Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold198
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: 3915534
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 240068 characters in sequence are not A, C, G, or T
File 10 of 13
Found at i:2718120 original size:40 final size:40
Alignment explanation
Indices: 2718068--2718178 Score: 186
Period size: 40 Copynumber: 2.8 Consensus size: 40
2718058 TAGGCACAAA
* *
2718068 ACATTGTCGGTTTATCCGACTAGTGCTGGGCACACATTTG
1 ACATCGTCGGTTTATTCGACTAGTGCTGGGCACACATTTG
*
2718108 ACATCGTCGGTTTATTCGACTAGTGTTGGGCACACATTTG
1 ACATCGTCGGTTTATTCGACTAGTGCTGGGCACACATTTG
*
2718148 ACATCGTCGGTTTATTCGACTACTGCTGGGC
1 ACATCGTCGGTTTATTCGACTAGTGCTGGGC
2718179 GCAAGATGTT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.19, C:0.23, G:0.25, T:0.33
Consensus pattern (40 bp):
ACATCGTCGGTTTATTCGACTAGTGCTGGGCACACATTTG
Found at i:2722411 original size:33 final size:33
Alignment explanation
Indices: 2722363--2722445 Score: 132
Period size: 33 Copynumber: 2.5 Consensus size: 33
2722353 TCCAAGAATT
2722363 ATTTATTGGTGGGTTTATTAGAGTCTTTAATTGA
1 ATTTATT-GTGGGTTTATTAGAGTCTTTAATTGA
*
2722397 ATTTATTGTGGGTTTATTAGAGTCTTTACTTGA
1 ATTTATTGTGGGTTTATTAGAGTCTTTAATTGA
*
2722430 ATTTATTG-GGATTTAT
1 ATTTATTGTGGGTTTAT
2722446 ATATCAAAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
32 7 0.15
33 33 0.70
34 7 0.15
ACGTcount: A:0.23, C:0.04, G:0.22, T:0.52
Consensus pattern (33 bp):
ATTTATTGTGGGTTTATTAGAGTCTTTAATTGA
Found at i:2735519 original size:37 final size:38
Alignment explanation
Indices: 2735458--2735532 Score: 143
Period size: 37 Copynumber: 2.0 Consensus size: 38
2735448 TTTTACAGAA
2735458 TTGTTGTATTATTTTTTTCTGATTTGACACGTGTATGG
1 TTGTTGTATTATTTTTTTCTGATTTGACACGTGTATGG
2735496 TTGTTGTATT-TTTTTTTCTGATTTGACACGTGTATGG
1 TTGTTGTATTATTTTTTTCTGATTTGACACGTGTATGG
2735533 AATAAGTCCA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 27 0.73
38 10 0.27
ACGTcount: A:0.15, C:0.08, G:0.21, T:0.56
Consensus pattern (38 bp):
TTGTTGTATTATTTTTTTCTGATTTGACACGTGTATGG
Found at i:2738182 original size:19 final size:20
Alignment explanation
Indices: 2738158--2738200 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
2738148 TAGATTTATT
2738158 CTTAATTAATC-TGAATTAA
1 CTTAATTAATCATGAATTAA
*
2738177 CTTAATTAATCATTAATTAA
1 CTTAATTAATCATGAATTAA
2738197 -TTAA
1 CTTAA
2738201 ACTATAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (20 bp):
CTTAATTAATCATGAATTAA
Found at i:2738485 original size:120 final size:120
Alignment explanation
Indices: 2738271--2738510 Score: 399
Period size: 120 Copynumber: 2.0 Consensus size: 120
2738261 ACTAAGATGG
* * *
2738271 TTTAATTACTATTTTGAGCCCTTGGCAATATAAAAATCTATAGCTATTAGACTTTTATGATGTAG
1 TTTAATTACTATTTTGAACCCTTAGCAATATAAAAATCTATAGCTATTAGACGTTTATGATGTAG
2738336 TCTTTATACATTAATTAACTATCACATCGACAAAATTACTGGACCAAACTTTCAT
66 TCTTTATACATTAATTAACTATCACATCGACAAAATTACTGGACCAAACTTTCAT
* *
2738391 TTTAATTACTATTTTGAACCCTTAGCAATGTAAAAATCTATAGCTATTAGACGTTTATGATTTAG
1 TTTAATTACTATTTTGAACCCTTAGCAATATAAAAATCTATAGCTATTAGACGTTTATGATGTAG
* * * *
2738456 TCTTTGTACCTTAATTAACTATCATATCGACAAAATTACTGGACCCAACTTTCAT
66 TCTTTATACATTAATTAACTATCACATCGACAAAATTACTGGACCAAACTTTCAT
2738511 AAACTTTCAT
Statistics
Matches: 111, Mismatches: 9, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
120 111 1.00
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.39
Consensus pattern (120 bp):
TTTAATTACTATTTTGAACCCTTAGCAATATAAAAATCTATAGCTATTAGACGTTTATGATGTAG
TCTTTATACATTAATTAACTATCACATCGACAAAATTACTGGACCAAACTTTCAT
Found at i:2743440 original size:97 final size:98
Alignment explanation
Indices: 2743260--2743452 Score: 370
Period size: 97 Copynumber: 2.0 Consensus size: 98
2743250 AGTGGCGGGC
2743260 CCGGATGAGCATGGCGGGGTTCGAGTTAAAGCCGCTGAGTGAAAGCGTTGCAGAGTCGATACGTG
1 CCGGATGAGCATGGCGGGGTTCGAGTTAAAGCCGCTGAGTGAAAGCGTTGCAGAGTCGATACGTG
2743325 CCAGACTCAATTGTGGCAACCCGGGATTCACGA
66 CCAGACTCAATTGTGGCAACCCGGGATTCACGA
*
2743358 CCGGATGA-CATGTCGGGGTTCGAGTTAAAGCCGCTGAGTGAAAGCGTTGCAGAGTCGATACGTG
1 CCGGATGAGCATGGCGGGGTTCGAGTTAAAGCCGCTGAGTGAAAGCGTTGCAGAGTCGATACGTG
2743422 CCAGACTCAATTGTGGCAACCCGGGATTCAC
66 CCAGACTCAATTGTGGCAACCCGGGATTCAC
2743453 CGTTAAAGAA
Statistics
Matches: 94, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
97 86 0.91
98 8 0.09
ACGTcount: A:0.24, C:0.23, G:0.33, T:0.20
Consensus pattern (98 bp):
CCGGATGAGCATGGCGGGGTTCGAGTTAAAGCCGCTGAGTGAAAGCGTTGCAGAGTCGATACGTG
CCAGACTCAATTGTGGCAACCCGGGATTCACGA
Found at i:2744703 original size:21 final size:19
Alignment explanation
Indices: 2744673--2744721 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
2744663 TTCCAAAAAG
*
2744673 TATCGGTACCCATATGATTTT
1 TATCGATACCCATAT--TTTT
2744694 TATCGATA-CCATATTTTT
1 TATCGATACCCATATTTTT
*
2744712 TATAGATACC
1 TATCGATACC
2744722 AAAATTGCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 11 0.44
19 1 0.04
20 6 0.24
21 7 0.28
ACGTcount: A:0.29, C:0.18, G:0.10, T:0.43
Consensus pattern (19 bp):
TATCGATACCCATATTTTT
Found at i:2745150 original size:17 final size:18
Alignment explanation
Indices: 2745115--2745154 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
2745105 GTCCTACAAC
*
2745115 AACAAGAAAGAATATTCA
1 AACAAGAAAGAATAATCA
*
2745133 AACAA-AAAGATTAATCA
1 AACAAGAAAGAATAATCA
2745150 AACAA
1 AACAA
2745155 CCTTTGTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.65, C:0.12, G:0.07, T:0.15
Consensus pattern (18 bp):
AACAAGAAAGAATAATCA
Found at i:2746359 original size:16 final size:16
Alignment explanation
Indices: 2746338--2746369 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2746328 AGGGGTTGAA
2746338 AAACCAAAATTAGAAG
1 AAACCAAAATTAGAAG
2746354 AAACCAAAATTAGAAG
1 AAACCAAAATTAGAAG
2746370 TAAAAGGTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.12, G:0.12, T:0.12
Consensus pattern (16 bp):
AAACCAAAATTAGAAG
Found at i:2747808 original size:20 final size:22
Alignment explanation
Indices: 2747778--2747825 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
2747768 GGATCAACTT
*
2747778 GAAACAAAACA-GAAAATTTTG
1 GAAACAAAACATGAAAATTTGG
2747799 GAAA-AAAACATGAAAATTTGG
1 GAAACAAAACATGAAAATTTGG
2747820 GAAACA
1 GAAACA
2747826 GGGGTCACAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 6 0.25
21 17 0.71
22 1 0.04
ACGTcount: A:0.58, C:0.08, G:0.17, T:0.17
Consensus pattern (22 bp):
GAAACAAAACATGAAAATTTGG
Found at i:2756249 original size:13 final size:14
Alignment explanation
Indices: 2756223--2756251 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
2756213 GATCTAAACG
2756223 AAATAAATTAATTC
1 AAATAAATTAATTC
2756237 AAATAAA-TAATTC
1 AAATAAATTAATTC
2756250 AA
1 AA
2756252 CACCACTCCA
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:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (14 bp):
AAATAAATTAATTC
Found at i:2762060 original size:12 final size:12
Alignment explanation
Indices: 2762043--2762069 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
2762033 TTTATTGTTA
2762043 TAACATATAATT
1 TAACATATAATT
2762055 TAACATATAATT
1 TAACATATAATT
2762067 TAA
1 TAA
2762070 TCCAAAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
TAACATATAATT
Found at i:2765074 original size:15 final size:16
Alignment explanation
Indices: 2765036--2765075 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
2765026 GGCTTATGTG
2765036 ATATATGTGATGATTT
1 ATATATGTGATGATTT
* *
2765052 AAACATGTGA-GATTT
1 ATATATGTGATGATTT
2765067 ATATATGTG
1 ATATATGTG
2765076 GTTTTTAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.35, C:0.03, G:0.20, T:0.42
Consensus pattern (16 bp):
ATATATGTGATGATTT
Found at i:2770602 original size:12 final size:12
Alignment explanation
Indices: 2770585--2770609 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2770575 ATGTAGGGTT
2770585 TGCACATGTAAG
1 TGCACATGTAAG
2770597 TGCACATGTAAG
1 TGCACATGTAAG
2770609 T
1 T
2770610 CATATGCAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (12 bp):
TGCACATGTAAG
Found at i:2772003 original size:18 final size:17
Alignment explanation
Indices: 2771977--2772023 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
2771967 CATAAAACTT
2771977 AAAAAAATAAAAACTAA
1 AAAAAAATAAAAACTAA
*
2771994 AAATAAAAT-AAAACTGA
1 AAA-AAAATAAAAACTAA
*
2772011 AAAAAAAGAAAAA
1 AAAAAAATAAAAA
2772024 AAAGAGAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 4 0.15
17 17 0.65
18 5 0.19
ACGTcount: A:0.81, C:0.04, G:0.04, T:0.11
Consensus pattern (17 bp):
AAAAAAATAAAAACTAA
Found at i:2772023 original size:17 final size:15
Alignment explanation
Indices: 2771970--2772023 Score: 54
Period size: 17 Copynumber: 3.3 Consensus size: 15
2771960 ACATTTTCAT
*
2771970 AAAACTTAAAAAAATA
1 AAAAC-TAAAAAAAAA
2771986 AAAACTAAAAATAAAA
1 AAAACTAAAAA-AAAA
2772002 TAAAACTGAAAAAAAAGA
1 -AAAACT-AAAAAAAA-A
2772020 AAAA
1 AAAA
2772024 AAAGAGAGAG
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
15 6 0.18
16 8 0.24
17 13 0.39
18 6 0.18
ACGTcount: A:0.78, C:0.06, G:0.04, T:0.13
Consensus pattern (15 bp):
AAAACTAAAAAAAAA
Found at i:2774896 original size:24 final size:24
Alignment explanation
Indices: 2774880--2774961 Score: 65
Period size: 24 Copynumber: 3.2 Consensus size: 24
2774870 ATAATAATTC
2774880 TAAAAAAAGTACATATATATATTA
1 TAAAAAAAGTACATATATATATTA
* *
2774904 TAAAGAAAGTATAAACATATATAGATTA
1 TAAAAAAAG--T--ACATATATATATTA
* * * * *
2774932 TAAAATATGAAAATATAAATATTA
1 TAAAAAAAGTACATATATATATTA
2774956 TAAAAA
1 TAAAAA
2774962 TATAAATGTA
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
24 24 0.55
26 1 0.02
28 19 0.43
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.30
Consensus pattern (24 bp):
TAAAAAAAGTACATATATATATTA
Found at i:2774946 original size:8 final size:7
Alignment explanation
Indices: 2774930--2775013 Score: 53
Period size: 8 Copynumber: 10.6 Consensus size: 7
2774920 ATATATAGAT
2774930 TATAAAA
1 TATAAAA
2774937 TATGAAAA
1 TAT-AAAA
2774945 TATAAATA
1 TATAAA-A
2774953 TTATAAAAA
1 -TAT-AAAA
2774962 TATAAATGTA
1 TATAAA---A
2774972 TATAAAA
1 TATAAAA
2774979 TATAAAAA
1 TAT-AAAA
2774987 CTATGAAAA
1 -TAT-AAAA
*
2774996 -AGAAAA
1 TATAAAA
2775002 TAATAAAA
1 T-ATAAAA
2775010 TATA
1 TATA
2775014 TACATACTAT
Statistics
Matches: 63, Mismatches: 3, Indels: 22
0.72 0.03 0.25
Matches are distributed among these distances:
6 4 0.06
7 17 0.27
8 21 0.33
9 11 0.17
10 10 0.16
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.29
Consensus pattern (7 bp):
TATAAAA
Found at i:2774963 original size:17 final size:17
Alignment explanation
Indices: 2774936--2774984 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 17
2774926 AGATTATAAA
*
2774936 ATATGAAAATATAAATAT
1 ATAT-AAAATATAAATGT
2774954 -TATAAAAATATAAATGT
