.32
31 13 0.15
ACGTcount: A:0.41, C:0.04, G:0.23, T:0.31
Consensus pattern (30 bp):
GGTAAAATGGTAATTTTTTGAAAAATCAGA
Found at i:70521 original size:59 final size:59
Alignment explanation
Indices: 70410--70607 Score: 274
Period size: 59 Copynumber: 3.4 Consensus size: 59
70400 GACATCCGAT
**
70410 GGTAAAATGGTAATTTTTTAAAAAATCGAGGTAAAAAATGGAA-TTTTGAAAGTTCGGG
1 GGTAAAATGGTAATTTTTGGAAAAATCGAGGTAAAAAATGGAATTTTTGAAAGTTCGGG
* * *
70468 GGTAAAATGATAATTTTTGGAAAAATCGAGGTCAAAAATGGAATTTTTGAAAGTTCAGG
1 GGTAAAATGGTAATTTTTGGAAAAATCGAGGTAAAAAATGGAATTTTTGAAAGTTCGGG
* * * * * * *
70527 GGTAAAATGGTAATTTTTGGAAAAATCAAGATTATAAATAGAATTTTGGAAAGTTCGAG
1 GGTAAAATGGTAATTTTTGGAAAAATCGAGGTAAAAAATGGAATTTTTGAAAGTTCGGG
70586 GGTAAAAT-GTAATTTTTGGAAA
1 GGTAAAATGGTAATTTTTGGAAA
70608 GTTCGAGGGT
Statistics
Matches: 125, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
58 53 0.42
59 72 0.58
ACGTcount: A:0.41, C:0.04, G:0.23, T:0.32
Consensus pattern (59 bp):
GGTAAAATGGTAATTTTTGGAAAAATCGAGGTAAAAAATGGAATTTTTGAAAGTTCGGG
Found at i:70614 original size:117 final size:116
Alignment explanation
Indices: 70354--70615 Score: 312
Period size: 117 Copynumber: 2.2 Consensus size: 116
70344 GGGGGTGGGC
** * * * *
70354 AAAATGGTAATTTCAGGAAAGTTCGAGGTCAAAATTAGAATTTTTAGACATCCGATGGTAAAATG
1 AAAAT-GTAATTTTTGGAAAGTTCGAGGTCAAAAATAGAATTTTTAGAAATCAGAGGGTAAAATG
* * * * *
70419 GTAATTTTTTAAAAAATCGAGGTAAAAAATGGAATTTTGAAAGTTCGGGGGT
65 GTAATTTTTGAAAAAATCAAGATAAAAAATAGAATTTTGAAAGTTCGAGGGT
** *
70471 AAAATGATAATTTTTGGAAAAATCGAGGTCAAAAATGGAATTTTT-GAAAGTTCAG-GGGTAAAA
1 AAAATG-TAATTTTTGGAAAGTTCGAGGTCAAAAATAGAATTTTTAGAAA--TCAGAGGGTAAAA
* * *
70534 TGGTAATTTTTGGAAAAATCAAGATTATAAATAGAATTTTGGAAAGTTCGAGGGT
63 TGGTAATTTTTGAAAAAATCAAGATAAAAAATAGAATTTT-GAAAGTTCGAGGGT
70589 AAAATGTAATTTTTGGAAAGTTCGAGG
1 AAAATGTAATTTTTGGAAAGTTCGAGG
70616 GTCGAAGTAT
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
116 4 0.03
117 96 0.79
118 22 0.18
ACGTcount: A:0.40, C:0.05, G:0.23, T:0.31
Consensus pattern (116 bp):
AAAATGTAATTTTTGGAAAGTTCGAGGTCAAAAATAGAATTTTTAGAAATCAGAGGGTAAAATGG
TAATTTTTGAAAAAATCAAGATAAAAAATAGAATTTTGAAAGTTCGAGGGT
Found at i:70633 original size:59 final size:56
Alignment explanation
Indices: 70410--70645 Score: 190
Period size: 59 Copynumber: 4.0 Consensus size: 56
70400 GACATCCGAT
** * * * *
70410 GGTAAAATGGTAATTTTTTAAAAAATCGA-GGTAAAAAATGGAATTTTGAAAGTTCGGG
1 GGTAAAAT-GTAATTTTTGGAAAAATCGAGGGTCAAATAT-GATTTTTGAAAGTTC-AG
*
70468 GGTAAAATGATAATTTTTGGAAAAATCGA-GGTCAAAAATGGAATTTTTGAAAGTTCAGG
1 GGTAAAATG-TAATTTTTGGAAAAATCGAGGGTCAAATAT-G-ATTTTTGAAAGTTCA-G
* ** * *
70527 GGTAAAATGGTAATTTTTGGAAAAATCAAGATTATAAATA-GAATTTTGGAAAGTTCGAG
1 GGTAAAAT-GTAATTTTTGGAAAAATCGAGGGT-CAAATATG-ATTTTTGAAAGTTC-AG
** * *
70586 GGTAAAATGTAATTTTTGGAAAGTTCGAGGGTCGAAGTATGATTTTTGGACAGTTCAG
1 GGTAAAATGTAATTTTTGGAAAAATCGAGGGTC-AAATATGATTTTT-GAAAGTTCAG
70644 GG
1 GG
70646 ACCTTCTGGA
Statistics
Matches: 148, Mismatches: 20, Indels: 20
0.79 0.11 0.11
Matches are distributed among these distances:
57 1 0.01
58 68 0.46
59 72 0.49
60 3 0.02
61 4 0.03
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.32
Consensus pattern (56 bp):
GGTAAAATGTAATTTTTGGAAAAATCGAGGGTCAAATATGATTTTTGAAAGTTCAG
Found at i:70641 original size:30 final size:29
Alignment explanation
Indices: 70444--70617 Score: 146
Period size: 29 Copynumber: 6.0 Consensus size: 29
70434 ATCGAGGTAA
* *
70444 AAAATGGAA-TTTT-GAAAGTTCGGGGGT
1 AAAATGTAATTTTTGGAAAGTTCGAGGGT
**
70471 AAAATGATAATTTTTGGAAAAATCGA-GGT
1 AAAATG-TAATTTTTGGAAAGTTCGAGGGT
*
70500 CAAAAATGGAATTTTT-GAAAGTTC-AGGGGT
1 --AAAATGTAATTTTTGGAAAGTTCGA-GGGT
** * **
70530 AAAATGGTAATTTTTGGAAAAATCAAGATT
1 AAAAT-GTAATTTTTGGAAAGTTCGAGGGT
70560 ATAAATAG-AA-TTTTGGAAAGTTCGAGGGT
1 A-AAAT-GTAATTTTTGGAAAGTTCGAGGGT
70589 AAAATGTAATTTTTGGAAAGTTCGAGGGT
1 AAAATGTAATTTTTGGAAAGTTCGAGGGT
70618 CGAAGTATGA
Statistics
Matches: 116, Mismatches: 18, Indels: 24
0.73 0.11 0.15
Matches are distributed among these distances:
27 7 0.06
28 14 0.12
29 55 0.47
30 28 0.24
