Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 165 of 193
Found at i:51354303 original size:32 final size:32
Alignment explanation
Indices: 51354229--51354304 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 32
51354219 CTTTTACTAT
* * * *
51354229 TTTTACCC-TATACTATAGTGAAAATTTTTAC
1 TTTTACCCTTTTACTATAATGAAAATTCTCAC
51354260 TTTTACCCTTTTACTATAATG-AAATTCTCAC
1 TTTTACCCTTTTACTATAATGAAAATTCTCAC
*
51354291 TTTTGACTCTTTTA
1 TTTT-ACCCTTTTA
51354305 TTATCGTTCA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
31 20 0.53
32 18 0.47
ACGTcount: A:0.28, C:0.18, G:0.05, T:0.49
Consensus pattern (32 bp):
TTTTACCCTTTTACTATAATGAAAATTCTCAC
Found at i:51357922 original size:29 final size:27
Alignment explanation
Indices: 51357870--51357932 Score: 65
Period size: 29 Copynumber: 2.3 Consensus size: 27
51357860 ATTTTCTAAT
*
51357870 TATTTTAATTAAAATTTTGAAATTAAA
1 TATTTTAATTAAAATTATGAAATTAAA
*
51357897 TATTGTTAATATAAAA-TATGATAATTTAA
1 TATT-TTAAT-TAAAATTATGA-AATTAAA
*
51357926 TAATTTA
1 TATTTTA
51357933 TTTATTTATT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 4 0.13
28 12 0.40
29 14 0.47
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (27 bp):
TATTTTAATTAAAATTATGAAATTAAA
Found at i:51358405 original size:22 final size:22
Alignment explanation
Indices: 51358367--51358411 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
51358357 TTGATGAACT
*
51358367 TTTTATAATTTATAATTTTTTG
1 TTTTATAATTTATAATTATTTG
51358389 TTTTATAATTT-TAAATTATTTG
1 TTTTATAATTTAT-AATTATTTG
51358411 T
1 T
51358412 CGATCTGTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTTATAATTTATAATTATTTG
Found at i:51363072 original size:13 final size:13
Alignment explanation
Indices: 51363049--51363099 Score: 57
Period size: 13 Copynumber: 3.7 Consensus size: 13
51363039 GATAAGAACT
51363049 TATATAAATATTAA
1 TATA-AAATATTAA
*
51363063 TATAAAATATTTCA
1 TATAAAATA-TTAA
*
51363077 TAAAAAAATATTAA
1 T-ATAAAATATTAA
51363091 TATAAAATA
1 TATAAAATA
51363100 ATTTAATGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
13 12 0.39
14 12 0.39
15 7 0.23
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
TATAAAATATTAA
Found at i:51363097 original size:14 final size:14
Alignment explanation
Indices: 51363049--51363097 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
51363039 GATAAGAACT
*
51363049 TATATAAATATTAA
1 TATAAAAATATTAA
*
51363063 TAT-AAAATATTTCA
1 TATAAAAATA-TTAA
*
51363077 TAAAAAAATATTAA
1 TATAAAAATATTAA
51363091 TATAAAA
1 TATAAAA
51363098 TAATTTAATG
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
13 5 0.18
14 17 0.61
15 6 0.21
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (14 bp):
TATAAAAATATTAA
Found at i:51363097 original size:15 final size:14
Alignment explanation
Indices: 51363054--51363111 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 14
51363044 GAACTTATAT
51363054 AAATATTAATATAAA
1 AAAT-TTAATATAAA
* *
51363069 ATATTTCATA-AAA
1 AAATTTAATATAAA
51363082 AAATATTAATATAAA
1 AAAT-TTAATATAAA
51363097 ATAATTTAATGATAA
1 A-AATTTAAT-ATAA
51363112 TAATTTGAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
13 6 0.17
14 10 0.29
15 12 0.34
16 7 0.20
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (14 bp):
AAATTTAATATAAA
Found at i:51369832 original size:20 final size:19
Alignment explanation
Indices: 51369809--51369851 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
51369799 TTATAATAAG
51369809 TTTAAT-ATTTTTTAAATATT
1 TTTAATCATTTTTT-AAT-TT
51369829 TTT-ATCATTTTTTAATTT
1 TTTAATCATTTTTTAATTT
51369847 TTTAA
1 TTTAA
51369852 AAAATTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 5 0.24
19 6 0.29
20 10 0.48
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTAATCATTTTTTAATTT
Found at i:51370418 original size:15 final size:16
Alignment explanation
Indices: 51370400--51370429 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
51370390 CACAAAATCT
51370400 AGAGAAA-AAAAAAAA
1 AGAGAAAGAAAAAAAA
51370415 AGAGAAAGAAAAAAA
1 AGAGAAAGAAAAAAA
51370430 GAAAATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
AGAGAAAGAAAAAAAA
Found at i:51374945 original size:25 final size:23
Alignment explanation
Indices: 51374917--51374986 Score: 63
Period size: 24 Copynumber: 2.9 Consensus size: 23
51374907 GAGGATTTTT
51374917 ATTTTATTTATATCAATATAATTAA
1 ATTTTATTTATATCAATATAA--AA
*
51374942 A-TTTATTTAATATTAATAT-AAA
1 ATTTTATTT-ATATCAATATAAAA
51374964 ATTTTAATTTATTATCATATATA
1 ATTTT-ATTTA-TATCA-ATATA
51374987 TTTTAAAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
22 3 0.08
23 4 0.11
24 16 0.43
25 14 0.38
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTTTATTTATATCAATATAAAA
Found at i:51386928 original size:17 final size:17
Alignment explanation
Indices: 51386902--51386951 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
51386892 GATTATTCAA
*
51386902 AAAATTTATTAAAAATT
1 AAAATATATTAAAAATT
* *
51386919 AAAATATATTTAAACTT
1 AAAATATATTAAAAATT
* *
51386936 AAAATAGAATAAAAAT
1 AAAATATATTAAAAAT
51386952 CAATAAAGTC
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (17 bp):
AAAATATATTAAAAATT
Found at i:51392114 original size:33 final size:31
Alignment explanation
Indices: 51392073--51392144 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 31
51392063 AAACTAATGA
* *
51392073 AAATTTTTATAA-AAACTTAAGAAAGTTTAATT
1 AAATTTTTA-AATAAA-TTAAAAAAGTATAATT
51392105 AAAGTTTTTAAATAAATTAAAAAAGTATAATGT
1 AAA-TTTTTAAATAAATTAAAAAAGTATAAT-T
51392138 AAATTTT
1 AAATTTT
51392145 CAAAAATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
32 22 0.63
33 13 0.37
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.40
Consensus pattern (31 bp):
AAATTTTTAAATAAATTAAAAAAGTATAATT
Found at i:51393773 original size:27 final size:27
Alignment explanation
Indices: 51393743--51393794 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
51393733 CATTATCATG
51393743 ATCCATTACACTTTTTATTGCTTTGCA
1 ATCCATTACACTTTTTATTGCTTTGCA
51393770 ATCCATTACACTTTTTATTGCTTTG
1 ATCCATTACACTTTTTATTGCTTTG
51393795 TAAACATCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.21, C:0.21, G:0.08, T:0.50
Consensus pattern (27 bp):
ATCCATTACACTTTTTATTGCTTTGCA
Found at i:51397895 original size:21 final size:21
Alignment explanation
Indices: 51397838--51397898 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
51397828 CCAAAGATAA
**
51397838 ATTTTTTAAAAT-TAAATATT
1 ATTTTTTAAAATATTTATATT
* *