1 ATAT-AAAATATAAATGT
2774971 ATATAAAATATAAA
1 ATATAAAATATAAA
2774985 AACTATGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 25 0.89
18 3 0.11
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (17 bp):
ATATAAAATATAAATGT
Found at i:2774973 original size:25 final size:25
Alignment explanation
Indices: 2774892--2774995 Score: 81
Period size: 25 Copynumber: 4.0 Consensus size: 25
2774882 AAAAAAGTAC
*
2774892 ATATATATATTATAAAGAAAGTAT-AAA
1 ATATATAAATTAT-AA-AAA-TATGAAA
*
2774919 CATATATAGATTAT-AAAATATGAAA
1 -ATATATAAATTATAAAAATATGAAA
2774944 ATATA-AATATTATAAAAATAT-AAA
1 ATATATAA-ATTATAAAAATATGAAA
* *
2774968 TGTATATAAAATATAAAAACTATGAAA
1 -ATATATAAATTATAAAAA-TATGAAA
2774995 A
1 A
2774996 AGAAAATAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 16
0.75 0.06 0.19
Matches are distributed among these distances:
23 1 0.02
24 16 0.25
25 26 0.41
26 6 0.09
27 3 0.05
28 12 0.19
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.32
Consensus pattern (25 bp):
ATATATAAATTATAAAAATATGAAA
Found at i:2774995 original size:17 final size:16
Alignment explanation
Indices: 2774933--2774995 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 16
2774923 TATAGATTAT
2774933 AAAATATGAAAATATA
1 AAAATATGAAAATATA
* *
2774949 AATATTATAAAAATATA
1 AA-AATATGAAAATATA
*
2774966 AATGTATAT-AAAATATA
1 AA--AATATGAAAATATA
2774983 AAAACTATGAAAA
1 AAAA-TATGAAAA
2774996 AGAAAATAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
15 1 0.03
16 5 0.14
17 28 0.76
18 3 0.08
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.29
Consensus pattern (16 bp):
AAAATATGAAAATATA
Found at i:2776924 original size:14 final size:15
Alignment explanation
Indices: 2776905--2776938 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
2776895 TGTTTAATAC
2776905 ATATTTA-TATATAT
1 ATATTTAGTATATAT
2776919 ATATTTAGTTATATAT
1 ATATTTAG-TATATAT
2776935 ATAT
1 ATAT
2776939 CAACTTCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
16 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (15 bp):
ATATTTAGTATATAT
Found at i:2777628 original size:17 final size:18
Alignment explanation
Indices: 2777606--2777640 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2777596 AAATTATTTT
2777606 AAATAATT-AAATTTAAA
1 AAATAATTAAAATTTAAA
2777623 AAATAATTAAAATTTAAA
1 AAATAATTAAAATTTAAA
2777641 TTCAACCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAATAATTAAAATTTAAA
Found at i:2783838 original size:5 final size:5
Alignment explanation
Indices: 2783828--2783862 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
2783818 CCAAAATTAC
2783828 AAAAT AAAAT AAAAT AAAAT AAAAT ATAAA- AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT A-AAAT AAAAT
2783863 GATCTGTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 3 0.11
5 22 0.79
6 3 0.11
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:2795509 original size:25 final size:25
Alignment explanation
Indices: 2795475--2795529 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
2795465 ATTACTCTCT
*
2795475 TCTTCATCGTCTTTATCACCGTTTG
1 TCTTCATCGTCTTCATCACCGTTTG
2795500 TCTTCATCGTCTTCATCACCGTTTG
1 TCTTCATCGTCTTCATCACCGTTTG
2795525 TCTTC
1 TCTTC
2795530 CTTGTTAAGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.11, C:0.31, G:0.11, T:0.47
Consensus pattern (25 bp):
TCTTCATCGTCTTCATCACCGTTTG
Found at i:2798560 original size:15 final size:16
Alignment explanation
Indices: 2798545--2798583 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
2798535 TAACAATTAA
2798545 TTAATTTTTTAATAATTT
1 TTAATTTTTTAATAA--T
2798563 TTAATTTTTTAA-AAT
1 TTAATTTTTTAATAAT
2798578 TTAATT
1 TTAATT
2798584 ACTGATGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.33
17 2 0.10
18 12 0.57
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTAATTTTTTAATAAT
Found at i:2798568 original size:18 final size:17
Alignment explanation
Indices: 2798545--2798579 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
2798535 TAACAATTAA
2798545 TTAATTTTTTAATAATTT
1 TTAATTTTTTAA-AATTT
2798563 TTAATTTTTTAAAATTT
1 TTAATTTTTTAAAATTT
2798580 AATTACTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTAATTTTTTAAAATTT
Found at i:2798935 original size:2 final size:2
Alignment explanation
Indices: 2798928--2798954 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2798918 CAGAGTTCTT
2798928 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
2798955 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:2804392 original size:15 final size:15
Alignment explanation
Indices: 2804372--2804408 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
2804362 AAGTTATAAA
2804372 TGAACTTGACTCGAT
1 TGAACTTGACTCGAT
2804387 TGAACTTGACTCGAT
1 TGAACTTGACTCGAT
*
2804402 TAAACTT
1 TGAACTT
2804409 AAAACAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (15 bp):
TGAACTTGACTCGAT
Found at i:2806538 original size:19 final size:20
Alignment explanation
Indices: 2806501--2806540 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
2806491 CGAGACTAAA
2806501 TCAGAAACATATAGAATTTT
1 TCAGAAACATATAGAATTTT
2806521 TCAGAAA-ATA-ATGAATTTT
1 TCAGAAACATATA-GAATTTT
2806540 T
1 T
2806541 AAAACTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 1 0.05
19 11 0.58
20 7 0.37
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (20 bp):
TCAGAAACATATAGAATTTT
Found at i:2813554 original size:39 final size:39
Alignment explanation
Indices: 2813494--2813584 Score: 157
Period size: 39 Copynumber: 2.4 Consensus size: 39
2813484 AAATTAAGAA
*
2813494 ACATAATTAAA-ACACATATTAATGATGTTTAAACTAAG
1 ACATAATTAAAGACACATATTAATGATGTTCAAACTAAG
*
2813532 ACATAATTAAAGACACATATTAATGATGTTCAAACTGAG
1 ACATAATTAAAGACACATATTAATGATGTTCAAACTAAG
2813571 ACATAATTAAAGAC
1 ACATAATTAAAGAC
2813585 TCAAACTAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 11 0.22
39 39 0.78
ACGTcount: A:0.49, C:0.12, G:0.10, T:0.29
Consensus pattern (39 bp):
ACATAATTAAAGACACATATTAATGATGTTCAAACTAAG
Found at i:2829008 original size:51 final size:51
Alignment explanation
Indices: 2828931--2829033 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
2828921 TTCTCGGTGC
2828931 AATCTGAAAATACTCATGTAGCGACATTGGTACCAAAACATGACAAAATTA
1 AATCTGAAAATACTCATGTAGCGACATTGGTACCAAAACATGACAAAATTA
*
2828982 AATCTGAAAATACTCATGTAGTGACATTGGTACCAAAACATGACAAAATTA
1 AATCTGAAAATACTCATGTAGCGACATTGGTACCAAAACATGACAAAATTA
2829033 A
1 A
2829034 GGATAAATAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.46, C:0.17, G:0.14, T:0.24
Consensus pattern (51 bp):
AATCTGAAAATACTCATGTAGCGACATTGGTACCAAAACATGACAAAATTA
Found at i:2831887 original size:38 final size:38
Alignment explanation
Indices: 2831831--2831910 Score: 142
Period size: 38 Copynumber: 2.1 Consensus size: 38
2831821 TACTATATTG
* *
2831831 TGTTAATATAAACGGACTTGAAAATGGTTATGTATCGA
1 TGTTAATATAAACAGACTTGAAAATGCTTATGTATCGA
2831869 TGTTAATATAAACAGACTTGAAAATGCTTATGTATCGA
1 TGTTAATATAAACAGACTTGAAAATGCTTATGTATCGA
2831907 TGTT
1 TGTT
2831911 TTGTGTAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (38 bp):
TGTTAATATAAACAGACTTGAAAATGCTTATGTATCGA
Found at i:2853963 original size:155 final size:155
Alignment explanation
Indices: 2853556--2853925 Score: 740
Period size: 155 Copynumber: 2.4 Consensus size: 155
2853546 TAATTTCATA
2853556 TGCTCTAACTTGCAGTAATTTCATATGCTTCAAAAAGTATGCGTGCTTCAAAAATGGGTTCTTTT
1 TGCTCTAACTTGCAGTAATTTCATATGCTTCAAAAAGTATGCGTGCTTCAAAAATGGGTTCTTTT
2853621 GTTTGTATTCTCTATTGTAGTATCAAACTTCAAAACATGTTTTAATGGATCTTTGCTTAATTGGT
66 GTTTGTATTCTCTATTGTAGTATCAAACTTCAAAACATGTTTTAATGGATCTTTGCTTAATTGGT
2853686 TTTTTTTTTATTTCATTACTGATAT
131 TTTTTTTTTATTTCATTACTGATAT
2853711 TGCTCTAACTTGCAGTAATTTCATATGCTTCAAAAAGTATGCGTGCTTCAAAAATGGGTTCTTTT
1 TGCTCTAACTTGCAGTAATTTCATATGCTTCAAAAAGTATGCGTGCTTCAAAAATGGGTTCTTTT
2853776 GTTTGTATTCTCTATTGTAGTATCAAACTTCAAAACATGTTTTAATGGATCTTTGCTTAATTGGT
66 GTTTGTATTCTCTATTGTAGTATCAAACTTCAAAACATGTTTTAATGGATCTTTGCTTAATTGGT
2853841 TTTTTTTTTATTTCATTACTGATAT
131 TTTTTTTTTATTTCATTACTGATAT
2853866 TGCTCTAACTTGCAGTAATTTCATATGCTTCAAAAAGTATGCGTGCTTCAAAAATGGGTT
1 TGCTCTAACTTGCAGTAATTTCATATGCTTCAAAAAGTATGCGTGCTTCAAAAATGGGTT
2853926 TACAGATTAC
Statistics
Matches: 215, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
155 215 1.00
ACGTcount: A:0.26, C:0.14, G:0.15, T:0.45
Consensus pattern (155 bp):
TGCTCTAACTTGCAGTAATTTCATATGCTTCAAAAAGTATGCGTGCTTCAAAAATGGGTTCTTTT
GTTTGTATTCTCTATTGTAGTATCAAACTTCAAAACATGTTTTAATGGATCTTTGCTTAATTGGT
TTTTTTTTTATTTCATTACTGATAT
Found at i:2854007 original size:16 final size:16
Alignment explanation
Indices: 2853982--2854046 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
2853972 TTGATTTGCT
2853982 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
2853998 ATTACACCTCTATTCC
1 ATTACGCCTCTATTCC
*
2854014 ATTACGCCTTTATTCC
1 ATTACGCCTCTATTCC
2854030 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
2854046 A
1 A
2854047 ATACAGCGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.22, C:0.35, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:2855725 original size:38 final size:38
Alignment explanation
Indices: 2855673--2855811 Score: 181
Period size: 38 Copynumber: 3.7 Consensus size: 38
2855663 TGAATTATAT
** *
2855673 TGTTATTCGTGCTTTGTGCCTAGCAGGCTTTATGCCGG
1 TGTTATTCAAGCTTTGTGCCTAGCAGGCTTTGTGCCGG
* *
2855711 TGTTATTCAAGCTTTGTGCCTAGCAAGCTTTGTGTCGG
1 TGTTATTCAAGCTTTGTGCCTAGCAGGCTTTGTGCCGG
* * * *
2855749 TGTTATTTAGGC-TTGTGCCAAGCAGGCTTTGTGCTGG
1 TGTTATTCAAGCTTTGTGCCTAGCAGGCTTTGTGCCGG
*
2855786 TGTTATTCAAGTTTTGTGCCTAGCAG
1 TGTTATTCAAGCTTTGTGCCTAGCAG
2855812 TCTTAGTTCC
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
37 30 0.35
38 55 0.65
ACGTcount: A:0.14, C:0.18, G:0.28, T:0.40
Consensus pattern (38 bp):
TGTTATTCAAGCTTTGTGCCTAGCAGGCTTTGTGCCGG
Found at i:2858824 original size:30 final size:29
Alignment explanation
Indices: 2858789--2858867 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 29
2858779 CGGCTAAATA
*
2858789 AGGCCTATAGGCCGATTTTAATTTTTAATT
1 AGGCCTATAGGCCGATTTTAA-CTTTAATT
* *
2858819 AGGCCTTTAGGCCAATTTTAACTTTAATT
1 AGGCCTATAGGCCGATTTTAACTTTAATT
***
2858848 AGGGAAATAGGCCGATTTTA
1 AGGCCTATAGGCCGATTTTA
2858868 GGAGAGAAAC
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 22 0.54
30 19 0.46
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (29 bp):
AGGCCTATAGGCCGATTTTAACTTTAATT
Found at i:2866297 original size:43 final size:43
Alignment explanation
Indices: 2866249--2866414 Score: 192
Period size: 43 Copynumber: 3.9 Consensus size: 43
2866239 CACTAAAGGT
*
2866249 CATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGAC
1 CATGACCTTTAGCGGCGCTTTTCACACAAACGCCGCTATAGAC
* * *
2866292 CATGACCTTTAGCGGTGCTTTTCAGACAAACGCCGCTATAGTC