31 12 0.10
ACGTcount: A:0.39, C:0.04, G:0.25, T:0.32
Consensus pattern (29 bp):
AAAATGTAATTTTTGGAAAGTTCGAGGGT
Found at i:71515 original size:21 final size:21
Alignment explanation
Indices: 71489--71532 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
71479 ATTTTTTGAT
* *
71489 TCTTATTTTCGAAACAGGAGA
1 TCTTATTTTCAAAACAAGAGA
71510 TCTTATTTTCAAAACAAGAGA
1 TCTTATTTTCAAAACAAGAGA
71531 TC
1 TC
71533 CATTTCTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (21 bp):
TCTTATTTTCAAAACAAGAGA
Found at i:72472 original size:17 final size:17
Alignment explanation
Indices: 72436--72491 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
72426 TGAATTTTTA
* *
72436 TTAAATTTATAATAATT
1 TTAAATTTAAAATAAAT
*
72453 TTAAATTTAAAACAAAT
1 TTAAATTTAAAATAAAT
*
72470 TT-AATCTTAAAATAAAA
1 TTAAAT-TTAAAATAAAT
72487 TTAAA
1 TTAAA
72492 ATGAATTTGG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
16 3 0.09
17 27 0.84
18 2 0.06
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (17 bp):
TTAAATTTAAAATAAAT
Found at i:72822 original size:25 final size:25
Alignment explanation
Indices: 72770--72825 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
72760 TTATTTAAAA
*
72770 TAAATATTTGATTTTAATTATTATT
1 TAAATATTTGATTTTAATTATTACT
* *
72795 TAAA-ATTTGGTTTTAATTCTATACT
1 TAAATATTTGATTTTAATTAT-TACT
72820 TAAATA
1 TAAATA
72826 ATAAATTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 14 0.54
25 11 0.42
26 1 0.04
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.54
Consensus pattern (25 bp):
TAAATATTTGATTTTAATTATTACT
Found at i:75753 original size:30 final size:32
Alignment explanation
Indices: 75689--75755 Score: 86
Period size: 30 Copynumber: 2.2 Consensus size: 32
75679 GTTATCTTTA
75689 AAATTCAAATATAAAATATTTTCAGTTAAAAT
1 AAATTCAAATATAAAATATTTTCAGTTAAAAT
* *
75721 AAATTTAAAT-TAAATTA-TTTCA-TTAAACAT
1 AAATTCAAATATAAAATATTTTCAGTTAAA-AT
75751 AAATT
1 AAATT
75756 GTATTAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 5 0.16
30 12 0.38
31 6 0.19
32 9 0.28
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.40
Consensus pattern (32 bp):
AAATTCAAATATAAAATATTTTCAGTTAAAAT
Found at i:75768 original size:30 final size:29
Alignment explanation
Indices: 75708--75768 Score: 72
Period size: 30 Copynumber: 2.0 Consensus size: 29
75698 TATAAAATAT
75708 TTTCAGTTAAAATAAATTTAAATTAAATTA
1 TTTCAGTTAAAATAAATTT-AATTAAATTA
75738 TTTCA-TTAAACATAAATTGT-ATTAATATTA
1 TTTCAGTTAAA-ATAAATT-TAATTAA-ATTA
75768 T
1 T
75769 ATAATAACCC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
29 10 0.36
30 17 0.61
31 1 0.04
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (29 bp):
TTTCAGTTAAAATAAATTTAATTAAATTA
Found at i:79635 original size:49 final size:48
Alignment explanation
Indices: 79575--79738 Score: 127
Period size: 49 Copynumber: 3.3 Consensus size: 48
79565 GTCATTACAG
*
79575 CTTAAATCTTTCCCTCCATGCTTTTGAGGTACAAGGTTTGCCGTTGTGA
1 CTTAAACCTTTCCCTCCATG-TTTTGAGGTACAAGGTTTGCCGTTGTGA
* * * * * *
79624 CTTAAACCTTTCCCTTCAT-TATCTTCACGGTAC-TGGATT-CATCGTTATGG
1 CTTAAACCTTTCCCTCCATGT-T-TTGA-GGTACAAGGTTTGC--CGTTGTGA
* * * * * *
79674 CTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAAGTTCGCCATTGCGA
1 CTTAAACCTTTCCCTCCATGTTT-TGAGGTACAAGGTTTGCCGTTGTGA
79723 CTTAAACCTTTCCCTC
1 CTTAAACCTTTCCCTC
79739 TATTATCTTC
Statistics
Matches: 87, Mismatches: 19, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
47 1 0.01
48 2 0.02
49 48 0.55
50 34 0.39
51 2 0.02
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.38
Consensus pattern (48 bp):
CTTAAACCTTTCCCTCCATGTTTTGAGGTACAAGGTTTGCCGTTGTGA
Found at i:79725 original size:99 final size:98
Alignment explanation
Indices: 79569--79793 Score: 308
Period size: 99 Copynumber: 2.3 Consensus size: 98
79559 AGATTCGTCA
* * * * * *
79569 TTACAGCTTAAATCTTTCCCTCCATGCTTTTGAGGTACAAGGTTTGCCGTTGTGACTTAAACCTT
1 TTACGGCTTAAATCTTTCCCTTCATG-TTTTGAGGTACAAAGTTCGCCATTGCGACTTAAACCTT
*
79634 TCCCT-TCATTATCTTCACGGTACTGGATTCATCG
65 TCCCTCT-ATTATCTTCACGGTACTGGATTCACCG
*