51397858 ATTATTTTAAATCTATTTATCTT
1 ATT-TTTTAAA-ATATTTATATT
51397881 ATTTTTTAAAATATTTAT
1 ATTTTTTAAAATATTTAT
51397899 TTGAATCCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
20 3 0.09
21 14 0.42
22 8 0.24
23 8 0.24
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTTTTAAAATATTTATATT
Found at i:51400036 original size:4 final size:4
Alignment explanation
Indices: 51400027--51400052 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
51400017 GAGGCTCCAT
51400027 CACC CACC CACC CACC CACC CACC CA
1 CACC CACC CACC CACC CACC CACC CA
51400053 GCATCAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.73, G:0.00, T:0.00
Consensus pattern (4 bp):
CACC
Found at i:51406098 original size:29 final size:30
Alignment explanation
Indices: 51406039--51406100 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
51406029 CAAAACTATG
51406039 CATGAACTATGATTTAATGTGCAATTGTATA
1 CATGAACTATGATTT-ATGTGCAATTGTATA
* * *
51406070 CATGAACTTTGATTT-TGTGTAATTTTATA
1 CATGAACTATGATTTATGTGCAATTGTATA
51406099 CA
1 CA
51406101 AAAAATTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 14 0.50
31 14 0.50
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.44
Consensus pattern (30 bp):
CATGAACTATGATTTATGTGCAATTGTATA
Found at i:51413316 original size:23 final size:24
Alignment explanation
Indices: 51413286--51413347 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
51413276 AAACTTTTAA
*
51413286 TAAATAAAATTATAT-AAAATTAT
1 TAAATAAAATAATATGAAAATTAT
* *
51413309 TAAATAAAATAATATGAATATTTT
1 TAAATAAAATAATATGAAAATTAT
*
51413333 TAAAAAAAATAATAT
1 TAAATAAAATAATAT
51413348 TGGGGGCCTA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 14 0.41
24 20 0.59
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (24 bp):
TAAATAAAATAATATGAAAATTAT
Found at i:51427296 original size:2 final size:2
Alignment explanation
Indices: 51427289--51427319 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
51427279 ATCTTTTTCC
51427289 TA TA 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 TA TA T
51427320 TGTTAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:51428240 original size:14 final size:14
Alignment explanation
Indices: 51428221--51428250 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
51428211 AGTGTTGAAG
51428221 ATTAAAGCTCAGAA
1 ATTAAAGCTCAGAA
51428235 ATTAAAGCTCAGAA
1 ATTAAAGCTCAGAA
51428249 AT
1 AT
51428251 CCTTCTAGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.13, T:0.23
Consensus pattern (14 bp):
ATTAAAGCTCAGAA
Found at i:51437111 original size:23 final size:21
Alignment explanation
Indices: 51437064--51437105 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
51437054 ATATATTAGA
51437064 AATAAAATATATAAAAAAATT
1 AATAAAATATATAAAAAAATT
51437085 AATAAAATATATAAAAAAATT
1 AATAAAATATATAAAAAAATT
51437106 CTAATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
AATAAAATATATAAAAAAATT
Found at i:51437128 original size:14 final size:15
Alignment explanation
Indices: 51437109--51437154 Score: 58
Period size: 16 Copynumber: 3.1 Consensus size: 15
51437099 AAAAATTCTA
51437109 ATATATAT-TAGAAT
1 ATATATATATAGAAT
51437123 ATATATATAATAGAAT
1 ATATATAT-ATAGAAT
* *
51437139 ATATAAATATATAAT
1 ATATATATATAGAAT
51437154 A
1 A
51437155 GAATTAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 8 0.29
15 7 0.25
16 13 0.46
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (15 bp):
ATATATATATAGAAT
Found at i:51437128 original size:16 final size:16
Alignment explanation
Indices: 51437109--51437148 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
51437099 AAAAATTCTA
51437109 ATATATATTAGAATAT
1 ATATATATTAGAATAT
*
51437125 ATATATAATAGAATAT
1 ATATATATTAGAATAT
*
51437141 ATAAATAT
1 ATATATAT
51437149 ATAATAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (16 bp):
ATATATATTAGAATAT
Found at i:51437193 original size:21 final size:21
Alignment explanation
Indices: 51437167--51437210 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
51437157 ATTAATATTC
51437167 TAACATCTAATATAAATTATA
1 TAACATCTAATATAAATTATA
51437188 TAACATCTAATATAAATTATA
1 TAACATCTAATATAAATTATA
51437209 TA
1 TA
51437211 TTATAAGCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (21 bp):
TAACATCTAATATAAATTATA
Found at i:51437202 original size:12 final size:12
Alignment explanation
Indices: 51437167--51437202 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
51437157 ATTAATATTC
51437167 TAACATCTAATA
1 TAACATCTAATA
51437179 TAA-AT-T-ATA
1 TAACATCTAATA
51437188 TAACATCTAATA
1 TAACATCTAATA
51437200 TAA
1 TAA
51437203 ATTATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 6
0.78 0.00 0.22
Matches are distributed among these distances:
9 6 0.29
10 3 0.14
11 3 0.14
12 9 0.43
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (12 bp):
TAACATCTAATA
Found at i:51442516 original size:60 final size:58
Alignment explanation
Indices: 51442381--51443144 Score: 753
Period size: 59 Copynumber: 12.9 Consensus size: 58
51442371 AATTTCGAGA
* *
51442381 AAATTCAGGGTTAAAAATGGAATTTTAGAAAGTTTAGGGGT-AAATGGTAATTTTTGGTG
1 AAATT-AGGGTTAAAAATGGGATTTTGGAAAG-TTAGGGGTAAAATGGTAATTTTTGGTG
* *
51442440 AAA-TCGAGGTTAAAAATGGGATTTTGGAAAGCTAGAGGGTAAAGATGGTAATTTTTGGT-
1 AAATTAG-GGTTAAAAATGGGATTTTGGAAAGTTAG-GGGTAAA-ATGGTAATTTTTGGTG
* * *
51442499 AATTTTAGGGTTAAAAATGGGATTTTGGAAAGTTCAGGGGTACAATGGTAATTTTTGAT-
1 AA-ATTAGGGTTAAAAATGGGATTTTGGAAAGTT-AGGGGTAAAATGGTAATTTTTGGTG
* *
51442558 AGAATTAGGGTTAAAATATGGAATTTT-GAAAGGTTCGGGGGTAAAATGGTAATTTTTGGTG
1 A-AATTAGGGTTAAAA-ATGGGATTTTGGAAA-GTT-AGGGGTAAAATGGTAATTTTTGGTG
**
51442619 AAATCGGGGTTAAAAATGGGATTTTGGAAAGTTTAGGGGTAAAAATGGTAATTTTTGGT-
1 AAATTAGGGTTAAAAATGGGATTTTGGAAAG-TTAGGGGT-AAAATGGTAATTTTTGGTG
* * * * * *
51442678 AATTTTGGGGTTAAAAATAGAATTTT-AAAAGGTTCGGGGTAAAATGGTAATTTTTGGTGG
1 AA-ATTAGGGTTAAAAATGGGATTTTGGAAA-GTTAGGGGTAAAATGGTAATTTTTGGT-G
* * * * *
51442738 AAA-TCGAGGTTAAAAATAGAATTTT-AAAAGGTTCAGGGGTAAAATGGTAATTTTTGGTA
1 AAATTAG-GGTTAAAAATGGGATTTTGGAAA-GTT-AGGGGTAAAATGGTAATTTTTGGTG
* ** * *
51442797 AAATTAGTGTTAAAAATAAGATTTTGGAAAGTTTGGGGGTAAAATGGTAATTTTTGATG
1 AAATTAGGGTTAAAAATGGGATTTTGGAAAG-TTAGGGGTAAAATGGTAATTTTTGGTG
** * *
51442856 AAATCGGGGTTAAAAATGGAATTTT-GAAAGGTTTGGGGGTAAAATGGTAATTTTTGGTG
1 AAATTAGGGTTAAAAATGGGATTTTGGAAA-G-TTAGGGGTAAAATGGTAATTTTTGGTG
** * * *
51442915 AAATCGGGGTTAAAAATGGGATTTTGGAAAGTTCGGAGGTAAAATGATAATTTTTGATG
1 AAATTAGGGTTAAAAATGGGATTTTGGAAAGTTAGG-GGTAAAATGGTAATTTTTGGTG