1 CATGACCTTTAGCGGCGCTTTTCACACAAACGCCGCTATAGAC
* ** * * *
2866335 CATGACCTTTCGCGGCGCTTTTGTCACAAACGCCGTTAAAGAA
1 CATGACCTTTAGCGGCGCTTTTCACACAAACGCCGCTATAGAC
* * *
2866378 CA-AATCTTTAGCGGCGCTTTTCGA-AAAAACGCCGCTA
1 CATGACCTTTAGCGGCGCTTTTC-ACACAAACGCCGCTA
2866415 AAAACATAAT
Statistics
Matches: 102, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
42 27 0.26
43 75 0.74
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (43 bp):
CATGACCTTTAGCGGCGCTTTTCACACAAACGCCGCTATAGAC
Found at i:2866350 original size:86 final size:85
Alignment explanation
Indices: 2866249--2866414 Score: 217
Period size: 86 Copynumber: 1.9 Consensus size: 85
2866239 CACTAAAGGT
* * * *
2866249 CATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGACCATGACCTTTAGCGGTGCTTTT
1 CATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACA-AACCTTTAGCGGCGCTTTT
*
2866314 C-AGACAAACGCCGCTATAGTC
65 CGA-AAAAACGCCGCTATAGTC
* ** * *
2866335 CATGACCTTTCGCGGCGCTTTTGTCACAAACGCCGTTAAAGAACAAATCTTTAGCGGCGCTTTTC
1 CATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACAAACCTTTAGCGGCGCTTTTC
2866400 GAAAAAACGCCGCTA
66 GAAAAAACGCCGCTA
2866415 AAAACATAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
85 29 0.42
86 40 0.58
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (85 bp):
CATGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGAACAAACCTTTAGCGGCGCTTTTC
GAAAAAACGCCGCTATAGTC
Found at i:2867358 original size:14 final size:14
Alignment explanation
Indices: 2867341--2867371 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
2867331 GAAGCTTTTG
2867341 ATATAAAGCATTTA
1 ATATAAAGCATTTA
*
2867355 ATATCAAGCATTTA
1 ATATAAAGCATTTA
2867369 ATA
1 ATA
2867372 AAAACCAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (14 bp):
ATATAAAGCATTTA
Found at i:2874614 original size:12 final size:12
Alignment explanation
Indices: 2874597--2874636 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
2874587 CTTTCTCTTC
2874597 TTTTTTTTCAAA
1 TTTTTTTTCAAA
2874609 TTTTTTTTTCAAA
1 -TTTTTTTTCAAA
*
2874622 TTTTTTTTCGAA
1 TTTTTTTTCAAA
2874634 TTT
1 TTT
2874637 ACAATTTACG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
12 14 0.54
13 12 0.46
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (12 bp):
TTTTTTTTCAAA
Found at i:2874615 original size:13 final size:13
Alignment explanation
Indices: 2874597--2874629 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
2874587 CTTTCTCTTC
2874597 TTTTTTTTCAAAT
1 TTTTTTTTCAAAT
2874610 TTTTTTTTCAAAT
1 TTTTTTTTCAAAT
2874623 TTTTTTT
1 TTTTTTT
2874630 CGAATTTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTTTTTTCAAAT
Found at i:2880836 original size:14 final size:14
Alignment explanation
Indices: 2880817--2880866 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
2880807 AAATAGTAAC
*
2880817 CCCTAAACCTTAAA
1 CCCTAAACCATAAA
* *
2880831 CTCTAAACCATATA
1 CCCTAAACCATAAA
*
2880845 CCCTAAACCAAAAA
1 CCCTAAACCATAAA
*
2880859 CCTTAAAC
1 CCCTAAAC
2880867 TATAGTGCTA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (14 bp):
CCCTAAACCATAAA
Found at i:2881066 original size:41 final size:41
Alignment explanation
Indices: 2880988--2881108 Score: 118
Period size: 41 Copynumber: 3.0 Consensus size: 41
2880978 TATAATAAAT
* * **
2880988 CTGAGTATTAGCGGCGCTTTTTAAAAAATC-CTGCTAAAACC
1 CTGAGCATTAGCGGCGCTTTTTCAAAAA-CGCCACTAAAACC
* *
2881029 CTGAGCATTAGCGGCGCTTTTTCATAAACGCCACTAAAGCC
1 CTGAGCATTAGCGGCGCTTTTTCAAAAACGCCACTAAAACC
* * * ** *
2881070 CCGGGCATTATCGGTTCTTCTTCAAAAACGCCACTAAAA
1 CTGAGCATTAGCGGCGCTTTTTCAAAAACGCCACTAAAA
2881109 ATGCCGCTAA
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
40 1 0.02
41 64 0.98
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (41 bp):
CTGAGCATTAGCGGCGCTTTTTCAAAAACGCCACTAAAACC
Found at i:2889846 original size:100 final size:100
Alignment explanation
Indices: 2889729--2889928 Score: 373
Period size: 100 Copynumber: 2.0 Consensus size: 100
2889719 CTTGTAGAAA
*
2889729 GTAAAGGTGAAAGTATATGCAATAAGATATATTATTGTTATAATACGGAATATGATCCTATTACA
1 GTAAAGGTGAAAGTATATGCAATAAGATACATTATTGTTATAATACGGAATATGATCCTATTACA
* *
2889794 TTTGAAGAGGCAATGGAATCTCAAGACTCTTCTTT
66 TTTGAAAAGGCAATGGAATCTCAAGACTATTCTTT
2889829 GTAAAGGTGAAAGTATATGCAATAAGATACATTATTGTTATAATACGGAATATGATCCTATTACA
1 GTAAAGGTGAAAGTATATGCAATAAGATACATTATTGTTATAATACGGAATATGATCCTATTACA
2889894 TTTGAAAAGGCAATGGAATCTCAAGACTATTCTTT
66 TTTGAAAAGGCAATGGAATCTCAAGACTATTCTTT
2889929 TTGGAAAGAA
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 97 1.00
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (100 bp):
GTAAAGGTGAAAGTATATGCAATAAGATACATTATTGTTATAATACGGAATATGATCCTATTACA
TTTGAAAAGGCAATGGAATCTCAAGACTATTCTTT
Found at i:2890489 original size:160 final size:153
Alignment explanation
Indices: 2890352--2890630 Score: 497
Period size: 152 Copynumber: 1.8 Consensus size: 153
2890342 TTATATAAAC
* *
2890352 ACCAAAGCATTGACTCCAAAAGTTTGACAAGGTTGTTCTAGCTAATGGCTATAAAATAAATGAAT
1 ACCAAAGCATTGACACCAAAAGTTTGACAAGGTTGTTCTAACTAATGGCTATAAAATAAATGAAT
* *
2890417 CTGATAAGTGCATATATAA-AAATTTGAAAATGGAAAATGTGTCATAATTTTCTTATATGTAAGC
66 CTGATAAGTGCATATATAACAAATTTGAAAATGGAAAAGGTGTCATAATTTGCTTATATGTAAGC
*
2890481 TTGTTAAATCTTTATATGGGCTT
131 TTGTTAAATCTCTATATGGGCTT
*
2890504 ACCAAAGCATTGACACCAAAAGTTTTACAAGGTTGTTCTAACTAATGGCTATAAAATAAATGAAT
1 ACCAAAGCATTGACACCAAAAGTTTGACAAGGTTGTTCTAACTAATGGCTATAAAATAAATGAAT
2890569 CTGATAAGTGCATATATAACAAATTTGAAAATGGAAAAGGTGTCATAATTTGCTTATATGTA
66 CTGATAAGTGCATATATAACAAATTTGAAAATGGAAAAGGTGTCATAATTTGCTTATATGTA
2890631 GATGACATGC
Statistics
Matches: 121, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
152 81 0.67
153 40 0.33
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.33
Consensus pattern (153 bp):
ACCAAAGCATTGACACCAAAAGTTTGACAAGGTTGTTCTAACTAATGGCTATAAAATAAATGAAT
CTGATAAGTGCATATATAACAAATTTGAAAATGGAAAAGGTGTCATAATTTGCTTATATGTAAGC
TTGTTAAATCTCTATATGGGCTT
Found at i:2890691 original size:152 final size:148
Alignment explanation
Indices: 2890378--2890681 Score: 362
Period size: 152 Copynumber: 2.0 Consensus size: 148
2890368 CAAAAGTTTG
*
2890378 ACAAGGTTGTTCTAGCTAATGGCTATAAAATAAATGAATCTGATAAGTGCATATATAAAAATTTG
1 ACAAGGTTGTTCTAACTAATGGCTATAAAATAAATGAATCTGATAAGTGCATATATAAAAATTTG
* * * * * * *
2890443 AAAATGGAAAATGTGTCATAATTTTCTTATATGTAAGCTTGTTAAATCTTTATATGGGCTTACCA
66 AAAATGGAAAAGGTGTCATAATTTGCTTATATGTAAGCATGTCAAATCTTTACATGGGCTGAACA
* * *
2890508 AAGCATTGACACCAAAAGTTTT
131 AAG-ATAGAAAACAAAAG---T
2890530 ACAAGGTTGTTCTAACTAATGGCTATAAAATAAATGAATCTGATAAGTGCATATATAACAAATTT
1 ACAAGGTTGTTCTAACTAATGGCTATAAAATAAATGAATCTGATAAGTGCATATATAA-AAATTT
* *
2890595 GAAAATGGAAAAGGTGTCATAATTTGCTTATATGTAGATGACATGCTCATAT-TTTGCATGGGTC
65 GAAAATGGAAAAGGTGTCATAATTTGCTTATATGTA-A-G-CATG-TCAAATCTTTACATGGG-C
2890659 TGGAAC-AAG-TAGAAAACACAAAG
125 T-GAACAAAGATAGAAAACA-AAAG
2890682 AAATTGTTGT
Statistics
Matches: 131, Mismatches: 13, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
152 57 0.44
153 40 0.31
154 1 0.01
155 7 0.05
156 15 0.11
157 9 0.07
158 2 0.02
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.32
Consensus pattern (148 bp):
ACAAGGTTGTTCTAACTAATGGCTATAAAATAAATGAATCTGATAAGTGCATATATAAAAATTTG
AAAATGGAAAAGGTGTCATAATTTGCTTATATGTAAGCATGTCAAATCTTTACATGGGCTGAACA
AAGATAGAAAACAAAAGT
Found at i:2895686 original size:23 final size:22
Alignment explanation
Indices: 2895610--2895686 Score: 86
Period size: 23 Copynumber: 3.4 Consensus size: 22
2895600 CCAAACAATT
*
2895610 TTAAAATATAA-ATTTGATATTTA
1 TTAAAATTTAATATTT-A-ATTTA
2895633 -TAAAATTTAATATTTAATTTA
1 TTAAAATTTAATATTTAATTTA
*
2895654 TTCAACATTTAATATTTCAATTTA
1 TT-AAAATTTAATATTT-AATTTA
2895678 TTAAAATTT
1 TTAAAATTT
2895687 GACATCTCTC
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
21 5 0.11
22 11 0.23
23 23 0.49
24 8 0.17
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (22 bp):
TTAAAATTTAATATTTAATTTA
Found at i:2899144 original size:2 final size:2
Alignment explanation
Indices: 2899137--2899163 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2899127 AGCAAATGTG
2899137 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
2899164 TCAAGCACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2902550 original size:54 final size:54
Alignment explanation
Indices: 2902486--2902595 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
2902476 GCTTACTCTG
2902486 TTTCCTATATGTGAAAATAGACTCATCCAACTTCTAATTCAATTTCCACTATTT
1 TTTCCTATATGTGAAAATAGACTCATCCAACTTCTAATTCAATTTCCACTATTT
*
2902540 TTTCCTATATGTGAAAATAGACTCATCCAGCTTCTAATTCAATTTCCACTATTT
1 TTTCCTATATGTGAAAATAGACTCATCCAACTTCTAATTCAATTTCCACTATTT
2902594 TT
1 TT
2902596 AGTGATTTTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.30, C:0.22, G:0.06, T:0.42
Consensus pattern (54 bp):
TTTCCTATATGTGAAAATAGACTCATCCAACTTCTAATTCAATTTCCACTATTT
Found at i:2902904 original size:45 final size:45
Alignment explanation
Indices: 2902825--2903044 Score: 282
Period size: 45 Copynumber: 4.9 Consensus size: 45
2902815 TCGTTACACA
* * **
2902825 GTGG-ATCAGCACATAGC-ACCACCCTTATAATCAATTATATTCG
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACCCG
* * ** ***
2902868 GTGGAATTAGCATATAGCAACCACCTTTATTTTCAATGATTTTCG
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACCCG
* *
2902913 GTGGAGTCAGCACATAGCAACCACCTTTATAATCAATGGTACCCG
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACCCG
* * *
2902958 GTAGAATCAGCACATAGCAACCACGTTTATAATCAATGGTACCCG
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACCCG
2903003 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATAC
1 GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATAC
2903045 TCAGTACACG
Statistics
Matches: 153, Mismatches: 22, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
43 4 0.03
44 11 0.07
45 138 0.90
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (45 bp):
GTGGAATCAGCACATAGCAACCACCTTTATAATCAATGATACCCG
Found at i:2904254 original size:20 final size:20
Alignment explanation
Indices: 2904226--2904289 Score: 92
Period size: 20 Copynumber: 3.2 Consensus size: 20
2904216 TCAAAATGCT
2904226 AACAAAGGCACCGAAGTGCA
1 AACAAAGGCACCGAAGTGCA
* *
2904246 AACAGAGGCATCGAAGTGCA
1 AACAAAGGCACCGAAGTGCA
* *
2904266 ATCAAAGGCACCAAAGTGCA
1 AACAAAGGCACCGAAGTGCA
2904286 AACA
1 AACA
2904290 GAGGGAACAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.45, C:0.23, G:0.23, T:0.08
Consensus pattern (20 bp):
AACAAAGGCACCGAAGTGCA
Found at i:2904300 original size:20 final size:20
Alignment explanation
Indices: 2904207--2904326 Score: 80
Period size: 20 Copynumber: 6.0 Consensus size: 20
2904197 CTAAACACAT
* * *
2904207 CAGAGAGCATCAAAATGCTAA
1 CAGAG-GCAACAAAGTGCAAA
* * *
2904228 CAAAGGCACCGAAGTGCAAA