79668 TTATGGCTTAAATCTTTCCCTTCATGTTTCTGAGGTACAAAGTTCGCCATTGCGACTTAAACCTT
1 TTACGGCTTAAATCTTTCCCTTCATGTTT-TGAGGTACAAAGTTCGCCATTGCGACTTAAACCTT
* **
79733 TCCCTCTATTATCTTCGCGGTACTGGATTTGCCG
65 TCCCTCTATTATCTTCACGGTACTGGATTCACCG
*
79767 TTGCGGCTTAAATCTTTCCCTTCATGT
1 TTACGGCTTAAATCTTTCCCTTCATGT
79794 CTTCATGGTA
Statistics
Matches: 111, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
98 3 0.03
99 107 0.96
100 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.16, T:0.39
Consensus pattern (98 bp):
TTACGGCTTAAATCTTTCCCTTCATGTTTTGAGGTACAAAGTTCGCCATTGCGACTTAAACCTTT
CCCTCTATTATCTTCACGGTACTGGATTCACCG
Found at i:79777 original size:50 final size:50
Alignment explanation
Indices: 79614--79791 Score: 157
Period size: 50 Copynumber: 3.6 Consensus size: 50
79604 TACAAGGTTT
* *
79614 GCCGTTGTGACTTAAACCTTTCCCTTCATTATCTTCACGGTACTGGATTC
1 GCCGTTGCGACTTAAACCTTTCCCTTCATTATCTTCGCGGTACTGGATTC
** ** * * * * **
79664 ATCGTTATGGCTTAAATCTTTCCCTTCA-TGT-TTCTGAGGTAC-AAAGTTC
1 GCCGTTGCGACTTAAACCTTTCCCTTCATTATCTTC-GCGGTACTGGA-TTC
* *
79713 GCCATTGCGACTTAAACCTTTCCC-TCTATTATCTTCGCGGTACTGGATTT
1 GCCGTTGCGACTTAAACCTTTCCCTTC-ATTATCTTCGCGGTACTGGATTC
* *
79763 GCCGTTGCGGCTTAAATCTTTCCCTTCAT
1 GCCGTTGCGACTTAAACCTTTCCCTTCAT
79792 GTCTTCATGG
Statistics
Matches: 96, Mismatches: 25, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
48 6 0.06
49 28 0.29
50 56 0.58
51 6 0.06
ACGTcount: A:0.19, C:0.26, G:0.16, T:0.39
Consensus pattern (50 bp):
GCCGTTGCGACTTAAACCTTTCCCTTCATTATCTTCGCGGTACTGGATTC
Found at i:96464 original size:21 final size:21
Alignment explanation
Indices: 96438--96483 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
96428 CTCGGGAGCA
96438 GACGAAAGGTGACGTGGTGCC
1 GACGAAAGGTGACGTGGTGCC
96459 GACGAAAGGTGACGTGGTGCC
1 GACGAAAGGTGACGTGGTGCC
96480 GACG
1 GACG
96484 TGGATGCTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.24, C:0.20, G:0.43, T:0.13
Consensus pattern (21 bp):
GACGAAAGGTGACGTGGTGCC
Found at i:97942 original size:60 final size:60
Alignment explanation
Indices: 97855--98186 Score: 297
Period size: 60 Copynumber: 5.5 Consensus size: 60
97845 TTTGTCAGAT
* * *
97855 AAAAAATC-AATTTTTTTGGTGTCGGCCATGCCATGGCCGACACTCCTATTTGTCTGATAA
1 AAAAAATCAAATTTTTTT-GTGTTGGCCATGCCATGGCCGACACTCCTTTTTATCTGATAA
* *
97915 AAAAAATCAAATTTTTTTGTGTTGGCCATG-CATTGGCAGACACTCCTTTTT-TCAGATAA
1 AAAAAATCAAATTTTTTTGTGTTGGCCATGCCA-TGGCCGACACTCCTTTTTATCTGATAA
* * * * *
97974 AAAAATTTCAAATTTTTTTGGTGTAGGCTATTG-CATGGCCAACACTCCTTTTTATCTGA-AT
1 AAAAA-ATCAAATTTTTTT-GTGTTGGCCA-TGCCATGGCCGACACTCCTTTTTATCTGATAA
* * * *
98035 AAAAAATCAAATTTTTTTGTGTTGGTCATGCCATGACCGACACCCCCTTTTTGT-TAGAT-A
1 AAAAAATCAAATTTTTTTGTGTTGGCCATGCCATGGCCGACA-CTCCTTTTTATCT-GATAA
* * * * *
98095 AAATATTCTAATTTTTTTTTGTGTTGGCCATGCCATGGTCGACAC-CCATTTTTTTATCTGGT--
1 AAAAAATC-AA-ATTTTTTTGTGTTGGCCATGCCATGGCCGACACTCC---TTTTTATCTGATAA
*
98157 AAAAAATCAATTTTTTTTTGTGTTGGCCAT
1 AAAAAATCAA-ATTTTTTTGTGTTGGCCAT
98187 ACAATGGCAT
Statistics
Matches: 226, Mismatches: 30, Indels: 31
0.79 0.10 0.11
Matches are distributed among these distances:
58 2 0.01
59 31 0.14
60 78 0.35
61 64 0.28
62 42 0.19
63 8 0.04
64 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.40
Consensus pattern (60 bp):
AAAAAATCAAATTTTTTTGTGTTGGCCATGCCATGGCCGACACTCCTTTTTATCTGATAA
Found at i:98011 original size:121 final size:117
Alignment explanation
Indices: 97843--98195 Score: 338
Period size: 121 Copynumber: 2.9 Consensus size: 117
97833 AAATCAAATT
* * *
97843 TTTTTGTCAGATAAAAAATCAATTTTTTTGGTGTCGGCCATGCCATGGCCGACACTCCTATTTGT
1 TTTTTGTCAGATAAAAAATCAATTTTTTTGGTGTAGGCCATGCCATGGCCAACACTCCTATTTAT
97908 CTGATAAAAAAAATCAAATTTTTTTGTGTTGGCCATGCATTGGCAGACACTCC
66 CTGA-AAAAAAAATCAAATTTTTTTGTGTTGGCCATGCATTGGCAGACACTCC
* *
97961 TTTTT-TCAGATAAAAAAATTTCAAATTTTTTTGGTGTAGGCTATTG-CATGGCCAACACTCCTT
1 TTTTTGTCAGAT-AAAAAA--TC-AATTTTTTTGGTGTAGGCCA-TGCCATGGCCAACACTCCTA
* * * * *
98024 TTTATCTGAATAAAAAATCAAATTTTTTTGTGTTGGTCATGCCA-TGACCGACACCCCC
61 TTTATCTGAAAAAAAAATCAAATTTTTTTGTGTTGGCCATG-CATTGGCAGACA-CTCC