* * * * *
51442974 GAATCAGGGTTAAAAAT-GGATTTTGGAAGGTTCGAGGGTAAAATGGTAATTTTGGGTG
1 AAATTAGGGTTAAAAATGGGATTTTGGAAAGTTAG-GGGTAAAATGGTAATTTTTGGTG
* * * * *
51443032 AAATTGGGGTTAAAAATGGAATTTTGGAAAGTTTGGGGTAAATTGGTAATTTTGGGTG
1 AAATTAGGGTTAAAAATGGGATTTTGGAAAGTTAGGGGTAAAATGGTAATTTTTGGTG
* * * *
51443090 AAA-TCGAGGTT-AAAATGGGATTTTAGAAAGTTTGAGGGTAAAACGGTAATTTTTG
1 AAATTAG-GGTTAAAAATGGGATTTTGGAAAGTTAG-GGGTAAAATGGTAATTTTTG
51443145 AAAGTTTCGG
Statistics
Matches: 609, Mismatches: 66, Indels: 61
0.83 0.09 0.08
Matches are distributed among these distances:
57 27 0.04
58 150 0.25
59 254 0.42
60 173 0.28
61 5 0.01
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.34
Consensus pattern (58 bp):
AAATTAGGGTTAAAAATGGGATTTTGGAAAGTTAGGGGTAAAATGGTAATTTTTGGTG
Found at i:51442849 original size:29 final size:29
Alignment explanation
Indices: 51442394--51443155 Score: 214
Period size: 29 Copynumber: 25.9 Consensus size: 29
51442384 TTCAGGGTTA
* **
51442394 AAAATGG-AATTTTAGAAAGTTTAGGGGT
1 AAAATGGTAATTTTGGAAAGTTCGGGGGT
* *
51442422 -AAATGGTAATTTTTGGTGAAA--TCGAGGTT
1 AAAATGGTAA-TTTT-G-GAAAGTTCGGGGGT
* * * *
51442451 AAAAATGG-GATTTTGGAAAGCTAGAGGGT
1 -AAAATGGTAATTTTGGAAAGTTCGGGGGT
* * ** *
51442480 AAAGATGGTAATTTTTGGTAATTTTAGGGTT
1 AAA-ATGGTAA-TTTTGGAAAGTTCGGGGGT
* *
51442511 AAAAATGG-GATTTTGGAAAGTTCAGGGGT
1 -AAAATGGTAATTTTGGAAAGTTCGGGGGT
* * * * *
51442540 ACAATGGTAATTTTTGATAGAATT-AGGGTT
1 AAAATGGTAATTTTGGA-A-AGTTCGGGGGT
51442570 AAAATATGG-AATTTT-GAAAGGTTCGGGGGT
1 -AAA-ATGGTAATTTTGGAAA-GTTCGGGGGT
*
51442600 AAAATGGTAATTTTTGGTGAAA--TCGGGGTT
1 AAAATGGTAA-TTTT-G-GAAAGTTCGGGGGT
* **
51442630 AAAAATGG-GATTTTGGAAAGTTTAGGGGT
1 -AAAATGGTAATTTTGGAAAGTTCGGGGGT
* * * *
51442659 AAAAATGGTAATTTTTGGTAATTTTGGGGTT
1 -AAAATGGTAA-TTTTGGAAAGTTCGGGGGT
* *
51442690 AAAAATAG-AATTTT-AAAAGGTTC-GGGGT
1 -AAAATGGTAATTTTGGAAA-GTTCGGGGGT
* *
51442718 AAAATGGTAATTTTTGGTGGAAA--TCGAGGTT
1 AAAATGGTAA--TTT--TGGAAAGTTCGGGGGT
* * *
51442749 AAAAATAG-AATTTT-AAAAGGTTCAGGGGT
1 -AAAATGGTAATTTTGGAAA-GTTCGGGGGT
* * * *
51442778 AAAATGGTAATTTTTGGTAAAATT-AGTGTT
1 AAAATGGTAA-TTTTGG-AAAGTTCGGGGGT
* *
51442808 AAAAAT--AAGATTTTGGAAAGTTTGGGGGT
1 -AAAATGGTA-ATTTTGGAAAGTTCGGGGGT
*
51442837 AAAATGGTAATTTTTGATGAAA--TCGGGGTT
1 AAAATGGTAA-TTTTG--GAAAGTTCGGGGGT
*
51442867 AAAAATGG-AATTTT-GAAAGGTTTGGGGGT
1 -AAAATGGTAATTTTGGAAA-GTTCGGGGGT
*
51442896 AAAATGGTAATTTTTGGTGAAA--TCGGGGTT
1 AAAATGGTAA-TTTT-G-GAAAGTTCGGGGGT
* *
51442926 AAAAATGG-GATTTTGGAAAGTTCGGAGGT
1 -AAAATGGTAATTTTGGAAAGTTCGGGGGT
* * ** * * *
51442955 AAAATGATAATTTTTGATGGAATCAGGGTT
1 AAAATGGTAATTTTGGAAAG-TTCGGGGGT
* *
51442985 AAAAATGG--ATTTTGGAAGGTTCGAGGGT
1 -AAAATGGTAATTTTGGAAAGTTCGGGGGT
*
51443013 AAAATGGTAATTTTGGGTGAAA-TT-GGGGTT
1 AAAATGGTAATTTT--G-GAAAGTTCGGGGGT
*
51443043 AAAAATGG-AATTTTGGAAAGTT-TGGGGT
1 -AAAATGGTAATTTTGGAAAGTTCGGGGGT
* * *
51443071 AAATTGGTAATTTTGGGTGAAA--TCGAGGTT
1 AAAATGGTAATTTT--G-GAAAGTTCGGGGGT
* * * *
51443101 AAAATGG-GATTTTAGAAAGTTTGAGGGT
1 AAAATGGTAATTTTGGAAAGTTCGGGGGT
* *
51443129 AAAACGGTAATTTTTGAAAGTTTCGGG
1 AAAATGGTAATTTTGGAAAG-TTCGGG
51443156 ATCACGAATA
Statistics
Matches: 540, Mismatches: 110, Indels: 166
0.66 0.13 0.20
Matches are distributed among these distances:
26 11 0.02
27 42 0.08
28 86 0.16
29 156 0.29
30 98 0.18
31 112 0.21
32 24 0.04
33 11 0.02
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.34
Consensus pattern (29 bp):
AAAATGGTAATTTTGGAAAGTTCGGGGGT
Found at i:51444868 original size:18 final size:18
Alignment explanation
Indices: 51444845--51444879 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
51444835 TGGGCCTATA
51444845 TTTTGTAATTAGACTTTC
1 TTTTGTAATTAGACTTTC
*
51444863 TTTTGTAATTGGACTTT
1 TTTTGTAATTAGACTTT
51444880 TTAATTTATA
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:0.20, C:0.09, G:0.14, T:0.57
Consensus pattern (18 bp):
TTTTGTAATTAGACTTTC
Found at i:51445660 original size:17 final size:17
Alignment explanation
Indices: 51445635--51445695 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
51445625 AATTTTAATT
51445635 AAATAAATTTAAATTTA
1 AAATAAATTTAAATTTA
* * **
51445652 AAGTAAATTCAAACTCAA
1 AAATAAATTTAAA-TTTA
*
51445670 AAATGAATTTAAATTTA
1 AAATAAATTTAAATTTA
51445687 AAATAAATT
1 AAATAAATT
51445696 CAAACTTATT
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
17 21 0.64
18 12 0.36
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.34
Consensus pattern (17 bp):
AAATAAATTTAAATTTA
Found at i:51445679 original size:35 final size:35
Alignment explanation
Indices: 51445635--51445701 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
51445625 AATTTTAATT
*
51445635 AAATAAATTTAAATTTAAAGTAAATTCAAACTCAA
1 AAATAAATTTAAATTTAAAATAAATTCAAACTCAA
*
51445670 AAATGAATTTAAATTTAAAATAAATTCAAACT
1 AAATAAATTTAAATTTAAAATAAATTCAAACT
51445702 TATTTAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (35 bp):
AAATAAATTTAAATTTAAAATAAATTCAAACTCAA
Found at i:51449990 original size:31 final size:31
Alignment explanation
Indices: 51449955--51450017 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
51449945 TAACTCAGCG
*
51449955 ACTTAAATAAAAACTTTTGAATAATTTAATA
1 ACTTAAATAAAAACTTTCGAATAATTTAATA
51449986 ACTTAAATAAAAACTTTCGAATAATTTAATA
1 ACTTAAATAAAAACTTTCGAATAATTTAATA
51450017 A
1 A
51450018 TCATTTTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.52, C:0.08, G:0.03, T:0.37
Consensus pattern (31 bp):
ACTTAAATAAAAACTTTCGAATAATTTAATA
Found at i:51452334 original size:37 final size:39
Alignment explanation
Indices: 51452286--51452361 Score: 104
Period size: 38 Copynumber: 2.0 Consensus size: 39
51452276 TTATTCGATT
*
51452286 TTAATCGAATTAATCGAT-TGAAATTT-ATTTCAATTCAA
1 TTAATCGAATTAATC-ATATAAAATTTAATTTCAATTCAA
*
51452324 TTAATC-AATTAATCATATAAAATTTAATTTCATTTCAA
1 TTAATCGAATTAATCATATAAAATTTAATTTCAATTCAA
51452362 AAAAATTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 2 0.06
37 15 0.44
38 17 0.50
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.43
Consensus pattern (39 bp):
TTAATCGAATTAATCATATAAAATTTAATTTCAATTCAA
Found at i:51455752 original size:21 final size:19
Alignment explanation
Indices: 51455726--51455764 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
51455716 ACCTGCAATG
51455726 AAATATCGATAAAAAAATTTA
1 AAATAT-GA-AAAAAAATTTA
*
51455747 AAATATTAAAAAAAATTT
1 AAATATGAAAAAAAATTT
51455765 CACATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.59
20 1 0.06
21 6 0.35