1 CAGAGGCAACAAAGTGCAAA
* * *
2904248 CAGAGGCATCGAAGTGCAAT
1 CAGAGGCAACAAAGTGCAAA
* *
2904268 CAAAGGCACCAAAGTGCAAA
1 CAGAGGCAACAAAGTGCAAA
* *
2904288 CAGAGGGAACAAAGTGAAAA
1 CAGAGGCAACAAAGTGCAAA
* *
2904308 TAGAGG-AATTAAAGTGCAA
1 CAGAGGCAA-CAAAGTGCAA
2904327 TCCCATACAA
Statistics
Matches: 79, Mismatches: 19, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
19 2 0.03
20 73 0.92
21 4 0.05
ACGTcount: A:0.47, C:0.17, G:0.25, T:0.11
Consensus pattern (20 bp):
CAGAGGCAACAAAGTGCAAA
Found at i:2904303 original size:40 final size:40
Alignment explanation
Indices: 2904228--2904303 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
2904218 AAAATGCTAA
* * *
2904228 CAAAGGCACCGAAGTGCAAACAGAGGCATCGAAGTGCAAT
1 CAAAGGCACCAAAGTGCAAACAGAGGCAACAAAGTGCAAT
*
2904268 CAAAGGCACCAAAGTGCAAACAGAGGGAACAAAGTG
1 CAAAGGCACCAAAGTGCAAACAGAGGCAACAAAGTG
2904304 AAAATAGAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.43, C:0.21, G:0.28, T:0.08
Consensus pattern (40 bp):
CAAAGGCACCAAAGTGCAAACAGAGGCAACAAAGTGCAAT
Found at i:2912390 original size:19 final size:19
Alignment explanation
Indices: 2912362--2912407 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
2912352 ACATGAGATT
2912362 ATAAAATATTTATCA-ATC
1 ATAAAATATTTATCACATC
*
2912380 ATAACAATATTTGTCACATC
1 ATAA-AATATTTATCACATC
*
2912400 ATATAATA
1 ATAAAATA
2912408 AAAATCAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 4 0.17
19 14 0.58
20 6 0.25
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (19 bp):
ATAAAATATTTATCACATC
Found at i:2913246 original size:33 final size:34
Alignment explanation
Indices: 2913204--2913271 Score: 86
Period size: 33 Copynumber: 2.0 Consensus size: 34
2913194 TTGTATGCTT
*
2913204 TTGATATGGTGCTGGTATGGTGG-TGTATTGGTGG
1 TTGATATGGTGCTGGTATAGTGGTTGTA-TGGTGG
* *
2913238 TTGA-ATGGTGGTGGTGTAGTGGTTGTATGGTGG
1 TTGATATGGTGCTGGTATAGTGGTTGTATGGTGG
2913271 T
1 T
2913272 GATTCGGTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
33 22 0.73
34 8 0.27
ACGTcount: A:0.12, C:0.01, G:0.46, T:0.41
Consensus pattern (34 bp):
TTGATATGGTGCTGGTATAGTGGTTGTATGGTGG
Found at i:2913281 original size:22 final size:21
Alignment explanation
Indices: 2913218--2913297 Score: 81
Period size: 22 Copynumber: 3.7 Consensus size: 21
2913208 TATGGTGCTG
2913218 GTATGGTGGTGTATTGGTGGTT
1 GTATGGTGGTG-ATTGGTGGTT
* * *
2913240 GAATGGTGGTGGTGTAGTGGTT
1 GTATGGTGGTGAT-TGGTGGTT
2913262 GTATGGTGGTGATTCGGTGG-T
1 GTATGGTGGTGATT-GGTGGTT
*
2913283 GATAGGGTGGTGATT
1 G-TATGGTGGTGATT
2913298 TGGTTTGTAA
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
21 4 0.08
22 44 0.92
ACGTcount: A:0.12, C:0.01, G:0.47, T:0.39
Consensus pattern (21 bp):
GTATGGTGGTGATTGGTGGTT
Found at i:2915608 original size:135 final size:135
Alignment explanation
Indices: 2915269--2915657 Score: 465
Period size: 135 Copynumber: 2.9 Consensus size: 135
2915259 TAGTGAACTT
* * * * * *
2915269 CATATGTTGTCATAGCCTAGCTATGGTCTTACACCATACTATGCCATGTTTACTATCCTGGCGGG
1 CATATGTTATCATAGCCCAACTATGGTCTTACACCATACGATGCCATGTTTACTATCCAGGCGGA
* * * * * *
2915334 CTTTATATGTTACCATAGCCCAGCTATAGTCCTAAACCATACGATGCCATGTTTATTATCCTAGC
66 CTTCATATGTTGCCATAGCCCAGCTATGGTCTTACACCATACGATGCCATG-TTACTATCCTAGC
* *
2915399 AGATTT
130 AGACTG
* * * * * * *
2915405 CATATGTTTTCATAACCCAATTATGGTCTTACACCATATGATGCCATGTTTATTATCCTA-GAGA
1 CATATGTTATCATAGCCCAACTATGGTCTTACACCATACGATGCCATGTTTACTATCC-AGGCGG
* * * *
2915469 ACTTCATATGTTGCCATAGCCCAGCTATGGTCTTACACCATACAATGCCATGTTACTGTCTTGGC
65 ACTTCATATGTTGCCATAGCCCAGCTATGGTCTTACACCATACGATGCCATGTTACTATCCTAGC
*
2915534 GGACTG
130 AGACTG
* * *
2915540 CATATGTTACCATAGCCCAACTATGGTTTTACACCATACGATGCCATGTTTACTGTCCAGGCGGA
1 CATATGTTATCATAGCCCAACTATGGTCTTACACCATACGATGCCATGTTTACTATCCAGGCGGA
* * *
2915605 CTTCATATGTTGTCATAGCCCAACTATGGTCTTACACCATATGATGCCATGTT
66 CTTCATATGTTGCCATAGCCCAGCTATGGTCTTACACCATACGATGCCATGTT
2915658 TATTGTCCTA
Statistics
Matches: 212, Mismatches: 39, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
134 1 0.00
135 114 0.54
136 97 0.46
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.34
Consensus pattern (135 bp):
CATATGTTATCATAGCCCAACTATGGTCTTACACCATACGATGCCATGTTTACTATCCAGGCGGA
CTTCATATGTTGCCATAGCCCAGCTATGGTCTTACACCATACGATGCCATGTTACTATCCTAGCA
GACTG
Found at i:2915635 original size:203 final size:204
Alignment explanation
Indices: 2915258--2915677 Score: 603
Period size: 203 Copynumber: 2.1 Consensus size: 204
2915248 ATTCACTATT
* * * *
2915258 CTAGTGAACTTCATATGTTGTCATAGCCTAGCTATGGTCTTACACCATACTATGCCATGTTTACT
1 CTAGAGAACTTCATATGTTGCCATAGCCCAGCTATGGTCTTACACCATACAATGCCATGTTTACT
* ** *
2915323 ATCCTGGCGGGCTTTATATGTTACCATAGCCCAGCTATAGTCCTAAACCATACGATGCCATGTTT
66 ATCCTGGCGGACTGCATATGTTACCATAGCCCAACTATAGTCCTAAACCATACGATGCCATGTTT
* * * *
2915388 ATTATCCTAGCAGATTTCATATGTTTTCATAACCCAATTATGGTCTTACACCATATGATGCCATG
131 ACTATCCTAGCAGACTTCATATGTTGTCATAACCCAACTATGGTCTTACACCATATGATGCCATG
2915453 TTTATTATC
196 TTTATTATC
2915462 CTAGAGAACTTCATATGTTGCCATAGCCCAGCTATGGTCTTACACCATACAATGCCATG-TTACT
1 CTAGAGAACTTCATATGTTGCCATAGCCCAGCTATGGTCTTACACCATACAATGCCATGTTTACT
* * * ** *
2915526 GTCTTGGCGGACTGCATATGTTACCATAGCCCAACTATGGTTTTACACCATACGATGCCATGTTT
66 ATCCTGGCGGACTGCATATGTTACCATAGCCCAACTATAGTCCTAAACCATACGATGCCATGTTT
* * *
2915591 ACTGTCC-AGGCGGACTTCATATGTTGTCATAGCCCAACTATGGTCTTACACCATATGATGCCAT
131 ACTATCCTA-GCAGACTTCATATGTTGTCATAACCCAACTATGGTCTTACACCATATGATGCCAT
*
2915655 GTTTATTGTC
195 GTTTATTATC
2915665 CTA-ACGAACTTCA
1 CTAGA-GAACTTCA
2915678 GATTTGAGGA
Statistics
Matches: 192, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
202 2 0.01
203 135 0.70
204 55 0.29
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (204 bp):
CTAGAGAACTTCATATGTTGCCATAGCCCAGCTATGGTCTTACACCATACAATGCCATGTTTACT
ATCCTGGCGGACTGCATATGTTACCATAGCCCAACTATAGTCCTAAACCATACGATGCCATGTTT
ACTATCCTAGCAGACTTCATATGTTGTCATAACCCAACTATGGTCTTACACCATATGATGCCATG
TTTATTATC
Found at i:2915676 original size:68 final size:68
Alignment explanation
Indices: 2915252--2915677 Score: 453
Period size: 68 Copynumber: 6.3 Consensus size: 68
2915242 TTCCTGATTC
* * * * * *
2915252 ACTATTCTAGTGAACTTCATATGTTGTCATAGCCTAGCTATGGTCTTACACCATACTATGCCATG
1 ACTATCCTAGCGAACTTCATATGTTGCCATAGCCCAACTATGGTCTTACACCATACGATGCCATG
2915317 TTT
66 TTT
* ** * * * * * *
2915320 ACTATCCTGGCGGGCTTTATATGTTACCATAGCCCAGCTATAGTCCTAAACCATACGATGCCATG
1 ACTATCCTAGCGAACTTCATATGTTGCCATAGCCCAACTATGGTCTTACACCATACGATGCCATG
2915385 TTT
66 TTT
* * ** * * *
2915388 ATTATCCTAGC-AGATTTCATATGTTTTCATAACCCAATTATGGTCTTACACCATATGATGCCAT
1 ACTATCCTAGCGA-ACTTCATATGTTGCCATAGCCCAACTATGGTCTTACACCATACGATGCCAT
2915452 GTTT
65 GTTT
* * * *
2915456 ATTATCCTAGAGAACTTCATATGTTGCCATAGCCCAGCTATGGTCTTACACCATACAATGCCATG
1 ACTATCCTAGCGAACTTCATATGTTGCCATAGCCCAACTATGGTCTTACACCATACGATGCCATG
2915521 -TT
66 TTT
* * * * * * *
2915523 ACTGTCTTGGCGGACTGCATATGTTACCATAGCCCAACTATGGTTTTACACCATACGATGCCATG
1 ACTATCCTAGCGAACTTCATATGTTGCCATAGCCCAACTATGGTCTTACACCATACGATGCCATG
2915588 TTT
66 TTT
* * * *
2915591 ACTGTCC-AGGCGGACTTCATATGTTGTCATAGCCCAACTATGGTCTTACACCATATGATGCCAT
1 ACTATCCTA-GCGAACTTCATATGTTGCCATAGCCCAACTATGGTCTTACACCATACGATGCCAT
2915655 GTTT
65 GTTT
* * *
2915659 ATTGTCCTAACGAACTTCA
1 ACTATCCTAGCGAACTTCA
2915678 GATTTGAGGA
Statistics
Matches: 295, Mismatches: 58, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
67 56 0.19
68 237 0.80
69 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (68 bp):
ACTATCCTAGCGAACTTCATATGTTGCCATAGCCCAACTATGGTCTTACACCATACGATGCCATG
TTT
Found at i:2916804 original size:22 final size:24
Alignment explanation
Indices: 2916779--2916826 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 24
2916769 CCAACTACTC
2916779 GTTGTAACACCTTCAGC-T-GCTT
1 GTTGTAACACCTTCAGCATGGCTT
*
2916801 GTTGTAGCACCTTCAGCATGGCTT
1 GTTGTAACACCTTCAGCATGGCTT
2916825 GT
1 GT
2916827 GGCGCAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.70
23 1 0.04
24 6 0.26
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (24 bp):
GTTGTAACACCTTCAGCATGGCTT
Found at i:2925269 original size:68 final size:67
Alignment explanation
Indices: 2925157--2925330 Score: 201
Period size: 68 Copynumber: 2.6 Consensus size: 67
2925147 AGTGTTTCCA
* * *
2925157 ACCATACAATGTCATGTTTACTGT-TATGGCAGACTTTATTTGTTGCTACA-A-CCCAACTTTGG
1 ACCATACAATGTCATGTTTACTGTCT-TGG-AGACTTCATATGTTG-T-CATAGCCCAACTATGG
2925219 TCTTAC
62 TCTTAC
* * *
2925225 ACCATACTATGTCATGTTTGCTGTCTTGGAGGACTTCATATGTTGTCATAGCCCAGCTATGGTCT
1 ACCATACAATGTCATGTTTACTGTCTTGGA-GACTTCATATGTTGTCATAGCCCAACTATGGTCT
2925290 TAC
65 TAC
* *
2925293 ACCATACAATGTCATGTTTACTATCTTGGCTGACTTCA
1 ACCATACAATGTCATGTTTACTGTCTTGG-AGACTTCA
2925331 GATTTTGAGA
Statistics
Matches: 91, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
66 2 0.02
67 3 0.03
68 85 0.93
69 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (67 bp):
ACCATACAATGTCATGTTTACTGTCTTGGAGACTTCATATGTTGTCATAGCCCAACTATGGTCTT
AC
Found at i:2947750 original size:15 final size:16
Alignment explanation
Indices: 2947726--2947769 Score: 74
Period size: 15 Copynumber: 2.9 Consensus size: 16
2947716 TAGGCTCGGG
2947726 TTTAATTTTAAATTAT
1 TTTAATTTTAAATTAT
2947742 TTT-ATTTT-AATTAT
1 TTTAATTTTAAATTAT
2947756 TTTAATTTTAAATT
1 TTTAATTTTAAATT
2947770 GCTTTCTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
14 9 0.35
15 10 0.38
16 7 0.27
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTAATTTTAAATTAT
Found at i:2948902 original size:15 final size:13
Alignment explanation
Indices: 2948855--2948894 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 13
2948845 AAAATCTCAA
*
2948855 TAAATAAAAATAT
1 TAAATTAAAATAT
2948868 TAAATTATTAAATAT
1 TAAATTA--AAATAT
2948883 TAAATTAAAATA
1 TAAATTAAAATA
2948895 ATATAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 11 0.46
15 13 0.54
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAATTAAAATAT
Found at i:2949112 original size:15 final size:13
Alignment explanation
Indices: 2949066--2949105 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 13
2949056 AAAATCTCAA
*
2949066 TAAATAAAAATAT
1 TAAATTAAAATAT
2949079 TAAATTATTAAATAT
1 TAAATTA--AAATAT
2949094 TAAATTAAAATA
1 TAAATTAAAATA
2949106 ATATAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 11 0.46
15 13 0.54
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAATTAAAATAT
Found at i:2953629 original size:139 final size:138
Alignment explanation
Indices: 2953400--2953684 Score: 464
Period size: 139 Copynumber: 2.1 Consensus size: 138
2953390 GAGAACATAG
* *
2953400 ATATAATTAATATATGAATTTAATTCATACAAAATATTCATTGTATATGTTTCACAGAATTTATT
1 ATATAATTAATATATGAATTTAATTCATACAAAATATTAATTGTATAGGTTTCACAGAATTTATT
**
2953465 AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTT
66 AATATAAACAATTATATTAATTAATTTCAATCAAAATATAAAAGACATGAAAATTAATATTCTTT
2953530 TGGAAAGA
131 TGGAAAGA
* * * *
2953538 ATATAATTAATATATGAATTTGATTTATACAAAAATATTAATTGTATAGGTTTTACCGAATTTAT
1 ATATAATTAATATATGAATTTAATTCATAC-AAAATATTAATTGTATAGGTTTCACAGAATTTAT
*
2953603 TAATATAAA-AAGTTATATTAATTAATTTCAATCAAAATATAAAAGACATGGAAATTAATATTCT
65 TAATATAAACAA-TTATATTAATTAATTTCAATCAAAATATAAAAGACATGAAAATTAATATTCT
2953667 TTTGGAAAGA
129 TTTGGAAAGA
2953677 ATATAATT
1 ATATAATT
2953685 CCTTTTTCTA
Statistics
Matches: 136, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
138 30 0.22
139 106 0.78
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (138 bp):
ATATAATTAATATATGAATTTAATTCATACAAAATATTAATTGTATAGGTTTCACAGAATTTATT
AATATAAACAATTATATTAATTAATTTCAATCAAAATATAAAAGACATGAAAATTAATATTCTTT
TGGAAAGA
Found at i:2953748 original size:75 final size:75
Alignment explanation
Indices: 2953660--2953807 Score: 233
Period size: 75 Copynumber: 2.0 Consensus size: 75
2953650 ATGGAAATTA
* * * * *
2953660 ATATTCTTTTGGAAAGAATATAATTCCTTTTTCTAACTTTTCATTTGCCTTCTCTATTAGTAAGG
1 ATATTCTTTTGGAAAGAAAAGAATTCATTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAGG
2953725 GAATAATCTT
66 GAATAATCTT
* *
2953735 ATATTCTTTTGGAAATAAAAGAATTTATTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAGG
1 ATATTCTTTTGGAAAGAAAAGAATTCATTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAGG
2953800 GAATAATC
66 GAATAATC
2953808 CTAGTTTTCT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
75 66 1.00
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.45
Consensus pattern (75 bp):
ATATTCTTTTGGAAAGAAAAGAATTCATTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAGG
GAATAATCTT
Found at i:2954936 original size:31 final size:31
Alignment explanation
Indices: 2954896--2954988 Score: 118
Period size: 31 Copynumber: 3.0 Consensus size: 31
2954886 CGATGGACTG
* *
2954896 TATC-TGTGTTTACGGTCCCAACGGACTATC
1 TATCATGTGTTTACTGTCCCAGCGGACTATC
*
2954926 TATCATGTGTTTACTGTCCCTGCGGGA-TATC
1 TATCATGTGTTTACTGTCCCAGC-GGACTATC
* *
2954957 TATCATGTGTTTATTGTCCCAGCAGACTATC
1 TATCATGTGTTTACTGTCCCAGCGGACTATC
2954988 T
1 T
2954989 GTTCTATGGA
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
30 6 0.11
31 45 0.83
32 3 0.06
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (31 bp):
TATCATGTGTTTACTGTCCCAGCGGACTATC
Found at i:2958745 original size:16 final size:18
Alignment explanation
Indices: 2958719--2958751 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2958709 TTAAATTAAC
2958719 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
2958736 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
2958752 CCTAATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:2964723 original size:19 final size:19
Alignment explanation
Indices: 2964699--2964741 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
2964689 GTTTCTAATA
*
2964699 TATATTATATTTTATACC-T
1 TATATTAT-TTATATACCTT
2964718 TATATTATTTATATACCTT
1 TATATTATTTATATACCTT
2964737 TATAT
1 TATAT
2964742 ACATATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATTATTTATATACCTT
Found at i:2966220 original size:76 final size:76
Alignment explanation
Indices: 2966121--2966275 Score: 240
Period size: 76 Copynumber: 2.0 Consensus size: 76
2966111 GAGTCATCAT
** *
2966121 TTAATTTGGAAAAATTATGATTTAGTCCTTCAAAATTCTTCACC-TTTTCAATTTGGTCCTAATC
1 TTAATTTGGAAAAATTACAATTTAGTCC-TCAAAATTCTTCACCTTTTTCAATTTGGTCCTAACC
2966185 CATCCATTTTCC
65 CATCCATTTTCC
* * *
2966197 TTAATTTGGTAAAATTGCAATTTAGTCCTCAAAATTCTTCACCTTTTTCATTTTGGTCCTAACCC
1 TTAATTTGGAAAAATTACAATTTAGTCCTCAAAATTCTTCACCTTTTTCAATTTGGTCCTAACCC
2966262 ATCCATTTTCC
66 ATCCATTTTCC
2966273 TTA
1 TTA
2966276 GTTTCTAGAT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
75 15 0.21
76 57 0.79
ACGTcount: A:0.26, C:0.22, G:0.08, T:0.44
Consensus pattern (76 bp):
TTAATTTGGAAAAATTACAATTTAGTCCTCAAAATTCTTCACCTTTTTCAATTTGGTCCTAACCC
ATCCATTTTCC
Found at i:2966756 original size:80 final size:80
Alignment explanation
Indices: 2966590--2966744 Score: 247
Period size: 80 Copynumber: 1.9 Consensus size: 80
2966580 GGCGTTTGGA
* * *
2966590 TAAAAAACGCCGCTATAGATCGAGCATTAGCGGTGCTTTTTGAAAAACGCCGCTATAGATCGAGC
1 TAAAAAACACCGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGACC
2966655 ATTAGCGGCGCCTCT
66 ATTAGCGGCGCCTCT
* * * *
2966670 TAAAAAACACCGCTATAGATTGAGCATTAGCGGCGCTTTTTGAAAAATGCCGCTATAGGTCTACC
1 TAAAAAACACCGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGACC
2966735 ATTAGCGGCG
66 ATTAGCGGCG
2966745 TTTTTTTAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
80 68 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (80 bp):
TAAAAAACACCGCTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCGACC
ATTAGCGGCGCCTCT
Found at i:2966757 original size:40 final size:40
Alignment explanation
Indices: 2966592--2966756 Score: 222
Period size: 40 Copynumber: 4.1 Consensus size: 40
2966582 CGTTTGGATA
*
2966592 AAAAACGCCGCTATAGATCGAGCATTAGCGGTGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* * *
2966632 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCCTCTTA
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* *
2966672 AAAAACACCGCTATAGATTGAGCATTAGCGGCGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
* * * * * *
2966712 AAAAATGCCGCTATAGGTCTACCATTAGCGGCGTTTTTTT
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
2966752 AAAAA
1 AAAAA
2966757 TTAAGCACCA
Statistics
Matches: 108, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 108 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (40 bp):
AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
Found at i:2966851 original size:40 final size:40
Alignment explanation
Indices: 2966796--2966905 Score: 175
Period size: 40 Copynumber: 2.8 Consensus size: 40
2966786 AGCTTTAGTG
*
2966796 GCATTAGCGGCACTTCTTGAAAAACGCTACTATAGATCGA
1 GCATTAGCGGCACTTCTTGAAAAACGCCACTATAGATCGA
* * *
2966836 GCATTAGTGGCACTTCTTGAAAAACGCCGCTATAGATTGA
1 GCATTAGCGGCACTTCTTGAAAAACGCCACTATAGATCGA
*
2966876 GCATTAGCGGCACTTTTTGAAAAACGCCAC
1 GCATTAGCGGCACTTCTTGAAAAACGCCAC
2966906 AAAAAAATTA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (40 bp):
GCATTAGCGGCACTTCTTGAAAAACGCCACTATAGATCGA
Found at i:2967106 original size:21 final size:20
Alignment explanation
Indices: 2967050--2967110 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 20
2967040 TTATGGGTTA
*
2967050 AGGG-TTAGTGGTTTAAGGTTT
1 AGGGTTTAG-GGTTT-AGATTT
** *
2967071 AGGGTTTTTGTTTTATGATTT
1 AGGGTTTAGGGTTTA-GATTT
2967092 AGGGTTTAGGGTTTAGATT
1 AGGGTTTAGGGTTTAGATT
2967111 AATTAGTATT
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
20 5 0.16
21 24 0.77
22 2 0.06
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (20 bp):
AGGGTTTAGGGTTTAGATTT
Found at i:2967238 original size:14 final size:14
Alignment explanation
Indices: 2967213--2967250 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
2967203 GTCTAGGGTC
2967213 TATGGTTT-AGGTA
1 TATGGTTTAAGGTA
*
2967226 TATGGTTTAAGGTT
1 TATGGTTTAAGGTA
*
2967240 TAAGGTTTAAG
1 TATGGTTTAAG
2967251 AGTTACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (14 bp):
TATGGTTTAAGGTA
Found at i:2967298 original size:14 final size:14
Alignment explanation
Indices: 2967281--2967331 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
2967271 ATAGATTATG
*
2967281 GGTTTAGGGATTAA
1 GGTTTAGGGTTTAA
**
2967295 GGTTTATTGTTTAA
1 GGTTTAGGGTTTAA
* *
2967309 GGGTTGGGGTTTAA
1 GGTTTAGGGTTTAA
2967323 GGTTTAGGG
1 GGTTTAGGG
2967332 GTTAGTGGTT
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.20, C:0.00, G:0.39, T:0.41
Consensus pattern (14 bp):
GGTTTAGGGTTTAA
Found at i:2967327 original size:21 final size:20
Alignment explanation
Indices: 2967303--2967355 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
2967293 AAGGTTTATT
2967303 GTTTAAGGGTT-GGGGTTTAA
1 GTTTAAGGGTTAGGGG-TTAA
* *
2967323 GGTTTAGGGGTTAGTGGTTAA
1 -GTTTAAGGGTTAGGGGTTAA
2967344 GTGTTAAGGGTT
1 GT-TTAAGGGTT
2967356 TAGAGTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 2 0.07
21 22 0.81
22 3 0.11
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.40
Consensus pattern (20 bp):
GTTTAAGGGTTAGGGGTTAA
Found at i:2970207 original size:14 final size:14
Alignment explanation
Indices: 2970188--2970214 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2970178 TCCTTGTTTA
2970188 TGATTTATACATAT
1 TGATTTATACATAT
2970202 TGATTTATACATA
1 TGATTTATACATA
2970215 GTGTGTACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (14 bp):
TGATTTATACATAT
Found at i:2972266 original size:80 final size:83
Alignment explanation
Indices: 2972117--2972325 Score: 219
Period size: 83 Copynumber: 2.5 Consensus size: 83
2972107 AAAGATCATG
* * * * * *
2972117 TTCTTTAGCGGCGTTTGTAATAAAAGTGTCACTAAAGGTCATGTTCTTTAGTGGCGTTTATGATA
1 TTCTTTAGCGGCGTTTGT-AGAAAAGCGCCGCTAAAGATCATG-TCTTTAGCGGCGTTTATGATA
*
2972182 AAAGCGCCGCTAAAGGT-A-
64 AAAGCACCGCTAAAGGTCAC
* * * * * *
2972200 TTTTTTAGCGGCGTTTGT-GAAAAGTGCTGTTAAAGATCATGTCTTTAGCGGCGTTTGTGGGT-A
1 TTCTTTAGCGGCGTTTGTAGAAAAGCGCCGCTAAAGATCATGTCTTTAGCGGCGTTTAT-GATAA
2972263 AAGCACCGCTAAAGGTCAC
65 AAGCACCGCTAAAGGTCAC
* *
2972282 GTTCTTTAGCGGCGTTTTTATAAAAGCGCCGCTAAAGATCATGT
1 -TTCTTTAGCGGCGTTTGTAGAAAAGCGCCGCTAAAGATCATGT
2972326 TCTATAGCAA
Statistics
Matches: 104, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
80 31 0.30
81 20 0.19
83 33 0.32
84 20 0.19
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.33
Consensus pattern (83 bp):
TTCTTTAGCGGCGTTTGTAGAAAAGCGCCGCTAAAGATCATGTCTTTAGCGGCGTTTATGATAAA
AGCACCGCTAAAGGTCAC
Found at i:2972314 original size:42 final size:43
Alignment explanation
Indices: 2972107--2972333 Score: 236
Period size: 43 Copynumber: 5.4 Consensus size: 43
2972097 AAAACCGTTA
* * * *
2972107 AAAGATCATGTTCTTTAGCGGCGTTTGTAATAAAAGTGTCACT
1 AAAGATCATGTTCTTTAGCGGCGTTTGTGATAAAAGCGCCGCT
* * *
2972150 AAAGGTCATGTTCTTTAGTGGCGTTTATGATAAAAGCGCCGCT
1 AAAGATCATGTTCTTTAGCGGCGTTTGTGATAAAAGCGCCGCT
* * * *
2972193 AAAGGT-AT-TT-TTTAGCGGCGTTTGTG--AAAAGTGCTGTT
1 AAAGATCATGTTCTTTAGCGGCGTTTGTGATAAAAGCGCCGCT
* *
2972231 AAAGATCATG-TCTTTAGCGGCGTTTGTGGGT-AAAGCACCGCT
1 AAAGATCATGTTCTTTAGCGGCGTTTGT-GATAAAAGCGCCGCT
* * *
2972273 AAAGGTCACGTTCTTTAGCGGCGTTT-TTATAAAAGCGCCGCT
1 AAAGATCATGTTCTTTAGCGGCGTTTGTGATAAAAGCGCCGCT
*
2972315 AAAGATCATGTTCTATAGC
1 AAAGATCATGTTCTTTAGC
2972334 AACGTTGTCT
Statistics
Matches: 151, Mismatches: 25, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
38 14 0.09
39 3 0.02
40 29 0.19
41 4 0.03
42 44 0.29
43 57 0.38
ACGTcount: A:0.26, C:0.16, G:0.25, T:0.33
Consensus pattern (43 bp):
AAAGATCATGTTCTTTAGCGGCGTTTGTGATAAAAGCGCCGCT
Found at i:2973832 original size:4 final size:4