* * * * * *
98082 TTTTTGTTAGATAAAATATTCTAATTTTTTTTTGTGTTGGCCATGCCATGGTCGACAC-CCATTT
1 TTTTTGTCAGATAAAA-AATC-AA-TTTTTTTGGTGTAGGCCATGCCATGGCCAACACTCC---T
* ** * * *
98146 TTTTATCTG-GTAAAAAATCAATTTTTTTTTGTGTTGGCCATACAATGGCA
60 ATTTATCTGAAAAAAAAATCAA-ATTTTTTTGTGTTGGCCATGCATTGGCA
98196 TGGCATGGCC
Statistics
Matches: 195, Mismatches: 24, Indels: 27
0.79 0.10 0.11
Matches are distributed among these distances:
117 6 0.03
118 11 0.06
120 47 0.24
121 80 0.41
122 21 0.11
123 30 0.15
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.40
Consensus pattern (117 bp):
TTTTTGTCAGATAAAAAATCAATTTTTTTGGTGTAGGCCATGCCATGGCCAACACTCCTATTTAT
CTGAAAAAAAAATCAAATTTTTTTGTGTTGGCCATGCATTGGCAGACACTCC
Found at i:98127 original size:62 final size:59
Alignment explanation
Indices: 97852--98186 Score: 222
Period size: 61 Copynumber: 5.6 Consensus size: 59
97842 TTTTTTGTCA
* * * * *
97852 GATAAAAAATCAA-TTTTTTTGGTGTCGGCCATGCCATGGCCGACACTCCTATTTGTCTGAT
1 GATAAAAAATCAATTTTTTTTTGTGTTGGCCATGCCATGACCGACAC-CC-ATTT-TTTTAT
* * * * *
97913 -AAAAAAAATCAA-ATTTTTTTGTGTTGGCCATG-CATTGGCAGACACTCC-TTTTTTCA-
1 GATAAAAAATCAATTTTTTTTTGTGTTGGCCATGCCA-TGACCGACAC-CCATTTTTTTAT
* * * * * * * *
97969 GATAAAAAAATTTCAAATTTTTTTGGTGTAGGCTATTG-CATGGCCAACACTCC-TTTTTATCT
1 GAT-AAAAAA--TCAATTTTTTTTTGTGTTGGCCA-TGCCATGACCGACAC-CCATTTTTTTAT
* * *
98031 GAATAAAAAATCAA-ATTTTTTTGTGTTGGTCATGCCATGACCGACACCCCCTTTTTGTTA-
1 G-ATAAAAAATCAATTTTTTTTTGTGTTGGCCATGCCATGACCGACA-CCCATTTTT-TTAT
* **
98091 GATAAAATATTCTAATTTTTTTTTGTGTTGGCCATGCCATGGTCGACACCCATTTTTTTATCT
1 GATAAAA-AATC-AATTTTTTTTTGTGTTGGCCATGCCATGACCGACACCCATTTTTTTA--T
*
98154 GGTAAAAAATCAATTTTTTTTTGTGTTGGCCAT
1 GATAAAAAATCAATTTTTTTTTGTGTTGGCCAT
98187 ACAATGGCAT
Statistics
Matches: 221, Mismatches: 34, Indels: 38
0.75 0.12 0.13
Matches are distributed among these distances:
57 4 0.02
58 11 0.05
59 32 0.14
60 61 0.28
61 63 0.29
62 42 0.19
63 8 0.04
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.40
Consensus pattern (59 bp):
GATAAAAAATCAATTTTTTTTTGTGTTGGCCATGCCATGACCGACACCCATTTTTTTAT
Found at i:98275 original size:59 final size:59
Alignment explanation
Indices: 98194--98472 Score: 232
Period size: 59 Copynumber: 4.7 Consensus size: 59
98184 CATACAATGG
*
98194 CATGGCATGGCCAACACCAAAAAAATTCGAA-TTTTTATCTGACAAAAAAGGGGTGTCGGT
1 CATGGCATGGTCAACACCAAAAAAATT-GAATTTTTTATCTGA-AAAAAAGGGGTGTCGGT
* * *
98254 CATGGCAT-GTCAACACC-AAAAAATTTAATTTTTTATTCAGATAAAAAGGGGTGTCGGT
1 CATGGCATGGTCAACACCAAAAAAATTGAATTTTTTA-TCTGAAAAAAAGGGGTGTCGGT
* **
98312 CAT-GCAATGG-CTAACACACAAAAAATTTGAAATTTTTTTATCTG-AAAAAAGAAAGTGTCGG-
1 CATGGC-ATGGTC-AACAC-CAAAAAAATTG-AA-TTTTTTATCTGAAAAAAAG-GGGTGTCGGT
* * * * * * *
98373 CAATTGCATGGTCAACACAAAAAAAATTGATTTTTTTATCAGATAAATAGAGGTGTCGG-
1 C-ATGGCATGGTCAACACCAAAAAAATTGAATTTTTTATCTGAAAAAAAGGGGTGTCGGT
* * * * *
98432 CTATTGCATGGCCAACACCCAAAAATTTGATTTTTTTATCT
1 C-ATGGCATGGTCAACACCAAAAAAATTGAATTTTTTATCT
98473 AATTAAAAGG
Statistics
Matches: 182, Mismatches: 23, Indels: 29
0.78 0.10 0.12
Matches are distributed among these distances:
57 4 0.02
58 36 0.20
59 71 0.39
60 15 0.08
61 23 0.13
62 23 0.13
63 10 0.05
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (59 bp):
CATGGCATGGTCAACACCAAAAAAATTGAATTTTTTATCTGAAAAAAAGGGGTGTCGGT
Found at i:98417 original size:121 final size:117
Alignment explanation
Indices: 98198--98472 Score: 301
Period size: 121 Copynumber: 2.3 Consensus size: 117
98188 CAATGGCATG
* * ** *
98198 GCATGGCCAACACCAAAAAAATTCGA-ATTTTTATCTGACAAAAA-AGGGGTGTCGGTC-ATGGC
1 GCATGGCCAACACC-AAAAAATTTGATTTTTTTATCTGA-AAAAAGA-AAGTGTCGG-CAATTGC
* * *
98260 ATGTCAACACCAAAAAATTTAATTTTTTATTCAGATAAAAAGGGGTGTCGG-TCA-T
62 ATGTCAACACAAAAAAATTGAATTTTTTATTCAGATAAAAAGAGGTGTCGGCT-ATT
*
98315 GCAATGGCTAACACACAAAAAATTTGAAATTTTTTTATCTGAAAAAAGAAAGTGTCGGCAATTGC
1 GC-ATGGCCAACAC-CAAAAAATTTG--ATTTTTTTATCTGAAAAAAGAAAGTGTCGGCAATTGC
* *
98380 ATGGTCAACACAAAAAAAATTGATTTTTTTA-TCAGATAAATAGAGGTGTCGGCTATT
62 AT-GTCAACAC-AAAAAAATTGAATTTTTTATTCAGATAAAAAGAGGTGTCGGCTATT