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (19 bp):
AAATATGAAAAAAAATTTA
Found at i:51459272 original size:23 final size:23
Alignment explanation
Indices: 51459246--51459290 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
51459236 TCAAATATTA
51459246 AAATAAATA-AATATATATAAAAG
1 AAATAAATAGAAT-TATATAAAAG
* *
51459269 AAATGAATAGAATTATTTAAAA
1 AAATAAATAGAATTATATAAAA
51459291 ATAGAGTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (23 bp):
AAATAAATAGAATTATATAAAAG
Found at i:51460081 original size:26 final size:25
Alignment explanation
Indices: 51460029--51460087 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 25
51460019 GTTTCCTGGG
* *
51460029 TTAATAATTTTTAAAATTTTATATT
1 TTAATAATTTTTAAAATATAATATT
* *
51460054 TTAATCAATTTTTCAAATATAATTTT
1 TTAAT-AATTTTTAAAATATAATATT
51460080 TTAATAAT
1 TTAATAAT
51460088 ATTAACTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 8 0.28
26 21 0.72
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (25 bp):
TTAATAATTTTTAAAATATAATATT
Found at i:51468529 original size:69 final size:69
Alignment explanation
Indices: 51468185--51468499 Score: 553
Period size: 69 Copynumber: 4.6 Consensus size: 69
51468175 AATGTTATCT
*
51468185 CTCTCTTCTAGTCAGTTTTCCGGAAATATATCTGCCCTTCAGAGCCTAACATTGCTTGAATCTTT
1 CTCTCTTCTAATCAGTTTTCCGGAAATATATCTGCCCTTCAGAGCCTAACATTGCTTGAATCTTT
51468250 GGAC
66 GGAC
51468254 CTCTCTT-TAAATCAGTTTTCCGGAAATATATCTGCCCTTCAGAGCCTAACATTGCTTGAATCTT
1 CTCTCTTCT-AATCAGTTTTCCGGAAATATATCTGCCCTTCAGAGCCTAACATTGCTTGAATCTT
51468318 TGGAC
65 TGGAC
51468323 CTCTCTT-TAAATCAGTTTTCCGGAAATATATCTGCCCTTCAGAGCCTAACATTGCTTGAATCTT
1 CTCTCTTCT-AATCAGTTTTCCGGAAATATATCTGCCCTTCAGAGCCTAACATTGCTTGAATCTT
*
51468387 TAGAC
65 TGGAC
*
51468392 CTCTCTTCTAATCAGTTTTCCGGAAATATATCTGACCTTCAGAGCCTAACATTGCTTGAATCTTT
1 CTCTCTTCTAATCAGTTTTCCGGAAATATATCTGCCCTTCAGAGCCTAACATTGCTTGAATCTTT
51468457 GGAC
66 GGAC
* *
51468461 CTCTCTTCTAATCAGTTCTCTGGAAATATATCTGCCCTT
1 CTCTCTTCTAATCAGTTTTCCGGAAATATATCTGCCCTT
51468500 GAAAGTCTAA
Statistics
Matches: 237, Mismatches: 7, Indels: 4
0.96 0.03 0.02
Matches are distributed among these distances:
68 1 0.00
69 235 0.99
70 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (69 bp):
CTCTCTTCTAATCAGTTTTCCGGAAATATATCTGCCCTTCAGAGCCTAACATTGCTTGAATCTTT
GGAC
Found at i:51473648 original size:18 final size:18
Alignment explanation
Indices: 51473613--51473648 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
51473603 TTCTCTGCCG
*
51473613 TATGGCACGCTTCTGTCT
1 TATGGCACGCTTCCGTCT
*
51473631 TATGGCACGTTTCCGTCT
1 TATGGCACGCTTCCGTCT
51473649 ACCTTTGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.28, G:0.22, T:0.39
Consensus pattern (18 bp):
TATGGCACGCTTCCGTCT
Found at i:51475811 original size:16 final size:16
Alignment explanation
Indices: 51475778--51475811 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
51475768 TCAATTTGAG
* *
51475778 AAAAATTCAAAGACCA
1 AAAAATTCAAAAAACA
51475794 AAAAATTCAAAAAACA
1 AAAAATTCAAAAAACA
51475810 AA
1 AA
51475812 TTGAAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.15, G:0.03, T:0.12
Consensus pattern (16 bp):
AAAAATTCAAAAAACA
Found at i:51483564 original size:26 final size:26
Alignment explanation
Indices: 51483528--51483580 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
51483518 ATCTAGAAAG
51483528 TATCACGCTGCCGAAGTCTCAAACAT
1 TATCACGCTGCCGAAGTCTCAAACAT
*
51483554 TATCATGCTGCCGAAGTCTCAAACAT
1 TATCACGCTGCCGAAGTCTCAAACAT
51483580 T
1 T
51483581 CACTTCTAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (26 bp):
TATCACGCTGCCGAAGTCTCAAACAT
Found at i:51503094 original size:6 final size:6
Alignment explanation
Indices: 51503083--51503116 Score: 59
Period size: 6 Copynumber: 5.5 Consensus size: 6
51503073 TTGTCGTCAT
51503083 CATCAA CATCAA CATCAA CATCAA CATCATA CAT
1 CATCAA CATCAA CATCAA CATCAA CATCA-A CAT
51503117 ATCTTTTCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 23 0.85
7 4 0.15
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (6 bp):
CATCAA
Found at i:51524125 original size:14 final size:14
Alignment explanation
Indices: 51524106--51524133 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
51524096 TTAAGAAAGT
51524106 ATGAACAGATATTA
1 ATGAACAGATATTA
51524120 ATGAACAGATATTA
1 ATGAACAGATATTA
51524134 TCATGTGATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.14, T:0.29
Consensus pattern (14 bp):
ATGAACAGATATTA
Found at i:51537033 original size:32 final size:32
Alignment explanation
Indices: 51536986--51537048 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
51536976 AAAAAATTAT
* *
51536986 TGTTTTCTAGCTATTTTTCATTGTTTTGCTGC
1 TGTTTTCTAGCTATTTTTCACTCTTTTGCTGC
* *
51537018 TGTTTTCTTGTTATTTTTCACTCTTTTGCTG
1 TGTTTTCTAGCTATTTTTCACTCTTTTGCTG
51537049 TCATTTCACT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.08, C:0.16, G:0.14, T:0.62
Consensus pattern (32 bp):
TGTTTTCTAGCTATTTTTCACTCTTTTGCTGC
Found at i:51557588 original size:22 final size:22
Alignment explanation
Indices: 51557557--51557599 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
51557547 TAACACTCTT
51557557 GAAAACCATTTCTAAACTAAGA
1 GAAAACCATTTCTAAACTAAGA
*
51557579 GAAAAGCATTTCTAAACTAAG
1 GAAAACCATTTCTAAACTAAG
51557600 TATGTGGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.49, C:0.16, G:0.12, T:0.23
Consensus pattern (22 bp):
GAAAACCATTTCTAAACTAAGA
Found at i:51562496 original size:17 final size:17
Alignment explanation
Indices: 51562467--51562506 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
51562457 TATTGCTTAA
*
51562467 AAAATATTATGAAAATT
1 AAAATATTATGAAAAAT
51562484 AAAATCATT-TGAAAAAT
1 AAAAT-ATTATGAAAAAT
51562501 AAAATA
1 AAAATA
51562507 AAATTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 17 0.81
18 3 0.14
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (17 bp):
AAAATATTATGAAAAAT
Found at i:51571894 original size:66 final size:66
Alignment explanation
Indices: 51571785--51571908 Score: 194
Period size: 66 Copynumber: 1.9 Consensus size: 66
51571775 CAAATTGCTC
* *
51571785 AACTTAAAGTGAAGGCAGCAGCGAGGGAAGCAGAGACTCAAAGAAAATATGATGAACTTCAACTA
1 AACTTAAAGTCAAGGCAGCAGCGAGGGAAGCAGAGACTCAAAGAAAATATGACGAACTTCAACTA
51571850 T
66 T
* * * *
51571851 AACTTGAAGTCAAGGCAGCAGCGAGGGAAGCAGAGTCTTAAAGAAAGTATGACGAACT
1 AACTTAAAGTCAAGGCAGCAGCGAGGGAAGCAGAGACTCAAAGAAAATATGACGAACT
51571909 GCAGCTACAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 52 1.00