Alignment explanation
Indices: 2973823--2973853 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
2973813 TACAAACTTC
2973823 AATT AATT AATT AATT AATT AATT AA-T AATT
1 AATT AATT AATT AATT AATT AATT AATT AATT
2973854 CAAAAATCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:2987006 original size:41 final size:41
Alignment explanation
Indices: 2986952--2987048 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 41
2986942 TTAATTTAAA
* *
2986952 CAGATTCAACGGCACATAACCTGCTAAACTTATAGCATGATT
1 CAGA-TCACCGGCACATAACCTGCTAAACTTATAACATGATT
* * *** *
2986994 CAGATCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATT
1 CAGATCACCGGCACATAACCTGCTAAACTTATAACATGATT
*
2987035 CAAATCACCGGCAC
1 CAGATCACCGGCAC
2987049 GTAGCCTNNN
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 42 0.91
42 4 0.09
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (41 bp):
CAGATCACCGGCACATAACCTGCTAAACTTATAACATGATT
Found at i:2997663 original size:41 final size:41
Alignment explanation
Indices: 2997615--2997810 Score: 204
Period size: 41 Copynumber: 4.8 Consensus size: 41
2997605 ACCGGACTGT
*
2997615 AAACAAGGGCACATATGTGCAATTCTGGGGTACCAAAGTAC
1 AAACAAGGGCACATATGTGCAATTCTGGGGTACCGAAGTAC
* * ***
2997656 AAGCAAGGGCACGTATGTGCAATTCAT-GGGTATTTAAGTAC
1 AAACAAGGGCACATATGTGCAATTC-TGGGGTACCGAAGTAC
* *
2997697 AAACAAGGGCACGTATGTGTAATT-TAGGGGTACCGAAGTAC
1 AAACAAGGGCACATATGTGCAATTCT-GGGGTACCGAAGTAC
* * *
2997738 CAAC-AGGGCCACATATGTACAATTCAGGGGTACCGAAGTAC
1 AAACAAGGG-CACATATGTGCAATTCTGGGGTACCGAAGTAC
*
2997779 AAACAGGGGCA-AGTATGTGCAATT-TAGGGGTA
1 AAACAAGGGCACA-TATGTGCAATTCT-GGGGTA
2997811 GGGGTATAAT
Statistics
Matches: 128, Mismatches: 19, Indels: 16
0.79 0.12 0.10
Matches are distributed among these distances:
39 1 0.01
40 5 0.04
41 118 0.92
42 4 0.03
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (41 bp):
AAACAAGGGCACATATGTGCAATTCTGGGGTACCGAAGTAC
Found at i:2997755 original size:82 final size:82
Alignment explanation
Indices: 2997615--2997810 Score: 245
Period size: 82 Copynumber: 2.4 Consensus size: 82
2997605 ACCGGACTGT
* * *
2997615 AAACAAGGGCACATATGTGCAATTCT-GGGGTACCAAAGTACAAGCAAGGGCACGTATGTGCAAT
1 AAACAAGGGCACGTATGTGCAATT-TAGGGGTACCAAAGTACAAGCAAGGGCACATATGTACAAT
* ***
2997679 TCATGGGTATTTAAGTAC
65 TCAGGGGTACCGAAGTAC
* *
2997697 AAACAAGGGCACGTATGTGTAATTTAGGGGTACCGAAGTACCAA-C-AGGGCCACATATGTACAA
1 AAACAAGGGCACGTATGTGCAATTTAGGGGTACCAAAGTA-CAAGCAAGGG-CACATATGTACAA
2997760 TTCAGGGGTACCGAAGTAC
64 TTCAGGGGTACCGAAGTAC
* *
2997779 AAACAGGGGCAAGTATGTGCAATTTAGGGGTA
1 AAACAAGGGCACGTATGTGCAATTTAGGGGTA
2997811 GGGGTATAAT
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
81 5 0.05
82 91 0.92
83 3 0.03
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (82 bp):
AAACAAGGGCACGTATGTGCAATTTAGGGGTACCAAAGTACAAGCAAGGGCACATATGTACAATT
CAGGGGTACCGAAGTAC
Found at i:2997787 original size:20 final size:20
Alignment explanation
Indices: 2997722--2997787 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
2997712 TGTGTAATTT
*
2997722 AGGGGTACCGAAGTACCAAC
1 AGGGGTACCGAAGTACAAAC
** ** * *
2997742 AGGGCCACATATGTACAATTC
1 AGGGGTACCGAAGTACAA-AC
2997763 AGGGGTACCGAAGTACAAAC
1 AGGGGTACCGAAGTACAAAC
2997783 AGGGG
1 AGGGG
2997788 CAAGTATGTG
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
20 18 0.56
21 14 0.44
ACGTcount: A:0.35, C:0.21, G:0.30, T:0.14
Consensus pattern (20 bp):
AGGGGTACCGAAGTACAAAC
Found at i:3001244 original size:41 final size:41
Alignment explanation
Indices: 3001199--3001366 Score: 223
Period size: 41 Copynumber: 4.1 Consensus size: 41
3001189 ATCGAGTTGT
* * *
3001199 AAACAGGGGAACATATGTGTAATTCAGGGGTACTAAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACTAAAGTAC
*
3001240 AAACAGGGGCACGTATGTGCAATTCAGGGGTAC-AGAAGTAA
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACTA-AAGTAC
* * *
3001281 AAATAGGGGCACGTATCTGCAATTCAGGGGTACTGAAGTA-
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACTAAAGTAC
* * *
3001321 AAACGGGGGCACGCATGTGCAATTCAGGGGTACCAAAGTAC
1 AAACAGGGGCACGTATGTGCAATTCAGGGGTACTAAAGTAC
3001362 AAACA
1 AAACA
3001367 AGGAATAATC
Statistics
Matches: 110, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
40 35 0.32
41 75 0.68
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.18
Consensus pattern (41 bp):
AAACAGGGGCACGTATGTGCAATTCAGGGGTACTAAAGTAC
Found at i:3001269 original size:21 final size:21
Alignment explanation
Indices: 3001243--3001310 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
3001233 AAAGTACAAA
3001243 CAGGGGCACGTATGTGCAATT
1 CAGGGGCACGTATGTGCAATT
* * ** *
3001264 CAGGGGTACAG-AAGTAAAAAT
1 CAGGGGCAC-GTATGTGCAATT
*
3001285 -AGGGGCACGTATCTGCAATT
1 CAGGGGCACGTATGTGCAATT
3001305 CAGGGG
1 CAGGGG
3001311 TACTGAAGTA
Statistics
Matches: 33, Mismatches: 11, Indels: 6
0.66 0.22 0.12
Matches are distributed among these distances:
19 1 0.03
20 12 0.36
21 19 0.58
22 1 0.03
ACGTcount: A:0.31, C:0.16, G:0.34, T:0.19
Consensus pattern (21 bp):
CAGGGGCACGTATGTGCAATT
Found at i:3002893 original size:559 final size:559
Alignment explanation
Indices: 3001836--3002951 Score: 2232
Period size: 559 Copynumber: 2.0 Consensus size: 559
3001826 CATCAAAAAT
3001836 CACTTTACAAAAGTTGTTTATTTAACAAGGACTCATAATCTTTCATCAAACTTCATAAATCATGT
1 CACTTTACAAAAGTTGTTTATTTAACAAGGACTCATAATCTTTCATCAAACTTCATAAATCATGT
3001901 AAGGACATTCATGGAAAAACCTTAAACCTTTAATTTTTTTACAAATTAGTCCCTAGGCTAGTTAG
66 AAGGACATTCATGGAAAAACCTTAAACCTTTAATTTTTTTACAAATTAGTCCCTAGGCTAGTTAG
3001966 AGTAAGCTACAACGACTTCAAAAACATGAAAATCATTAAAAATGGGATCAAAATACTTTTATGCA
131 AGTAAGCTACAACGACTTCAAAAACATGAAAATCATTAAAAATGGGATCAAAATACTTTTATGCA
3002031 ATCAAAAAGGAAATGACCAAACCCTAGCTATGGTGTTTGATAGTTTTGGTTGAAGAAGACAAGAT
196 ATCAAAAAGGAAATGACCAAACCCTAGCTATGGTGTTTGATAGTTTTGGTTGAAGAAGACAAGAT
3002096 TAAAAAGATGATATCCTTTTTTTTCTTTCTTTTCTTTTTATGTTTTTATCCTTATTTACTAAATT
261 TAAAAAGATGATATCCTTTTTTTTCTTTCTTTTCTTTTTATGTTTTTATCCTTATTTACTAAATT
3002161 ACTTATTTAACCTTTTTATTAACCTTAAAATCACCTATTTAGTGTCCATAAAAGTCCACTAACAA
326 ACTTATTTAACCTTTTTATTAACCTTAAAATCACCTATTTAGTGTCCATAAAAGTCCACTAACAA
3002226 ATCAAATGGTTTAATTACCATTTAAGTCACTCATATTAAAAATTCATAGCAATTTAACACGTTTA
391 ATCAAATGGTTTAATTACCATTTAAGTCACTCATATTAAAAATTCATAGCAATTTAACACGTTTA
3002291 GCTAATAGAACTTCACTTTTACACCATTTACGATTTAGTCCTTTTTGTTTAATTAAGCATGCAAA
456 GCTAATAGAACTTCACTTTTACACCATTTACGATTTAGTCCTTTTTGTTTAATTAAGCATGCAAA
3002356 CATCAAAATTTCTTAACAAAAATTTTATACGACATTAAA
521 CATCAAAATTTCTTAACAAAAATTTTATACGACATTAAA
3002395 CACTTTACAAAAGTTGTTTATTTAACAAGGACTCATAATCTTTCATCAAACTTCATAAATCATGT
1 CACTTTACAAAAGTTGTTTATTTAACAAGGACTCATAATCTTTCATCAAACTTCATAAATCATGT
3002460 AAGGACATTCATGGAAAAACCTTAAACCTTTAATTTTTTTACAAATTAGTCCCTAGGCTAGTTAG
66 AAGGACATTCATGGAAAAACCTTAAACCTTTAATTTTTTTACAAATTAGTCCCTAGGCTAGTTAG
3002525 AGTAAGCTACAACGACTTCAAAAACATGAAAATCATTAAAAATGGGATCAAAATACTTTTATGCA
131 AGTAAGCTACAACGACTTCAAAAACATGAAAATCATTAAAAATGGGATCAAAATACTTTTATGCA
3002590 ATCAAAAAGGAAATGACCAAACCCTAGCTATGGTGTTTGATAGTTTTGGTTGAAGAAGACAAGAT
196 ATCAAAAAGGAAATGACCAAACCCTAGCTATGGTGTTTGATAGTTTTGGTTGAAGAAGACAAGAT
3002655 TAAAAAGATGATATCCTTTTTTTTCTTTCTTTTCTTTTTATGTTTTTATCCTTATTTACTAAATT
261 TAAAAAGATGATATCCTTTTTTTTCTTTCTTTTCTTTTTATGTTTTTATCCTTATTTACTAAATT
3002720 ACTTATTTAACCTTTTTATTAACCTTAAAATCACCTATTTAGTGTCCATAAAAGTCCACTAACAA
326 ACTTATTTAACCTTTTTATTAACCTTAAAATCACCTATTTAGTGTCCATAAAAGTCCACTAACAA
3002785 ATCAAATGGTTTAATTACCATTTAAGTCACTCATATTAAAAATTCATAGCAATTTAACACGTTTA
391 ATCAAATGGTTTAATTACCATTTAAGTCACTCATATTAAAAATTCATAGCAATTTAACACGTTTA
3002850 GCTAATAGAACTTCACTTTTACACCATTTACGATTTAGTCCTTTTTGTTTAATTAAGCATGCAAA
456 GCTAATAGAACTTCACTTTTACACCATTTACGATTTAGTCCTTTTTGTTTAATTAAGCATGCAAA
3002915 CATCAAAATTTCTTAACAAAAATTTTATACGACATTA
521 CATCAAAATTTCTTAACAAAAATTTTATACGACATTA
3002952 CTAACATACC
Statistics
Matches: 557, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
559 557 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (559 bp):
CACTTTACAAAAGTTGTTTATTTAACAAGGACTCATAATCTTTCATCAAACTTCATAAATCATGT
AAGGACATTCATGGAAAAACCTTAAACCTTTAATTTTTTTACAAATTAGTCCCTAGGCTAGTTAG
AGTAAGCTACAACGACTTCAAAAACATGAAAATCATTAAAAATGGGATCAAAATACTTTTATGCA
ATCAAAAAGGAAATGACCAAACCCTAGCTATGGTGTTTGATAGTTTTGGTTGAAGAAGACAAGAT
TAAAAAGATGATATCCTTTTTTTTCTTTCTTTTCTTTTTATGTTTTTATCCTTATTTACTAAATT
ACTTATTTAACCTTTTTATTAACCTTAAAATCACCTATTTAGTGTCCATAAAAGTCCACTAACAA
ATCAAATGGTTTAATTACCATTTAAGTCACTCATATTAAAAATTCATAGCAATTTAACACGTTTA
GCTAATAGAACTTCACTTTTACACCATTTACGATTTAGTCCTTTTTGTTTAATTAAGCATGCAAA
CATCAAAATTTCTTAACAAAAATTTTATACGACATTAAA
Found at i:3009224 original size:26 final size:26
Alignment explanation
Indices: 3009192--3009247 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
3009182 GAAAAGAGTG
*
3009192 TTAATTTAATCTTAAAGGTCCCATGT
1 TTAATTTAATCCTAAAGGTCCCATGT
3009218 TTAATTTAATCCTAAAGGTCCCATGT
1 TTAATTTAATCCTAAAGGTCCCATGT
3009244 TTAA
1 TTAA
3009248 AACCCCCCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (26 bp):
TTAATTTAATCCTAAAGGTCCCATGT
Found at i:3018913 original size:18 final size:19
Alignment explanation
Indices: 3018890--3018925 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
3018880 TCACATGTGA
3018890 AAGTGAAAAA-TGATTTTT
1 AAGTGAAAAAGTGATTTTT
3018908 AAGTGAAAAAGTGATTTT
1 AAGTGAAAAAGTGATTTT
3018926 GGTTATATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.36
Consensus pattern (19 bp):
AAGTGAAAAAGTGATTTTT
Found at i:3024562 original size:4 final size:4
Alignment explanation
Indices: 3024553--3024652 Score: 191
Period size: 4 Copynumber: 25.0 Consensus size: 4
3024543 TGAATCTGTG
*
3024553 ATGT ATGT ATGT ATGC ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3024601 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
3024649 ATGT
1 ATGT
3024653 TTGTTAAATA
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
4 94 1.00
ACGTcount: A:0.25, C:0.01, G:0.25, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:3024718 original size:9 final size:9
Alignment explanation
Indices: 3024692--3024732 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
3024682 TGAAATTGAG
3024692 TGAAATATA
1 TGAAATATA
*
3024701 TG-GATATA
1 TGAAATATA
3024709 TGAAATATA
1 TGAAATATA
3024718 TGAAAT-T-
1 TGAAATATA
3024725 TGAAATAT
1 TGAAATAT
3024733 GTTTATGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
7 6 0.21
8 9 0.32
9 13 0.46
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.37
Consensus pattern (9 bp):
TGAAATATA
Found at i:3024730 original size:16 final size:17
Alignment explanation
Indices: 3024692--3024732 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
3024682 TGAAATTGAG
*
3024692 TGAAATATATGGATATA
1 TGAAATATATGGAAATA
*
3024709 TGAAATATAT-GAAATT
1 TGAAATATATGGAAATA
3024725 TGAAATAT
1 TGAAATAT