*
98437 GCATGGCCAACACCCAAAAATTTGATTTTTTTATCT
1 GCATGGCCAACACCAAAAAATTTGATTTTTTTATCT
98473 AATTAAAAGG
Statistics
Matches: 134, Mismatches: 13, Indels: 21
0.80 0.08 0.12
Matches are distributed among these distances:
117 2 0.01
118 31 0.23
119 2 0.01
120 29 0.22
121 50 0.37
122 20 0.15
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.30
Consensus pattern (117 bp):
GCATGGCCAACACCAAAAAATTTGATTTTTTTATCTGAAAAAAGAAAGTGTCGGCAATTGCATGT
CAACACAAAAAAATTGAATTTTTTATTCAGATAAAAAGAGGTGTCGGCTATT
Found at i:99477 original size:22 final size:22
Alignment explanation
Indices: 99452--99500 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
99442 AAAAAAAAAA
*
99452 AAAAAAAAATCAAAGTAATTT-T
1 AAAAAAAAATCAAAAT-ATTTAT
*
99474 AAAAAAAATTCAAAATATTTAT
1 AAAAAAAAATCAAAATATTTAT
99496 AAAAA
1 AAAAA
99501 TTTTAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (22 bp):
AAAAAAAAATCAAAATATTTAT
Found at i:103895 original size:9 final size:9
Alignment explanation
Indices: 103881--103910 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
103871 GTTCAAAAAA
103881 TATATATAT
1 TATATATAT
103890 TATATATAT
1 TATATATAT
103899 TATATATAT
1 TATATATAT
103908 TAT
1 TAT
103911 TTTTTCGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TATATATAT
Found at i:105117 original size:91 final size:92
Alignment explanation
Indices: 104961--105145 Score: 327
Period size: 91 Copynumber: 2.0 Consensus size: 92
104951 GAAGACTAAT
104961 ATGCCATCTATCAAATTCAATTAGGGAGATGTCTTGTTTTGGACATCGAAGAGGATGAGTCTTAA
1 ATGCCATCTATCAAATTCAATTAGGGAGATGTCTTGTTTTGGACATCGAAGAGGATGAGTCTTAA
105026 AAGATAGAGATAGATGTGATTGATTAG
66 AAGATAGAGATAGATGTGATTGATTAG
* * *
105053 ATGCCATCTATCAAATTCAATTTGGGAGATG-CTTGTTTTGGGCATCGAAGCGGATGAGTCTTAA
1 ATGCCATCTATCAAATTCAATTAGGGAGATGTCTTGTTTTGGACATCGAAGAGGATGAGTCTTAA
*
105117 AATATAGAGATAGATGTGATTGATTAG
66 AAGATAGAGATAGATGTGATTGATTAG
105144 AT
1 AT
105146 TGACAGTACA
Statistics
Matches: 89, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
91 59 0.66
92 30 0.34
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.32
Consensus pattern (92 bp):
ATGCCATCTATCAAATTCAATTAGGGAGATGTCTTGTTTTGGACATCGAAGAGGATGAGTCTTAA
AAGATAGAGATAGATGTGATTGATTAG
Found at i:105953 original size:51 final size:51
Alignment explanation
Indices: 105872--105986 Score: 144
Period size: 51 Copynumber: 2.2 Consensus size: 51
105862 AATAAAAATG
* *
105872 ATGAAAATGAAGTAATGGGAAACATTTGGAAAT-GATTATGGTTTTTTCCTAA
1 ATGAAAATGAAGAAAT-GGAAACATTTGGAAATGGA-TATGGTTTTTTCCAAA
* *
105924 ATGAAAATGGAGAAAT-GAAATCATTTGGAAATGGATGTGGTTTTTTCCAAA
1 ATGAAAATGAAGAAATGGAAA-CATTTGGAAATGGATATGGTTTTTTCCAAA
105975 ATGAAAACTGAA
1 ATGAAAA-TGAA
105987 AATGACCTGA
Statistics
Matches: 55, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
50 4 0.07
51 32 0.58
52 19 0.35
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (51 bp):
ATGAAAATGAAGAAATGGAAACATTTGGAAATGGATATGGTTTTTTCCAAA
Found at i:106677 original size:21 final size:21
Alignment explanation
Indices: 106652--106703 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
106642 TAAAAAAATG
* *
106652 AAAATATATAAAATTATCATA
1 AAAATAAATAAAATCATCATA
*
106673 AAAATAAATAATATCATCATA
1 AAAATAAATAAAATCATCATA
*
106694 AATATAAATA
1 AAAATAAATA
106704 TTATTTATGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (21 bp):
AAAATAAATAAAATCATCATA
Found at i:109759 original size:19 final size:19
Alignment explanation
Indices: 109735--109771 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
109725 TCACTCTCTC
* *
109735 TTTTTTGATTTTAGTTTTT
1 TTTTTTAATTTTACTTTTT
109754 TTTTTTAATTTTACTTTT
1 TTTTTTAATTTTACTTTT
109772 AAAAATCATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.14, C:0.03, G:0.05, T:0.78
Consensus pattern (19 bp):
TTTTTTAATTTTACTTTTT
Found at i:112047 original size:23 final size:24
Alignment explanation
Indices: 112021--112080 Score: 79
Period size: 23 Copynumber: 2.6 Consensus size: 24
112011 CACATGAGGC
*
112021 GCGAAACAGTAAGCAA-ACGAAGT
1 GCGAAACAGTAAGCAACACAAAGT
* *
112044 GCGAAATAGTAA-TAACACAAAGT