ACGTcount: A:0.42, C:0.15, G:0.27, T:0.16
Consensus pattern (66 bp):
AACTTAAAGTCAAGGCAGCAGCGAGGGAAGCAGAGACTCAAAGAAAATATGACGAACTTCAACTA
T
Found at i:51574652 original size:13 final size:14
Alignment explanation
Indices: 51574634--51574666 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
51574624 AATCCACTCG
51574634 AATTTTTT-ACATA
1 AATTTTTTAACATA
*
51574647 AATTTTTTAACATT
1 AATTTTTTAACATA
51574661 AATTTT
1 AATTTT
51574667 ATTATAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (14 bp):
AATTTTTTAACATA
Found at i:51586996 original size:24 final size:24
Alignment explanation
Indices: 51586961--51587126 Score: 233
Period size: 24 Copynumber: 6.9 Consensus size: 24
51586951 CAGACAATAT
* *
51586961 TTAGCTCATACGAGCACAGAATGG
1 TTAGCTCTTACGAGCCCAGAATGG
* *
51586985 TTAGCTCCTACGAGCCCAGAACGG
1 TTAGCTCTTACGAGCCCAGAATGG
*
51587009 TTAGCTCTTACGAGCCCAGAATGA
1 TTAGCTCTTACGAGCCCAGAATGG
* *
51587033 TTAGCTCTTACGAGCCCAAAATGA
1 TTAGCTCTTACGAGCCCAGAATGG
* *
51587057 TTAGCTCCTACGAGCCTAGAATGG
1 TTAGCTCTTACGAGCCCAGAATGG
* *
51587081 TTAGCTTTTACGAGCCCAAAATGG
1 TTAGCTCTTACGAGCCCAGAATGG
51587105 TTAGCTCTTACGAGCCCAGAAT
1 TTAGCTCTTACGAGCCCAGAAT
51587127 CAGAATAACG
Statistics
Matches: 125, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 125 1.00
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (24 bp):
TTAGCTCTTACGAGCCCAGAATGG
Found at i:51587203 original size:53 final size:53
Alignment explanation
Indices: 51587120--51587236 Score: 200
Period size: 53 Copynumber: 2.2 Consensus size: 53
51587110 TCTTACGAGC
51587120 CCAGAATCAGAATAACGCTCTTTGAGCCAGAATCAAAATAACGCTC-TTTGAG
1 CCAGAATCAGAATAACGCTCTTTGAGCCAGAATCAAAATAACGCTCTTTTGAG
* *
51587172 CCAGAATCAGAATAACGCTTTTTTGAGCCAGAATCAGAATAACGCTCTTTTGAG
1 CCAGAATCAGAATAACGC-TCTTTGAGCCAGAATCAAAATAACGCTCTTTTGAG
51587226 CCAGAATCAGA
1 CCAGAATCAGA
51587237 TTTACTCCTC
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
52 18 0.30
53 26 0.43
54 17 0.28
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (53 bp):
CCAGAATCAGAATAACGCTCTTTGAGCCAGAATCAAAATAACGCTCTTTTGAG
Found at i:51587204 original size:27 final size:26
Alignment explanation
Indices: 51587120--51587236 Score: 198
Period size: 26 Copynumber: 4.4 Consensus size: 26
51587110 TCTTACGAGC
51587120 CCAGAATCAGAATAACGCTCTTTGAG
1 CCAGAATCAGAATAACGCTCTTTGAG
*
51587146 CCAGAATCAAAATAACGCTCTTTGAG
1 CCAGAATCAGAATAACGCTCTTTGAG
*
51587172 CCAGAATCAGAATAACGCTTTTTTGAG
1 CCAGAATCAGAATAACGC-TCTTTGAG
51587199 CCAGAATCAGAATAACGCTCTTTTGAG
1 CCAGAATCAGAATAACGCTC-TTTGAG
51587226 CCAGAATCAGA
1 CCAGAATCAGA
51587237 TTTACTCCTC
Statistics
Matches: 85, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
26 43 0.51
27 42 0.49
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (26 bp):
CCAGAATCAGAATAACGCTCTTTGAG
Found at i:51597513 original size:20 final size:20
Alignment explanation
Indices: 51597461--51597513 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
51597451 AAAAAGAATC
*
51597461 TGCTACTATTTTTTACTGTTT
1 TGCTATTATTTTTTA-TGTTT
* *
51597482 TGCCATTGTTTTTT-TGTTTT
1 TGCTATTATTTTTTATG-TTT
51597502 TGCTATTATTTT
1 TGCTATTATTTT
51597514 ACTATTATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 2 0.08
20 13 0.50
21 11 0.42
ACGTcount: A:0.11, C:0.11, G:0.11, T:0.66
Consensus pattern (20 bp):
TGCTATTATTTTTTATGTTT
Found at i:51604649 original size:17 final size:18
Alignment explanation
Indices: 51604612--51604650 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
51604602 TAAAATATTT
* *
51604612 TTTTAATATTTTAATTAA
1 TTTTAAGATTCTAATTAA
51604630 TTTTAAGATTCTAA-TAA
1 TTTTAAGATTCTAATTAA
51604647 TTTT
1 TTTT
51604651 TTAATCGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (18 bp):
TTTTAAGATTCTAATTAA
Found at i:51606374 original size:2 final size:2
Alignment explanation
Indices: 51606367--51606396 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
51606357 GGAGTGCATT
51606367 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
51606397 AAGCTGCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:51612668 original size:76 final size:75
Alignment explanation
Indices: 51612541--51612687 Score: 186
Period size: 76 Copynumber: 1.9 Consensus size: 75
51612531 TTGCCCCTGT
* * * *
51612541 TATCACACGGCTTGATCCAATGATACATTTTCGATCTGTGAACTTCACTTTTGATTTAGGTTTTC
1 TATCACACGGCCTGATCCAATGAGACATTTTCCATCTGTGAACTTCACTTTTGATTTAGGCTTTC
51612606 AACAAAATTGC
66 AA-AAAATTGC
* * * * ** *
51612617 TATCATACGGCCTGATCTAATGAGACATTTTCCTTCTGTGAATTTTTCTTTTGGTTTAGGCTTTC
1 TATCACACGGCCTGATCCAATGAGACATTTTCCATCTGTGAACTTCACTTTTGATTTAGGCTTTC
51612682 AAAAAA
66 AAAAAA
51612688 GTTGAGAAAC
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
75 4 0.07
76 56 0.93
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (75 bp):
TATCACACGGCCTGATCCAATGAGACATTTTCCATCTGTGAACTTCACTTTTGATTTAGGCTTTC
AAAAAATTGC
Found at i:51618739 original size:29 final size:30
Alignment explanation
Indices: 51618672--51618748 Score: 138
Period size: 29 Copynumber: 2.6 Consensus size: 30
51618662 ACTATTATTC
51618672 AAATACCACCTAAACTATTCATCAAAAAAAA
1 AAATACCACCTAAACTATTCATC-AAAAAAA
51618703 AAATACCACCTAAACTATTCATC-AAAAAA
1 AAATACCACCTAAACTATTCATCAAAAAAA
51618732 AAATACCACCTAAACTA
1 AAATACCACCTAAACTA
51618749 AATTTAATTA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
29 23 0.50
31 23 0.50
ACGTcount: A:0.56, C:0.25, G:0.00, T:0.19
Consensus pattern (30 bp):
AAATACCACCTAAACTATTCATCAAAAAAA
Found at i:51620236 original size:23 final size:23
Alignment explanation
Indices: 51620210--51620259 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
51620200 TAATTATTAA
*
51620210 ATTTTATTTAATCGATTCAATTG
1 ATTTTATTTAATCAATTCAATTG
* *
51620233 ATTTTTTTTACTCAATTCAATTG
1 ATTTTATTTAATCAATTCAATTG
51620256 ATTT
1 ATTT
51620260 ACGGTTCAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.10, G:0.06, T:0.56
Consensus pattern (23 bp):
ATTTTATTTAATCAATTCAATTG
Found at i:51630173 original size:48 final size:48
Alignment explanation
Indices: 51630071--51630174 Score: 115
Period size: 48 Copynumber: 2.2 Consensus size: 48
51630061 AACACACACC
* **
51630071 TATGGAATTACAAACACCATATGCATGCTTCACATAAGAACTAATGCC
1 TATGGAATTACAAACACCATATGCATGCTTCACATAAGAACGAATGAA
* *
51630119 TATGGAATGT-CAAACATCATATGCATGCTTCAC-TGAGAGACGAATGGAA
1 TATGGAAT-TACAAACACCATATGCATGCTTCACATAAGA-ACGAAT-GAA
51630168 T-TGGAAT
1 TATGGAAT
51630175 AGCAAAACAT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