3024733 GTTTATGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.49, C:0.00, G:0.15, T:0.37
Consensus pattern (17 bp):
TGAAATATATGGAAATA
Found at i:3030544 original size:21 final size:21
Alignment explanation
Indices: 3030505--3030545 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
3030495 TGGAAACAGG
* **
3030505 AATGATCTTAATGGCAATCCA
1 AATGATCGTAATGAAAATCCA
3030526 AATGATCGTAATGAAAATCC
1 AATGATCGTAATGAAAATCC
3030546 TCCCGTTGGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (21 bp):
AATGATCGTAATGAAAATCCA
Found at i:3032743 original size:33 final size:33
Alignment explanation
Indices: 3032696--3032762 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
3032686 TTGGTAAACT
*
3032696 AGATCAGGTATAGGGTGTTACAGAAAATGTGAA
1 AGATCAGGTATAGGGTATTACAGAAAATGTGAA
*
3032729 AGATTAGGTATAGGGTATTACAGAAAATGTGAA
1 AGATCAGGTATAGGGTATTACAGAAAATGTGAA
3032762 A
1 A
3032763 TTTTAAACTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.42, C:0.04, G:0.28, T:0.25
Consensus pattern (33 bp):
AGATCAGGTATAGGGTATTACAGAAAATGTGAA
Found at i:3040195 original size:2 final size:2
Alignment explanation
Indices: 3040190--3040214 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3040180 GAATGATATA
3040190 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
3040215 TTTATGTAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:3051333 original size:43 final size:43
Alignment explanation
Indices: 3051272--3051363 Score: 166
Period size: 43 Copynumber: 2.1 Consensus size: 43
3051262 ATGTTCCAAA
*
3051272 ATCGATTTGAGATTTCGTGTAAGACCATAGTTGGGCTATTGGC
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
3051315 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
*
3051358 TTCGAT
1 ATCGAT
3051364 ACTAGATTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (43 bp):
ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
Found at i:3051371 original size:43 final size:43
Alignment explanation
Indices: 3051272--3051384 Score: 156
Period size: 43 Copynumber: 2.6 Consensus size: 43
3051262 ATGTTCCAAA
* *
3051272 ATCGATTTGAGATTTCGTGTAAGACCATAGTTGGGCTATTGGC
1 ATCGATCTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
*
3051315 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
1 ATCGATCTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
* *
3051358 TTCGATACT-AGATTTTCATGTAAGACC
1 ATCGAT-CTGAGA-TTTCGTGTAAGACC
3051385 TTGTCTGGGA
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
43 50 0.78
44 14 0.22
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.35
Consensus pattern (43 bp):
ATCGATCTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
Found at i:3059187 original size:25 final size:26
Alignment explanation
Indices: 3059150--3059201 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 26
3059140 GTGGTTTTTT
* *
3059150 TTTTTTTTGTCTTTCTTGCATGT-TTC
1 TTTTTCTTGTCTTT-ATGCATGTGTTC
3059176 TTTTTCTT-TCTTTATGCATGTGTTC
1 TTTTTCTTGTCTTTATGCATGTGTTC
3059201 T
1 T
3059202 ACGCCTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 7 0.30
25 9 0.39
26 7 0.30
ACGTcount: A:0.06, C:0.15, G:0.12, T:0.67
Consensus pattern (26 bp):
TTTTTCTTGTCTTTATGCATGTGTTC
Found at i:3062597 original size:51 final size:50
Alignment explanation
Indices: 3062533--3062800 Score: 220
Period size: 51 Copynumber: 5.3 Consensus size: 50
3062523 TGAAATAGAT
* *
3062533 GGCTACTACGTGTATCGATAAATAATGGTCAAATGTGTAGTACTAAGTGAA
1 GGCTACTACGTGTACCGATAAAT-ATGGTCACATGTGTAGTACTAAGTGAA
* * * * * * * **
3062584 GGCTACAATGTGTACCGAGAAGCTTTGGTCACGTTTGTAGTACTGTGTGAA
1 GGCTACTACGTGTACCGATAA-ATATGGTCACATGTGTAGTACTAAGTGAA
* * *
3062635 GGCTACTACGTGAATCGATAAATGATGGTGACATGTGTAGTACTAAGTGAA
1 GGCTACTACGTGTACCGATAAAT-ATGGTCACATGTGTAGTACTAAGTGAA
* * * *
3062686 GGCTATTATGTGTACCGA-AAAGCTTTGGTCACGTGTGTAGTACTATA-TGAA
1 GGCTACTACGTGTACCGATAAA--TATGGTCACATGTGTAGTACTA-AGTGAA
* * * * *
3062737 GGCTACTACGTGAACC-ATAAA-ACTTGATCACGTGTGTAGTACTATGTAAA
1 GGCTACTACGTGTACCGATAAATA--TGGTCACATGTGTAGTACTAAGTGAA
*
3062787 AGCTACTACGTGTA
1 GGCTACTACGTGTA
3062801 TCGAATGATA
Statistics
Matches: 169, Mismatches: 39, Indels: 19
0.74 0.17 0.08
Matches are distributed among these distances:
50 39 0.23
51 127 0.75
52 3 0.02
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.30
Consensus pattern (50 bp):
GGCTACTACGTGTACCGATAAATATGGTCACATGTGTAGTACTAAGTGAA
Found at i:3062709 original size:102 final size:102
Alignment explanation
Indices: 3062533--3062750 Score: 346
Period size: 102 Copynumber: 2.1 Consensus size: 102
3062523 TGAAATAGAT
*
3062533 GGCTACTACGTGTATCGATAAATAATGGTCAAATGTGTAGTACTAAGTGAAGGCTACAATGTGTA
1 GGCTACTACGTGAATCGATAAATAATGGTCAAATGTGTAGTACTAAGTGAAGGCTACAATGTGTA
* * * *
3062598 CCGAGAAGCTTTGGTCACGTTTGTAGTACTGTGTGAA
66 CCGAAAAGCTTTGGTCACGTGTGTAGTACTATATGAA
* * * **
3062635 GGCTACTACGTGAATCGATAAATGATGGTGACATGTGTAGTACTAAGTGAAGGCTATTATGTGTA
1 GGCTACTACGTGAATCGATAAATAATGGTCAAATGTGTAGTACTAAGTGAAGGCTACAATGTGTA
3062700 CCGAAAAGCTTTGGTCACGTGTGTAGTACTATATGAA
66 CCGAAAAGCTTTGGTCACGTGTGTAGTACTATATGAA
3062737 GGCTACTACGTGAA
1 GGCTACTACGTGAA
3062751 CCATAAAACT
Statistics
Matches: 106, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 106 1.00
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (102 bp):
GGCTACTACGTGAATCGATAAATAATGGTCAAATGTGTAGTACTAAGTGAAGGCTACAATGTGTA
CCGAAAAGCTTTGGTCACGTGTGTAGTACTATATGAA
Found at i:3066688 original size:22 final size:19
Alignment explanation
Indices: 3066648--3066685 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
3066638 ATTTGAAGTC
3066648 AAAAAATTTATTTTATTAT
1 AAAAAATTTATTTTATTAT
*
3066667 AAAAAATTTATTATATTAT
1 AAAAAATTTATTTTATTAT
3066686 TATTTTATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AAAAAATTTATTTTATTAT
Found at i:3067979 original size:25 final size:24
Alignment explanation
Indices: 3067924--3067996 Score: 65
Period size: 25 Copynumber: 2.9 Consensus size: 24
3067914 TACTGCTTGT
* * **
3067924 GTGAGCATATTGATTTATAGCTCGT
1 GTGAGCATACTGA-TTACAGCTCAA
*
3067949 GAGAGCATACTGATCTACAGCTCAA
1 GTGAGCATACTGAT-TACAGCTCAA
*
3067974 GTGAGCATACCGATTCACAGCTC
1 GTGAGCATACTGATT-ACAGCTC
3067997 GTATGAGCAT
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
24 2 0.05
25 37 0.95
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
GTGAGCATACTGATTACAGCTCAA
Found at i:3068003 original size:25 final size:25
Alignment explanation
Indices: 3067942--3068008 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 25
3067932 ATTGATTTAT
*
3067942 AGCTCGTGA-GAGCATACTGATCTAC
1 AGCTCGT-ATGAGCATACCGATCTAC
*
3067967 AGCTC-AAGTGAGCATACCGAT-TCAC
1 AGCTCGTA-TGAGCATACCGATCT-AC
3067992 AGCTCGTATGAGCATAC
1 AGCTCGTATGAGCATAC
3068009 ATGTACAAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
23 1 0.03
24 1 0.03
25 32 0.91
26 1 0.03
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.22
Consensus pattern (25 bp):
AGCTCGTATGAGCATACCGATCTAC
Found at i:3074706 original size:50 final size:50
Alignment explanation
Indices: 3074651--3074992 Score: 312
Period size: 50 Copynumber: 6.9 Consensus size: 50
3074641 CATTTGGGTA
* * * * *
3074651 AAGAGGTCCCTTGGAAGACCATGTTTGGGACATGACGGTGGCACGGAGAT
1 AAGAGGTCCCTTGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* * * *
3074701 AAGAGGTCCCATATAAGACCATGTTTGGGACAAGGCGTTGGCACCGAGAT
1 AAGAGGTCCCTTGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* *
3074751 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGAT
1 AAGAGGTCCCTTGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* * * *
3074801 GAGAGGTCCCTCGTAACACCATGTCTGGGACATGGCGCTGGCACCGAGAT
1 AAGAGGTCCCTTGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* * * ** * * * *
3074851 GAGAGGTCCCTCGTAACACCATGTCTGGGACATATCATGGGCACCAATAT
1 AAGAGGTCCCTTGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
* ** * * * * * *
3074901 GAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACGGGA-
1 AAGAGGTCCCTTGTAAGACCATGTCTGGGACATGGCGTTGGCA--CCGAGAT
* * * *
3074952 AACA--TCCCATGTAAGACCATGTCTGGAACATGGCTTTGGCA
1 AAGAGGTCCCTTGTAAGACCATGTCTGGGACATGGCGTTGGCA
3074993 TGTTATTATT
Statistics
Matches: 246, Mismatches: 44, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
49 33 0.13
50 209 0.85
51 2 0.01
52 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (50 bp):
AAGAGGTCCCTTGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
Found at i:3074928 original size:150 final size:150
Alignment explanation
Indices: 3074652--3074935 Score: 347
Period size: 150 Copynumber: 1.9 Consensus size: 150
3074642 ATTTGGGTAA
* * * * *
3074652 AGAGGTCCCTTGGAAGACCATGTTTGGGACATGACGGTGGCACGGAGATAAGAGGTCCCATATAA
1 AGAGGTCCCTCGGAACACCATGTCTGGGACATGACGCTGGCACCGAGATAAGAGGTCCCATATAA
* * * * * ** *
3074717 GACCATGTTTGGGACAAGGCGTTGGCACCGAGATAAGAGGTCCCATGTAAGACCATGTCTGGGAC
66 CACCATGTCTGGGACAAGGCATGGGCACCAAGATAAGAACTCCCATGTAAGACCATATCTGGGAC
3074782 ATGGTGTTGGCACCGAGATG
131 ATGGTGTTGGCACCGAGATG
* * * *
3074802 AGAGGTCCCTCGTAACACCATGTCTGGGACATGGCGCTGGCACCGAGATGAGAGGTCCC-TCGTA
1 AGAGGTCCCTCGGAACACCATGTCTGGGACATGACGCTGGCACCGAGATAAGAGGTCCCAT-ATA
* * *
3074866 ACACCATGTCTGGGACATA-TCATGGGCACCAATATGAGAACTCCCATGTAAGACCATATCTGGG
65 ACACCATGTCTGGGACA-AGGCATGGGCACCAAGATAAGAACTCCCATGTAAGACCATATCTGGG
*
3074930 ATATGG
129 ACATGG
3074936 CATTGGCAGT
Statistics
Matches: 111, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
149 1 0.01
150 109 0.98
151 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (150 bp):
AGAGGTCCCTCGGAACACCATGTCTGGGACATGACGCTGGCACCGAGATAAGAGGTCCCATATAA
CACCATGTCTGGGACAAGGCATGGGCACCAAGATAAGAACTCCCATGTAAGACCATATCTGGGAC
ATGGTGTTGGCACCGAGATG
Found at i:3075858 original size:114 final size:114
Alignment explanation
Indices: 3075653--3075907 Score: 422
Period size: 114 Copynumber: 2.2 Consensus size: 114
3075643 AAAATAAGCA
*
3075653 TTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTGGAGGAAGCGC
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTGGAGGAAGCAC
*
3075718 CGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCAAGGAT
66 CGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCAAAGAT
* * * *
3075767 TTAGTGGCGTTTTTTAGAAAGCGCCGCTAATGTTCAGGGCTTTAGCGGCGTTTTTGG-TGAAGCA
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCG-TTTTGGAGGAAGCA
3075831 CCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCAAAGAT
65 CCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCAAAGAT
* *
3075881 TTAGCGACGTTTTTGGGAAAGCGCCGC
1 TTAGCGGCGTTTTTGAGAAAGCGCCGC
3075908 AAAATCACCT
Statistics
Matches: 130, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
114 124 0.95
115 6 0.05
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGCTTTAGCGGCGTTTTGGAGGAAGCAC
CGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCAAAGAT
Found at i:3075926 original size:73 final size:73
Alignment explanation
Indices: 3075807--3075980 Score: 242
Period size: 73 Copynumber: 2.4 Consensus size: 73
3075797 TGTTCAGGGC
*
3075807 TTTAGCGGCGTTTTTGGTG-AAGCACCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC
1 TTTAGCGGCGTTTTTGG-GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC
3075871 TTTCAAAGA
65 TTTCAAAGA
* ** * *
3075880 TTTAGCGACGTTTTTGGGAAAGCGCCGCAAAATCACCTCAGTCCAACGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
*
3075945 TTCAAGGA
66 TTCAAAGA
* **
3075953 TTTAGTGGCGTTTTTTAGAAAGCGCCGC
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGC
3075981 TAATGTTCAG
Statistics
Matches: 89, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
72 1 0.01
73 88 0.99
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
TTCAAAGA
Found at i:3076006 original size:114 final size:114
Alignment explanation
Indices: 3075880--3076097 Score: 373
Period size: 114 Copynumber: 1.9 Consensus size: 114
3075870 CTTTCAAAGA
* *
3075880 TTTAGCGACGTTTTTGGGAAAGCGCCGCAAAATCACCTCAGTCCAACGACGCCGTTTTCTGAGCT
1 TTTAGCGACGTTTTTGGGAAAGCACCGCAAAATCACCTCAGTCCAACGACGCCGTTTTATGAGCT
* *
3075945 TTCAAGGATTTAGTGGCGTTTTTTAGAAAGCGCCGCTAATGTTCAGGGC
66 TTCAAGGATTTAGCGGCGTTTTTCAGAAAGCGCCGCTAATGTTCAGGGC
*
3075994 TTTAGCGGCGTTTTTGGGAAAGCACCGCAAAATCACCTCAGTCCAACGACGCCGTTTTATGAGCT
1 TTTAGCGACGTTTTTGGGAAAGCACCGCAAAATCACCTCAGTCCAACGACGCCGTTTTATGAGCT
* *
3076059 TTCGAGGATTTAGCGGCGTTTTTCGGAAAGCGCCGCTAA
66 TTCAAGGATTTAGCGGCGTTTTTCAGAAAGCGCCGCTAA
3076098 AAATATTTTA
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 97 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (114 bp):
TTTAGCGACGTTTTTGGGAAAGCACCGCAAAATCACCTCAGTCCAACGACGCCGTTTTATGAGCT
TTCAAGGATTTAGCGGCGTTTTTCAGAAAGCGCCGCTAATGTTCAGGGC
Found at i:3076008 original size:187 final size:187
Alignment explanation
Indices: 3075693--3076100 Score: 649
Period size: 187 Copynumber: 2.2 Consensus size: 187
3075683 TGCTCAGGGC
*
3075693 TTTAGCGGCG-TTTTGGAGGAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC
1 TTTAGCGGCGTTTTTGG-GAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGC
3075757 TTTCAAGGATTTAGTGGCGTTTTTTAGAAAGCGCCGCTAATGTTCAGGGCTTTAGCGGCGTTTTT
65 TTTCAAGGATTTAGTGGCGTTTTTTAGAAAGCGCCGCTAATGTTCAGGGCTTTAGCGGCGTTTTT
*
3075822 GGTG-AAGCACCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTTCAAAGA
130 GG-GAAAGCACCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTATGAGCTTTCAAAGA
* ** * *
3075880 TTTAGCGACGTTTTTGGGAAAGCGCCGCAAAATCACCTCAGTCCAACGACGCCGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
3075945 TTCAAGGATTTAGTGGCGTTTTTTAGAAAGCGCCGCTAATGTTCAGGGCTTTAGCGGCGTTTTTG
66 TTCAAGGATTTAGTGGCGTTTTTTAGAAAGCGCCGCTAATGTTCAGGGCTTTAGCGGCGTTTTTG
** * * * *
3076010 GGAAAGCACCGCAAAATCACCTCAGTCCAACGACGCCGTTTTATGAGCTTTCGAGGA
131 GGAAAGCACCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTATGAGCTTTCAAAGA
* *
3076067 TTTAGCGGCGTTTTTCGGAAAGCGCCGCTAAAAA
1 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAA
3076101 TATTTTATCT
Statistics
Matches: 201, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
186 1 0.00
187 194 0.97
188 6 0.03
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (187 bp):
TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
TTCAAGGATTTAGTGGCGTTTTTTAGAAAGCGCCGCTAATGTTCAGGGCTTTAGCGGCGTTTTTG
GGAAAGCACCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTATGAGCTTTCAAAGA
Found at i:3076365 original size:15 final size:15
Alignment explanation
Indices: 3076345--3076374 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3076335 CATATTTTAA
3076345 GGTTTAGGGAGTATG
1 GGTTTAGGGAGTATG
*
3076360 GGTTTAGGGATTATG
1 GGTTTAGGGAGTATG
3076375 AATTAGGGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.37
Consensus pattern (15 bp):
GGTTTAGGGAGTATG
Found at i:3076437 original size:23 final size:23
Alignment explanation
Indices: 3076395--3076438 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
3076385 TGGTATTTAA
*
3076395 GGTTTAGGGGTTAGATGGTTATG
1 GGTTTAGGGGTTAGAGGGTTATG
3076418 GGTTTAGGGGTTTAG-GGGTTA
1 GGTTTAGGGG-TTAGAGGGTTA
3076439 GACATGCTAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.16, C:0.00, G:0.45, T:0.39
Consensus pattern (23 bp):
GGTTTAGGGGTTAGAGGGTTATG
Found at i:3076711 original size:21 final size:22
Alignment explanation
Indices: 3076669--3076750 Score: 71
Period size: 22 Copynumber: 3.8 Consensus size: 22
3076659 GGATTATGAA
3076669 TTAGGGA-TT-ATGGTTTAAGGG
1 TTAGGGATTTAAT-GTTTAAGGG
*
3076690 TT-GGGATTTAATGTTTAGGGG
1 TTAGGGATTTAATGTTTAAGGG
* * * *
3076711 TTAGGGGTTTAAGGGTTAAGAG
1 TTAGGGATTTAATGTTTAAGGG
* *
3076733 TTAGAGATTTAAGGTTTA
1 TTAGGGATTTAATGTTTA
3076751 GGGATTCAAG
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
20 4 0.08
21 14 0.29
22 31 0.63
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.39
Consensus pattern (22 bp):
TTAGGGATTTAATGTTTAAGGG
Found at i:3077338 original size:103 final size:105
Alignment explanation
Indices: 3077225--3077468 Score: 350
Period size: 103 Copynumber: 2.3 Consensus size: 105
3077215 TAAAAACCAA
* * *
3077225 AATAGCAAAACGGCGTCACTTTGTTCAAAATGAAATAGCGGCGTTTTTAATAAAAACGCTGCAAA
1 AATAGCAAAACGGCGTCAATTTGTTCAAAATGAAATAGCGGCATTTTTAATAAAAACGCCGCAAA
*
3077290 AAAATCAAT-ATATA-AAAAAATAAAAT-AAAAAATTTTAG
66 AAAATAAATAATATATAAAAAA-AAAATAAAAAAATTTTAG
* * *
3077328 CATAGCAAAACGGCGTCAATTTGTTCAAAATAAAATAGCGGCATTTTTTATAAAAACGCCGCAAA
1 AATAGCAAAACGGCGTCAATTTGTTCAAAATGAAATAGCGGCATTTTTAATAAAAACGCCGCAAA
* *
3077393 AAAATAAATCAATATATAAAAAACAGATAAAAAAATTTTAG
66 AAAATAAAT-AATATATAAAAAAAAAATAAAAAAATTTTAG
* *
3077434 AATAGCAAAACGGCGTCATTTTGTTAAAAATGAAA
1 AATAGCAAAACGGCGTCAATTTGTTCAAAATGAAA
3077469 AAATTTTGTG
Statistics
Matches: 124, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
103 67 0.54
105 8 0.06
106 49 0.40
ACGTcount: A:0.50, C:0.12, G:0.13, T:0.25
Consensus pattern (105 bp):
AATAGCAAAACGGCGTCAATTTGTTCAAAATGAAATAGCGGCATTTTTAATAAAAACGCCGCAAA
AAAATAAATAATATATAAAAAAAAAATAAAAAAATTTTAG
Found at i:3077632 original size:137 final size:136
Alignment explanation
Indices: 3077377--3077652 Score: 367
Period size: 137 Copynumber: 2.0 Consensus size: 136
3077367 GGCATTTTTT
* *
3077377 ATAAAAACGCCGCAAAAAAATAAATCAATATATAAAAAACAGATAAAAAAATTTTAGAATAGCAA
1 ATAAAAACGCCGCAAAAAAATAAATCAATATATAAAAAAAAAATAAAAAAATTTTAGAATAGCAA
* *
3077442 AACGGCGTCATTTTGTTAAAAATGAAAAAATTTTGTGGCGTTTTTCTCAAAAACGCCGCTAAAGG
66 AACGGCGACATTTTGTTAAAAATGAAAAAATTTTGCGGCGTTTTTCTCAAAAACGCCGCTAAAGG
3077507 TAAGCA
131 TAAGCA
* * * *
3077513 ATAAAAGCGCCGC-AAAAAATAAATCAATTTATAAAAAATTAAAATAAAAAATTTTTAGCATAGC
1 ATAAAAACGCCGCAAAAAAATAAATCAATATATAAAAAA--AAAATAAAAAAATTTTAGAATAGC
** ** * **
3077577 AAAACGGCGACA-TTTGTTCCAAATGAAAATTTTTTTGCGGCGTTTTTTTGGAAAACGCCGCTAA
64 AAAACGGCGACATTTTGTTAAAAATGAAAA-AATTTTGCGGCGTTTTTCTCAAAAACGCCGCTAA
*
3077641 AGGTGAGCA
128 AGGTAAGCA
3077650 ATA
1 ATA
3077653 GCGACGTTTT
Statistics
Matches: 121, Mismatches: 16, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
135 24 0.20
136 27 0.22
137 70 0.58
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.26
Consensus pattern (136 bp):
ATAAAAACGCCGCAAAAAAATAAATCAATATATAAAAAAAAAATAAAAAAATTTTAGAATAGCAA
AACGGCGACATTTTGTTAAAAATGAAAAAATTTTGCGGCGTTTTTCTCAAAAACGCCGCTAAAGG
TAAGCA
Found at i:3077934 original size:151 final size:151
Alignment explanation
Indices: 3077747--3078116 Score: 490
Period size: 152 Copynumber: 2.4 Consensus size: 151
3077737 ATCATTTTGT
* * ** *
3077747 TTTATAAAAAACAAAAAAAAAAAAATTTAGAATAGCAAAACGGCGTCATTTTGTTCAAAATGAAA
1 TTTATAAAAAATAAAATAAAAAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAA
*
3077812 -AAATTTTGCGGGGTCTTTGAGAAAAACGCCGCTAAAGGTAAGCAATAGCGGCGCTTTTATAAAA
66 TAAATTTTGCGGCGTCTTTGAGAAAAACGCCGCTAAAGGTAAGCAATAGCGGCGCTTTTATAAAA
*
3077876 GCGCCGCAAAAAATAAATAAA
131 ACGCCGCAAAAAATAAATAAA
* *
3077897 TTTATAAAAAATTAAAATAAAAAATTTTTAGCATAGCAAAACAGCGTCATTTTGTTCCAAATGAA
1 TTTATAAAAAA-TAAAATAAAAAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAA
** * ** * * *
3077962 ATATTTTTTGCGGCGTTTTTTTGGAAAACGCCGCTAAAGGTGAGCAATAGCGGCGTTTTTATAAA
65 ATAAATTTTGCGGCGTCTTTGAGAAAAACGCCGCTAAAGGTAAGCAATAGCGGCGCTTTTATAAA
*
3078027 AACGCCGCAAAAAATAAATCAA
130 AACGCCGCAAAAAATAAATAAA
* * *** * *
3078049 TTTATTAAAAAATAAAATAAAAAATTTTAAGCATAACAAAACGATATCATTTTGTTTAAAGTGAA
1 TTTA-TAAAAAATAAAATAAAAAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAA
3078114 ATA
65 ATA
3078117 GCGGCGTTTT
Statistics
Matches: 190, Mismatches: 27, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
150 11 0.06
151 47 0.25
152 125 0.66
153 7 0.04
ACGTcount: A:0.45, C:0.12, G:0.15, T:0.28
Consensus pattern (151 bp):
TTTATAAAAAATAAAATAAAAAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAA
TAAATTTTGCGGCGTCTTTGAGAAAAACGCCGCTAAAGGTAAGCAATAGCGGCGCTTTTATAAAA
ACGCCGCAAAAAATAAATAAA
Found at i:3078127 original size:106 final size:104
Alignment explanation
Indices: 3078007--3078208 Score: 307
Period size: 104 Copynumber: 1.9 Consensus size: 104
3077997 AAAGGTGAGC
*
3078007 AATAGCGGCGTTTTTATAAAAACGCCGCAAAAAATAAATCAATTTATTAAAAAATAAAAT-AAAA
1 AATAGCGGCGTTTTTATAAAAACGCCAC-AAAAATAAATCAATTTA-TAAAAAATAAAATAAAAA
* * *
3078071 AATTTTAAGCATAACAAAACGATATCATTTTGTTTAAAGTGA
64 AAATTT-AGAATAACAAAACGACATCATTTTGTTTAAAGTGA
*
3078113 AATAGCGGCGTTTTTTTAAAAACGCCACAAAAATAAATCAATTTATAAAAAATAAAATAAAAAAA
1 AATAGCGGCGTTTTTATAAAAACGCCACAAAAATAAATCAATTTATAAAAAATAAAATAAAAAAA
* *
3078178 ATTTAGAATAGCAAAACGACGTCATTTTGTT
66 ATTTAGAATAACAAAACGACATCATTTTGTT
3078209 CAAAATAAAA
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
104 36 0.41
105 26 0.30
106 26 0.30
ACGTcount: A:0.50, C:0.11, G:0.10, T:0.29
Consensus pattern (104 bp):
AATAGCGGCGTTTTTATAAAAACGCCACAAAAATAAATCAATTTATAAAAAATAAAATAAAAAAA
ATTTAGAATAACAAAACGACATCATTTTGTTTAAAGTGA
Found at i:3079187 original size:13 final size:13
Alignment explanation
Indices: 3079169--3079194 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3079159 ACCTCGCAGG
3079169 TAATTTAACCAAA
1 TAATTTAACCAAA
3079182 TAATTTAACCAAA
1 TAATTTAACCAAA
3079195 AAGCAATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
TAATTTAACCAAA
Found at i:3081370 original size:43 final size:43
Alignment explanation
Indices: 3081309--3081393 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
3081299 CAATGATGTA
* * *
3081309 CAAGATTTTCTTGATTAAGTAAATGTATTATATATTTTATTAC
1 CAAGATTTACTTGATTAAGAAAATGCATTATATATTTTATTAC
* *
3081352 CAAGATTTACTTGATTAAGAAAATGCATTTTATGTTTTATTA
1 CAAGATTTACTTGATTAAGAAAATGCATTATATATTTTATTA
3081394 TCTTGCATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.35, C:0.07, G:0.11, T:0.47
Consensus pattern (43 bp):
CAAGATTTACTTGATTAAGAAAATGCATTATATATTTTATTAC
Done.