1 GCGAAACAGTAAGCAACACAAAGT
112067 GCGAAACAGTAAGC
1 GCGAAACAGTAAGC
112081 GCGCTAGCGT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 2 0.07
23 28 0.93
ACGTcount: A:0.48, C:0.17, G:0.23, T:0.12
Consensus pattern (24 bp):
GCGAAACAGTAAGCAACACAAAGT
Found at i:115948 original size:14 final size:13
Alignment explanation
Indices: 115929--115959 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
115919 TAAGCTTTTG
115929 TTAATTAATTAAGA
1 TTAATTAATTAA-A
115943 TTAATTAATTAAA
1 TTAATTAATTAAA
115956 TTAA
1 TTAA
115960 AGGTATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (13 bp):
TTAATTAATTAAA
Found at i:119837 original size:20 final size:21
Alignment explanation
Indices: 119814--119853 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
119804 GTTGAATATT
119814 AAAAAATTTAAGG-TAAAATA
1 AAAAAATTTAAGGCTAAAATA
*
119834 AAAAGATTTAAGGCTAAAAT
1 AAAAAATTTAAGGCTAAAAT
119854 TCGAAGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.60, C:0.03, G:0.12, T:0.25
Consensus pattern (21 bp):
AAAAAATTTAAGGCTAAAATA
Found at i:132451 original size:29 final size:30
Alignment explanation
Indices: 132418--132479 Score: 108
Period size: 31 Copynumber: 2.1 Consensus size: 30
132408 TTGCACTTCT
132418 TTTATAAGTTTTTAT-AGAGTTAATCATTG
1 TTTATAAGTTTTTATAAGAGTTAATCATTG
132447 TTTATAAGTTTTTATAGAGAGTTAATCATTG
1 TTTATAAGTTTTTATA-AGAGTTAATCATTG
132478 TT
1 TT
132480 GTAAATGATG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 15 0.48
31 16 0.52
ACGTcount: A:0.31, C:0.03, G:0.15, T:0.52
Consensus pattern (30 bp):
TTTATAAGTTTTTATAAGAGTTAATCATTG
Found at i:132889 original size:21 final size:21
Alignment explanation
Indices: 132863--132905 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
132853 AGTCATAGTT
132863 AACTCAATGCAAAACAATCCG
1 AACTCAATGCAAAACAATCCG
132884 AACTCAATGCAAAACAATCCG
1 AACTCAATGCAAAACAATCCG
132905 A
1 A
132906 GCTCCCGTAC
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:0.49, C:0.28, G:0.09, T:0.14
Consensus pattern (21 bp):
AACTCAATGCAAAACAATCCG
Found at i:138614 original size:25 final size:27
Alignment explanation
Indices: 138567--138616 Score: 86
Period size: 25 Copynumber: 1.9 Consensus size: 27
138557 TTAGGAAAAA
138567 AAATTTTAAGTAATGATTATTATTATT
1 AAATTTTAAGTAATGATTATTATTATT
138594 AAATTTTAA-TAA-GATTATTATTA
1 AAATTTTAAGTAATGATTATTATTA
138617 AATATAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 11 0.48
26 3 0.13
27 9 0.39
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (27 bp):
AAATTTTAAGTAATGATTATTATTATT
Found at i:138669 original size:58 final size:59
Alignment explanation
Indices: 138607--138756 Score: 209
Period size: 58 Copynumber: 2.6 Consensus size: 59
138597 TTTTAATAAG
* *
138607 ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATTATA-TTTTAACATA
1 ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATGACATTTTTAACATA
* *
138665 ATTATTATTAAATACAATTTAAT-AAAATAAT-AATAATTTAATGACATTTTTAATATA
1 ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATGACATTTTTAACATA
*
138722 ATTATTATTAAAATATGAA-TTAATAAAAATCATAA
1 ATTATTATT-AAATAT-AATTTAATAAAAATAATAA
138757 TATATAATAT
Statistics
Matches: 81, Mismatches: 6, Indels: 8
0.85 0.06 0.08
Matches are distributed among these distances:
56 13 0.16
57 26 0.32
58 32 0.40
59 9 0.11
60 1 0.01
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (59 bp):
ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATGACATTTTTAACATA
Found at i:138939 original size:13 final size:13
Alignment explanation
Indices: 138921--138969 Score: 89
Period size: 13 Copynumber: 3.8 Consensus size: 13
138911 TGTATTTTAC
138921 GTTCAAACATAAT
1 GTTCAAACATAAT
138934 GTTCAAACATAAT
1 GTTCAAACATAAT
138947 GTTCAAACATAAT
1 GTTCAAACATAAT
*
138960 GTTCATACAT
1 GTTCAAACAT
138970 TAACAAAAAG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.33
Consensus pattern (13 bp):
GTTCAAACATAAT
Found at i:141537 original size:29 final size:27
Alignment explanation
Indices: 141478--141828 Score: 272