47 4 0.08
48 41 0.85
49 3 0.06
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (48 bp):
TATGGAATTACAAACACCATATGCATGCTTCACATAAGAACGAATGAA
Found at i:51633010 original size:17 final size:16
Alignment explanation
Indices: 51632997--51633030 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
51632987 TATAATATCC
51632997 AAATAACAATAATAATA
1 AAATAACAATAAT-ATA
*
51633014 AAATAATAATAATATA
1 AAATAACAATAATATA
51633030 A
1 A
51633031 TAACAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATAACAATAATATA
Found at i:51633018 original size:11 final size:11
Alignment explanation
Indices: 51632998--51633041 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
51632988 ATAATATCCA
51632998 AATAACAATAAT
1 AATAA-AATAAT
51633010 AATAAAATAAT
1 AATAAAATAAT
*
51633021 AATAATATAAT
1 AATAAAATAAT
*
51633032 AACAAAATAA
1 AATAAAATAA
51633042 CACCAAAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 24 0.83
12 5 0.17
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:51633021 original size:14 final size:14
Alignment explanation
Indices: 51633004--51633033 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
51632994 TCCAAATAAC
51633004 AATAATAATAAAAT
1 AATAATAATAAAAT
*
51633018 AATAATAATATAAT
1 AATAATAATAAAAT
51633032 AA
1 AA
51633034 CAAAATAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAATAATAAAAT
Found at i:51638472 original size:19 final size:19
Alignment explanation
Indices: 51638436--51638477 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
51638426 TTTGATTAGG
*
51638436 GATTTTACATGTTATTGCAA
1 GATTTAACATGTTATTGC-A
*
51638456 GATTTAACAT-TTGTTGCA
1 GATTTAACATGTTATTGCA
51638474 GATT
1 GATT
51638478 CTCGGGTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 6 0.30
20 9 0.45
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.45
Consensus pattern (19 bp):
GATTTAACATGTTATTGCA
Found at i:51657689 original size:22 final size:22
Alignment explanation
Indices: 51657648--51657696 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
51657638 AATTTTAGTT
** *
51657648 AATATGTTAAAAAGGGTTTGCA
1 AATATGTTAAAAAGCCTTTGAA
*
51657670 AATATGTTAATAAGCCTTTGAA
1 AATATGTTAAAAAGCCTTTGAA
51657692 AATAT
1 AATAT
51657697 ATATATTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (22 bp):
AATATGTTAAAAAGCCTTTGAA
Found at i:51663744 original size:29 final size:26
Alignment explanation
Indices: 51663712--51663776 Score: 67
Period size: 29 Copynumber: 2.3 Consensus size: 26
51663702 AAAATTGAAT
* *
51663712 CAAATTAAAATTTTATGTATAAAATTACA
1 CAAATTAAAA-TTCATATATAAAATT--A
*
51663741 CAAAAATAAAATTCATATATAAAATTA
1 C-AAATTAAAATTCATATATAAAATTA
51663768 CAAATTAAA
1 CAAATTAAA
51663777 TCAAAATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
26 7 0.23
27 2 0.06
29 14 0.45
30 8 0.26
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.32
Consensus pattern (26 bp):
CAAATTAAAATTCATATATAAAATTA
Found at i:51667958 original size:40 final size:40
Alignment explanation
Indices: 51667861--51667989 Score: 179
Period size: 40 Copynumber: 3.1 Consensus size: 40
51667851 GGGTGTGTGT
* * * *
51667861 GGCACACGGGGGCGTGTCAGGGTATGTGTGTATACTATT-TGGA
1 GGCACACGGGCGTGTGCCAGGG--TGTGTGTATACTGTTCT--A
51667904 GGCACACGGGCGTGTGCCAGGGTGTGTGTATACTGTTCTA
1 GGCACACGGGCGTGTGCCAGGGTGTGTGTATACTGTTCTA
51667944 GGCACACGGGCGTGTGCCAGGGTGTGTGTATACTGTTCTA
1 GGCACACGGGCGTGTGCCAGGGTGTGTGTATACTGTTCTA
51667984 GGCACA
1 GGCACA
51667990 TGGGTTGACA
Statistics
Matches: 81, Mismatches: 4, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
40 47 0.58
41 14 0.17
42 1 0.01
43 19 0.23
ACGTcount: A:0.17, C:0.19, G:0.38, T:0.26
Consensus pattern (40 bp):
GGCACACGGGCGTGTGCCAGGGTGTGTGTATACTGTTCTA
Found at i:51668691 original size:29 final size:29
Alignment explanation
Indices: 51668649--51668727 Score: 115
Period size: 29 Copynumber: 2.7 Consensus size: 29
51668639 ACGGAAGGGG
*
51668649 GTATCACGTCTGCATCTGTAACTGTATTT
1 GTATCATGTCTGCATCTGTAACTGTATTT
51668678 GTATCATGTCTGCATCTGTAACTGTATTT
1 GTATCATGTCTGCATCTGTAACTGTATTT
* *
51668707 GTGA-CATGACTGTATCTGTAA
1 GT-ATCATGTCTGCATCTGTAA
51668728 TTGTGTCTCT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
29 45 0.98
30 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.41
Consensus pattern (29 bp):
GTATCATGTCTGCATCTGTAACTGTATTT
Found at i:51668740 original size:29 final size:29
Alignment explanation
Indices: 51668708--51668790 Score: 94
Period size: 29 Copynumber: 2.9 Consensus size: 29
51668698 ACTGTATTTG
**
51668708 TGACATGACTGTATCTGTAATTGTGTCTC
1 TGACATGACTGTATCTGTAATTGTACCTC
* * * *
51668737 TGACATGATTGTATCTATAACTGTACCTG
1 TGACATGACTGTATCTGTAATTGTACCTC
* *
51668766 TGGCATGAGTGTATCTGTAATTGTA
1 TGACATGACTGTATCTGTAATTGTA
51668791 TCCGTATTAT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.40
Consensus pattern (29 bp):
TGACATGACTGTATCTGTAATTGTACCTC
Found at i:51671047 original size:2 final size:2
Alignment explanation
Indices: 51671040--51671069 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
51671030 GTTCTTGTCA
51671040 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
51671070 GATTATGAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51681898 original size:39 final size:40
Alignment explanation
Indices: 51681835--51681914 Score: 126
Period size: 39 Copynumber: 2.0 Consensus size: 40
51681825 GCATATTAAC
51681835 TAAAAAAAACTAATTGATGTTTTTAAAAAAAAATTACATA
1 TAAAAAAAACTAATTGATGTTTTTAAAAAAAAATTACATA
* * *
51681875 TAAAAAAAATTAGTTGATG-TTTTAAAAAATAATTACATA
1 TAAAAAAAACTAATTGATGTTTTTAAAAAAAAATTACATA
51681914 T
1 T
51681915 TTATTATTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
39 20 0.54
40 17 0.46
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (40 bp):
TAAAAAAAACTAATTGATGTTTTTAAAAAAAAATTACATA
Found at i:51682391 original size:3 final size:3
Alignment explanation
Indices: 51682383--51682422 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
51682373 ACTATATGCA
51682383 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
51682423 TAAAAAAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:51682878 original size:7 final size:8
Alignment explanation
Indices: 51682847--51682888 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
51682837 CGAAATTAAA
51682847 TTATAATT
1 TTATAATT
51682855 TTATAATT
1 TTATAATT
*
51682863 TGA-ATATT
1 TTATA-ATT
*
51682871 TTATATTT
1 TTATAATT
51682879 TTATAATT
1 TTATAATT
51682887 TT
1 TT
51682889 TTAAGTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 1 0.04
8 26 0.93
9 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (8 bp):
TTATAATT
Found at i:51687511 original size:20 final size:21
Alignment explanation
Indices: 51687482--51687521 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
51687472 AGATATTTGG
51687482 AAAATGAAAAAAAAAATAAAA
1 AAAATGAAAAAAAAAATAAAA
*
51687503 AAAAT-AAAAAATAAATAAA
1 AAAATGAAAAAAAAAATAAA
51687522 TAAATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (21 bp):
AAAATGAAAAAAAAAATAAAA
Found at i:51687513 original size:16 final size:15
Alignment explanation
Indices: 51687488--51687517 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
51687478 TTGGAAAATG
51687488 AAAAAAAAAATAAAA
1 AAAAAAAAAATAAAA
51687503 AAAATAAAAAATAAA
1 AAAA-AAAAAATAAA
51687518 TAAATAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAAAAAAAATAAAA
Found at i:51691632 original size:24 final size:23
Alignment explanation
Indices: 51691571--51691637 Score: 55
Period size: 24 Copynumber: 2.7 Consensus size: 23
51691561 TTATTTTATA
* *
51691571 TTTAATTTTTTAAAAATAGAATAT
1 TTTAA-TTTTTATAAATAGAAAAT
*
51691595 TTT-ATTTTAGTATAAATATAAAAT
1 TTTAATTTT--TATAAATAGAAAAT
51691619 TTTAATTATTTATACAATA
1 TTTAATT-TTTATA-AATA
51691638 AATTTACATT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
22 4 0.11
23 1 0.03
24 21 0.60
25 7 0.20
26 2 0.06
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (23 bp):
TTTAATTTTTATAAATAGAAAAT
Found at i:51696310 original size:27 final size:25
Alignment explanation
Indices: 51696280--51696334 Score: 67
Period size: 28 Copynumber: 2.1 Consensus size: 25
51696270 TGAAGGGAGG
51696280 AAAA-TAAAAAGAGAATGGAAAATAAAA
1 AAAATTAAAAAGA-AAT-GAAAA-AAAA
*
51696307 AAAATTAAAAAGAAATTAAAAAAAA
1 AAAATTAAAAAGAAATGAAAAAAAA
51696332 AAA
1 AAA
51696335 TTCAAATTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 7 0.27
26 4 0.15
27 7 0.27
28 8 0.31
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.13
Consensus pattern (25 bp):
AAAATTAAAAAGAAATGAAAAAAAA
Found at i:51707126 original size:57 final size:57
Alignment explanation
Indices: 51707065--51707173 Score: 137
Period size: 57 Copynumber: 1.9 Consensus size: 57
51707055 CCAATTATGG
* * * * *
51707065 TTTTTTTTTATTACTTAATTATGAAAAGTTAAAAAATGGTCATTCAACTATTAATAA
1 TTTTTTTTGATCACTTAACTATGAAAAGTTAAAAAATGATCATTCAAATATTAATAA
* * * *
51707122 TTTTTTTTGGTCATTTAACTATGAAAAGTTATAAAATTATCATTCAAATATT
1 TTTTTTTTGATCACTTAACTATGAAAAGTTAAAAAATGATCATTCAAATATT
51707174 CAATTTTATC
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
57 43 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.47
Consensus pattern (57 bp):
TTTTTTTTGATCACTTAACTATGAAAAGTTAAAAAATGATCATTCAAATATTAATAA
Found at i:51707759 original size:17 final size:17
Alignment explanation
Indices: 51707734--51707788 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
51707724 TTTCTCGATG
*
51707734 AAAAAAATAATATTTTT
1 AAAATAATAATATTTTT
* *
51707751 AAAATAATAAT-TATTA
1 AAAATAATAATATTTTT
*
51707767 AAAATAA-AGTAATTTTT
1 AAAATAATAAT-ATTTTT
51707784 AAAAT
1 AAAAT
51707789 GAGTAATTAT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
15 2 0.07
16 10 0.33
17 18 0.60
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (17 bp):
AAAATAATAATATTTTT
Found at i:51707795 original size:16 final size:15
Alignment explanation
Indices: 51707745--51707796 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 15
51707735 AAAAAATAAT
*
51707745 ATTTTTAAAATAATA
1 ATTTTTAAAATAGTA
*
51707760 ATTATTAAAAATAAAGTA
1 ATT-TTTAAAAT--AGTA
51707778 ATTTTTAAAATGAGTA
1 ATTTTTAAAAT-AGTA
51707794 ATT
1 ATT
51707797 ATCTTAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
15 3 0.10
16 14 0.47
17 7 0.23
18 6 0.20
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (15 bp):
ATTTTTAAAATAGTA
Found at i:51716693 original size:20 final size:20
Alignment explanation
Indices: 51716650--51716694 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
51716640 TTTAAAATTT
* * *
51716650 TAAATTTAACTATAAAAATG
1 TAAATGTAAATATAAAAATA
*
51716670 TAAATGTAAATATAAATATA
1 TAAATGTAAATATAAAAATA
51716690 TAAAT
1 TAAAT
51716695 AAAATCAGAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (20 bp):
TAAATGTAAATATAAAAATA
Found at i:51717119 original size:18 final size:17
Alignment explanation
Indices: 51717079--51717120 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
51717069 GCTAGGTCTC
51717079 TAATTTATCTAAAAAATA
1 TAATTT-TCTAAAAAATA
*
51717097 T-ATTTTCTTAAAAATAA
1 TAATTTTCTAAAAAAT-A
51717114 TAATTTT
1 TAATTTT
51717121 TTGATTTGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 9 0.43
17 6 0.29
18 6 0.29
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (17 bp):
TAATTTTCTAAAAAATA
Found at i:51720154 original size:13 final size:13
Alignment explanation
Indices: 51720134--51720181 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
51720124 TGAGAAATAC
51720134 TTTTAAAAAGTG-
1 TTTTAAAAAGTGA
*
51720146 TTTTGAAAAATTGA
1 TTTT-AAAAAGTGA
51720160 TTTTAAAAAGT-A
1 TTTTAAAAAGTGA
51720172 CTTTTAAAAA
1 -TTTTAAAAA
51720182 ATTTGGTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
12 5 0.16
13 22 0.71
14 4 0.13
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.42
Consensus pattern (13 bp):
TTTTAAAAAGTGA
Found at i:51720170 original size:26 final size:27
Alignment explanation
Indices: 51720134--51720184 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
51720124 TGAGAAATAC
* *
51720134 TTTTAAAAAGT-GTTTTGAAAAATTGA
1 TTTTAAAAAGTACTTTTAAAAAATTGA
51720160 TTTTAAAAAGTACTTTTAAAAAATT
1 TTTTAAAAAGTACTTTTAAAAAATT
51720185 TGGTTTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.45, C:0.02, G:0.10, T:0.43
Consensus pattern (27 bp):
TTTTAAAAAGTACTTTTAAAAAATTGA
Found at i:51720191 original size:27 final size:26
Alignment explanation
Indices: 51720135--51720192 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
51720125 GAGAAATACT
* * *
51720135 TTTAAAAAGTGTTTTGAAAAATTGAT
1 TTTAAAAAGTCTTTTAAAAAATTGAG
51720161 TTTAAAAAGTACTTTTAAAAAATTTG-G
1 TTTAAAAAGT-CTTTTAAAAAA-TTGAG
51720188 TTTAA
1 TTTAA
51720193 TATTTGAGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 10 0.37
27 14 0.52
28 3 0.11
ACGTcount: A:0.43, C:0.02, G:0.12, T:0.43
Consensus pattern (26 bp):
TTTAAAAAGTCTTTTAAAAAATTGAG
Found at i:51722116 original size:29 final size:29
Alignment explanation