Period size: 30 Copynumber: 11.9 Consensus size: 27
141468 TTTAAGGTGT
* * *
141478 TTCGGGGTCGAAAAGGGGATTTTTGGGAG
1 TTCGGGGT--AAAATGGTATTTTTGGAAG
* *
141507 TTTTGGGGTAAAATGGTAGTTTTTAGAAG
1 -TTCGGGGTAAAATGGTA-TTTTTGGAAG
* *
141536 TTTCGAGGTCAAAAATGAG-ATTTTTGGGAG
1 -TTCGGGGT--AAAATG-GTATTTTTGGAAG
*
141566 TTCGAGGGTAAAATGGTAATTTTGGAAGG
1 TTCG-GGGTAAAATGGTATTTTTGGAA-G
*
141595 TTCGGGGTCAAAAATGGGATTTTTGGAAG
1 TTCGGGGT--AAAATGGTATTTTTGGAAG
141624 TTCGAGGGTAAAATGGTAATTTTTGGAAGG
1 TTCG-GGGTAAAATGGT-ATTTTTGGAA-G
* * *
141654 TTCGAGGTCAAAAATGGGATTTTGTTGAAG
1 TTCGGGGT--AAAATGGTATTTT-TGGAAG
141684 TTCGAGGGTAAAATGGTAATTTTTGGAAGG
1 TTCG-GGGTAAAATGGT-ATTTTTGGAA-G
* *
141714 TTCGAGGTCAAAAATGGGATTTTTGGAAG
1 TTCGGGGT--AAAATGGTATTTTTGGAAG
141743 TTCGGTGGTAAAATGGTAATTTTTGGAAGG
1 TTCGG-GGTAAAATGGT-ATTTTTGGAA-G
* *
141773 TTCGAGGTTAAAAATGGGATTTTTGGAAG
1 TTCG-GGGT-AAAATGGTATTTTTGGAAG
*
141802 TTCGAGGGTAAAATGGTAAGTTTTGGA
1 TTCG-GGGTAAAATGGT-ATTTTTGGA
141829 CAGTCTGGGG
Statistics
Matches: 265, Mismatches: 30, Indels: 53
0.76 0.09 0.15
Matches are distributed among these distances:
27 1 0.00
28 46 0.17
29 88 0.33
30 93 0.35
31 36 0.14
32 1 0.00
ACGTcount: A:0.29, C:0.05, G:0.33, T:0.33
Consensus pattern (27 bp):
TTCGGGGTAAAATGGTATTTTTGGAAG
Found at i:141826 original size:59 final size:59
Alignment explanation
Indices: 141478--141828 Score: 528
Period size: 59 Copynumber: 5.9 Consensus size: 59
141468 TTTAAGGTGT
* * * * * * * *
141478 TTCGGGGTCGAAAAGGGGATTTTTGGGAGTTTTG-GGGTAAAATGGTAGTTTTTAGAAGT
1 TTCGAGGTCAAAAATGGGATTTTTGGAAG-TTCGAGGGTAAAATGGTAATTTTTGGAAGG
* *
141537 TTCGAGGTCAAAAATGAGATTTTTGGGAGTTCGAGGGTAAAATGGTAA-TTTTGGAAGG
1 TTCGAGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTGGAAGG
*
141595 TTCGGGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTGGAAGG
1 TTCGAGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTGGAAGG
*
141654 TTCGAGGTCAAAAATGGGATTTTGTTGAAGTTCGAGGGTAAAATGGTAATTTTTGGAAGG
1 TTCGAGGTCAAAAATGGGATTTT-TGGAAGTTCGAGGGTAAAATGGTAATTTTTGGAAGG
141714 TTCGAGGTCAAAAATGGGATTTTTGGAAGTTCG-GTGGTAAAATGGTAATTTTTGGAAGG
1 TTCGAGGTCAAAAATGGGATTTTTGGAAGTTCGAG-GGTAAAATGGTAATTTTTGGAAGG
* *
141773 TTCGAGGTTAAAAATGGGATTTTTGGAAGTTCGAGGGTAAAATGGTAAGTTTTGGA
1 TTCGAGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTGGA
141829 CAGTCTGGGG
Statistics
Matches: 271, Mismatches: 16, Indels: 10
0.91 0.05 0.03
Matches are distributed among these distances:
58 57 0.21
59 155 0.57
60 59 0.22
ACGTcount: A:0.29, C:0.05, G:0.33, T:0.33
Consensus pattern (59 bp):
TTCGAGGTCAAAAATGGGATTTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTGGAAGG
Found at i:142633 original size:24 final size:24
Alignment explanation
Indices: 142605--142661 Score: 114
Period size: 24 Copynumber: 2.4 Consensus size: 24
142595 GATCCGAGTC
142605 TCTGGGTTTGTTTCGAAACCCAGA
1 TCTGGGTTTGTTTCGAAACCCAGA
142629 TCTGGGTTTGTTTCGAAACCCAGA
1 TCTGGGTTTGTTTCGAAACCCAGA
142653 TCTGGGTTT
1 TCTGGGTTT
142662 TCATGTACGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.18, C:0.19, G:0.26, T:0.37
Consensus pattern (24 bp):
TCTGGGTTTGTTTCGAAACCCAGA
Found at i:142906 original size:12 final size:13
Alignment explanation
Indices: 142880--142912 Score: 59
Period size: 12 Copynumber: 2.6 Consensus size: 13
142870 TATTAATTAA
142880 TAATAATATTTTT
1 TAATAATATTTTT
142893 TAATAATA-TTTT
1 TAATAATATTTTT
142905 TAATAATA
1 TAATAATA
142913 ATAAATTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TAATAATATTTTT
Found at i:143608 original size:17 final size:17
Alignment explanation
Indices: 143586--143633 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
143576 GATAAATTTT
*
143586 AATAAATTTAAATTCAG
1 AATAAATTTAAATTCAA
* *
143603 AATAAATTTAATTTTAA
1 AATAAATTTAAATTCAA
*
143620 AATAAACTTAAATT
1 AATAAATTTAAATT
143634 TGTTGGGCCC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (17 bp):
AATAAATTTAAATTCAA
Found at i:145311 original size:13 final size:12
Alignment explanation
Indices: 145285--145321 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
145275 AAAGTTAATT
145285 ATTTATTTTTAA
1 ATTTATTTTTAA
145297 ATTTATTTTTAA
1 ATTTATTTTTAA
145309 A---ATTTTTAA
1 ATTTATTTTTAA
145318 ATTT
1 ATTT
145322 GTTAGTTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
9 9 0.41
12 13 0.59
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
ATTTATTTTTAA
Found at i:148014 original size:45 final size:45
Alignment explanation
Indices: 147950--148041 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 45
147940 GCCTAGCTCA
147950 TCAAGCCAAAGATATCAGCCTCAATTTGACGAGCCACCGCAATAC
1 TCAAGCCAAAGATATCAGCCTCAATTTGACGAGCCACCGCAATAC
* * * * *
147995 TCAAGCCAAGGATATCAGCCTCAGTTTGACGAGTCATCGTAATAC
1 TCAAGCCAAAGATATCAGCCTCAATTTGACGAGCCACCGCAATAC
148040 TC
1 TC
148042 TACTCCTCCC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (45 bp):
TCAAGCCAAAGATATCAGCCTCAATTTGACGAGCCACCGCAATAC
Found at i:149920 original size:23 final size:23
Alignment explanation
Indices: 149890--150034 Score: 147
Period size: 23 Copynumber: 6.3 Consensus size: 23
149880 GCTGGGGAAA
149890 CAGTAAGCACACACAGTGC-AAT
1 CAGTAAGCACACACAGTGCGAAT
149912 CCAGTAAGCACACACAGTGC-AAT
1 -CAGTAAGCACACACAGTGCGAAT
* * * *
149935 CAGTAGGCGCACATAGCGCGAAT
1 CAGTAAGCACACACAGTGCGAAT
* *
149958 CAGTAGGCACACAAAGTGCGAAAT
1 CAGTAAGCACACACAGTGCG-AAT
*
149982 -AGTAAGCACACGA-AGTGCGAAA
1 CAGTAAGCACAC-ACAGTGCGAAT
*
150004 CAGTAAGCACACGA-AGTGCGAAA
1 CAGTAAGCACAC-ACAGTGCGAAT
150027 CAGTAAGC
1 CAGTAAGC
150035 GCACTAGCGT
Statistics
Matches: 109, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
22 17 0.16
23 88 0.81
24 4 0.04
ACGTcount: A:0.40, C:0.24, G:0.24, T:0.12
Consensus pattern (23 bp):
CAGTAAGCACACACAGTGCGAAT
Found at i:152282 original size:226 final size:226
Alignment explanation
Indices: 151888--152341 Score: 872
Period size: 226 Copynumber: 2.0 Consensus size: 226
151878 TCTCTAGAGT
*
151888 AATCACATGAGATGAGTCAGATCGGTACCTTCGTAGCATAGATACATGAAAAACATTATGAATCT
1 AATCACATGAGATGAGTCAGATCGGTACCTTCGTAGCATAGACACATGAAAAACATTATGAATCT
151953 TATCTATTTCTAGAGGAAGAGCCAATCGATAAGCAACTGGACCAATTCTTTCCAAAATCTCATAT
66 TATCTATTTCTAGAGGAAGAGCCAATCGATAAGCAACTGGACCAATTCTTTCCAAAATCTCATAT
152018 GGCCCGATAAATCTTGGGCTCAATTTCCCTTTCTTGCCAAATCGGAGAACTTTCTTCCATGGAGA
131 GGCCCGATAAATCTTGGGCTCAATTTCCCTTTCTTGCCAAATCGGAGAACTTTCTTCCATGGAGA
*
152083 CACTTTTAAGAAAACCTTTTCACCAATATTG
196 CACTTTTAAGAAAACCTTTTCACCAACATTG
152114 AATCACATGAGATGAGTCAGATCGGTACCTTCGTAGCATAGACACATGAAAAACATTATGAATCT
1 AATCACATGAGATGAGTCAGATCGGTACCTTCGTAGCATAGACACATGAAAAACATTATGAATCT
152179 TATCTATTTCTAGAGGAAGAGCCAATCGATAAGCAACTGGACCAATTCTTTCCAAAATCTCATAT
66 TATCTATTTCTAGAGGAAGAGCCAATCGATAAGCAACTGGACCAATTCTTTCCAAAATCTCATAT
*
152244 GGCCTGATAAATCTTGGGCTCAATTTCCCTTTCTTGCCAAATCGGAGAACTTTCTTCCATGGAGA
131 GGCCCGATAAATCTTGGGCTCAATTTCCCTTTCTTGCCAAATCGGAGAACTTTCTTCCATGGAGA
*
152309 CACTTTTAAGAAAACTTTTTCACCAACATTG
196 CACTTTTAAGAAAACCTTTTCACCAACATTG
152340 AA
1 AA
152342 CTCTATATCT
Statistics
Matches: 224, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
226 224 1.00
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.30
Consensus pattern (226 bp):
AATCACATGAGATGAGTCAGATCGGTACCTTCGTAGCATAGACACATGAAAAACATTATGAATCT
TATCTATTTCTAGAGGAAGAGCCAATCGATAAGCAACTGGACCAATTCTTTCCAAAATCTCATAT
GGCCCGATAAATCTTGGGCTCAATTTCCCTTTCTTGCCAAATCGGAGAACTTTCTTCCATGGAGA
CACTTTTAAGAAAACCTTTTCACCAACATTG
Found at i:157265 original size:23 final size:22
Alignment explanation
Indices: 157235--157336 Score: 96
Period size: 23 Copynumber: 4.5 Consensus size: 22
157225 GCTGGGGAAA
157235 CAGTAAGCACACACAGTGCAAT
1 CAGTAAGCACACACAGTGCAAT
157257 CCAGTAAGCACACACAGTGCAAT
1 -CAGTAAGCACACACAGTGCAAT
* * * *
157280 CAGTAGGCGCACATAGCGCAAAT
1 CAGTAAGCACACACAGTGC-AAT
* * * *
157303 CAATAGGCACACAAAGTGCGAAA
1 CAGTAAGCACACACAGTGC-AAT
*
157326 CAGTAATCACA
1 CAGTAAGCACA
157337 AGAAGTGAGA
Statistics
Matches: 65, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
22 15 0.23
23 50 0.77
ACGTcount: A:0.41, C:0.26, G:0.20, T:0.13
Consensus pattern (22 bp):
CAGTAAGCACACACAGTGCAAT
Done.