Indices: 51722084--51722180 Score: 149
Period size: 29 Copynumber: 3.3 Consensus size: 29
51722074 TTGTCTTATA
* * *
51722084 TTACATTTTAATCATTTATATTTGAGATG
1 TTACATTTTAATCACTTATGTTTGATATG
51722113 TTACATTTTAATCACTTATGTTTGATATG
1 TTACATTTTAATCACTTATGTTTGATATG
*
51722142 TTACGTTTTAATCACTTATGTTTGATATG
1 TTACATTTTAATCACTTATGTTTGATATG
*
51722171 TTACGTTTTA
1 TTACATTTTA
51722181 GTTTAAATGG
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.27, C:0.09, G:0.11, T:0.53
Consensus pattern (29 bp):
TTACATTTTAATCACTTATGTTTGATATG
Found at i:51722250 original size:18 final size:19
Alignment explanation
Indices: 51722224--51722264 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
51722214 AATTAGATTT
51722224 TTAATTTAAATAAATTT-AA
1 TTAATTTAAA-AAATTTAAA
*
51722243 TTAA-TTAAAAATTTTAAA
1 TTAATTTAAAAAATTTAAA
51722261 TTAA
1 TTAA
51722265 ATACACCTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTAATTTAAAAAATTTAAA
Found at i:51740834 original size:20 final size:18
Alignment explanation
Indices: 51740809--51740846 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
51740799 TCTAATAAGC
*
51740809 ATAATAA-AATTATAAAT
1 ATAATAATAAATATAAAT
51740826 ATAATAATAAATATAAAT
1 ATAATAATAAATATAAAT
51740844 ATA
1 ATA
51740847 CATATTCGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAATAATAAATATAAAT
Found at i:51746647 original size:15 final size:16
Alignment explanation
Indices: 51746627--51746661 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
51746617 TTAAATATGG
51746627 AAAGATCTCAAAT-AA
1 AAAGATCTCAAATGAA
*
51746642 AAAGATTTCAAATGAA
1 AAAGATCTCAAATGAA
51746658 AAAG
1 AAAG
51746662 TTGTTAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.60, C:0.09, G:0.11, T:0.20
Consensus pattern (16 bp):
AAAGATCTCAAATGAA
Found at i:51756540 original size:2 final size:2
Alignment explanation
Indices: 51756533--51756574 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
51756523 ACTTAAAATA
* *
51756533 AT AT AT AT AT AT AT A- AA AT A- AC AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
51756573 AT
1 AT
51756575 GTGTGTGTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:51756551 original size:20 final size:20
Alignment explanation
Indices: 51756526--51756567 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
51756516 ATAAAGCACT
*
51756526 TAAAATAATATATATATATA
1 TAAAATAACATATATATATA
51756546 TAAAATAACATATATATATA
1 TAAAATAACATATATATATA
51756566 TA
1 TA
51756568 TATATATGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
TAAAATAACATATATATATA
Found at i:51762462 original size:13 final size:13
Alignment explanation
Indices: 51762444--51762468 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51762434 AAGTTTTCCG
51762444 AAAAGGAAAGAAT
1 AAAAGGAAAGAAT
51762457 AAAAGGAAAGAA
1 AAAAGGAAAGAA
51762469 AAATGGCAGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.24, T:0.04
Consensus pattern (13 bp):
AAAAGGAAAGAAT
Found at i:51771134 original size:42 final size:42
Alignment explanation
Indices: 51771075--51771158 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
51771065 CTAAATATTT
* *
51771075 TTAAACCCAAATATAATTTCATTCTTAAAAAACGCTCATAAA
1 TTAAACCCAAATATAATTTCATTCCTAAAAAACACTCATAAA
* * *
51771117 TTAAACTCAAATATAATTTTATTCCTAAATAACACTCATAAA
1 TTAAACCCAAATATAATTTCATTCCTAAAAAACACTCATAAA
51771159 CAATTTTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.48, C:0.18, G:0.01, T:0.33
Consensus pattern (42 bp):
TTAAACCCAAATATAATTTCATTCCTAAAAAACACTCATAAA
Found at i:51774920 original size:6 final size:6
Alignment explanation
Indices: 51774909--51774943 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
51774899 CAAAAGGGAA
*
51774909 GAAGAT GAAGAT AAAGAT GAAGAT GAAGAT GAAGA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGA
51774944 AGAGAGGCGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.54, C:0.00, G:0.31, T:0.14
Consensus pattern (6 bp):
GAAGAT
Found at i:51778109 original size:29 final size:28
Alignment explanation
Indices: 51778085--51778245 Score: 112
Period size: 29 Copynumber: 5.5 Consensus size: 28
51778075 CATCGAGGTA
51778085 AAAAATGGAATTTTAAAAGATTCGAGGGGT
1 AAAAATGGAATTTTAAAAGATTC--GGGGT
**** *
51778115 -AAAATGGTAATTTTCGGTGAAATCGGGGT
1 AAAAATGG-AATTTTAAAAG-ATTCGGGGT
*
51778144 TAAAATGGAATTTTAAAAGATTCGGGGGT
1 AAAAATGGAATTTTAAAAGATTC-GGGGT
**** *
51778173 -AAAATGGTAATTTTTGGTGAAGTCGGGGTT
1 AAAAATGG-AATTTTAAAAG-ATTCGGGG-T
51778203 AAAAATGGAATTTTAAAAGATTCGGGGGT
1 AAAAATGGAATTTTAAAAGATTC-GGGGT
51778232 -AAAATGGTAATTTT
1 AAAAATGG-AATTTT
51778246 TGGTGGAGTC
Statistics
Matches: 101, Mismatches: 20, Indels: 21
0.71 0.14 0.15
Matches are distributed among these distances:
28 17 0.17
29 45 0.45
30 29 0.29
31 10 0.10
ACGTcount: A:0.37, C:0.04, G:0.28, T:0.32
Consensus pattern (28 bp):
AAAAATGGAATTTTAAAAGATTCGGGGT
Found at i:51778192 original size:58 final size:59
Alignment explanation
Indices: 51778056--51778391 Score: 457
Period size: 59 Copynumber: 5.7 Consensus size: 59
51778046 CCCGGGGGCA
** * *
51778056 AAAATGGTAA-TTTTGGTGTCATCGAGGTAAAAAATGGAATTTTAAAAGATTCGAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCG-GGGGT
*
51778115 AAAATGGTAATTTTCGGTGAAATCGGGGTT-AAAATGGAATTTTAAAAGATTCGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
*
51778173 AAAATGGTAATTTTTGGTGAAGTCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
* * * *
51778232 AAAATGGTAATTTTTGGTGGAGTCGGGGTTAAAACA--GAATTTTAGAAGATTTGGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAA-ATGGAATTTTAAAAGA-TTCGGGGGT
* * * **
51778291 AAAATGGTAATTTTCGGTGAAACCGAGGTTAAAAATGGAATTTTAAAAGATTTAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
* *
51778350 AAAATGGTAA-TTTTGGTGAAATAGGGGTTAAAAATGGGATTT
1 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTT
51778392 AGGGAAGTTT
Statistics
Matches: 248, Mismatches: 23, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
58 73 0.29
59 148 0.60
60 27 0.11
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
Found at i:51778259 original size:29 final size:30
Alignment explanation
Indices: 51778110--51778265 Score: 124
Period size: 30 Copynumber: 5.3 Consensus size: 30
51778100 AAAGATTCGA
* * *
51778110 GGGG-TAAAATGGTAATTTTCGGTGAAATC
1 GGGGTTAAAATGGTAATTTTTGGTGGAGTC
**** *
51778139 GGGGTTAAAATGG-AA-TTTTAAAAGATTC
1 GGGGTTAAAATGGTAATTTTTGGTGGAGTC
* *
51778167 GGGGGTAAAATGGTAATTTTTGGTGAAGTC
1 GGGGTTAAAATGGTAATTTTTGGTGGAGTC
**** *
51778197 GGGGTTAAAAATGG-AA-TTTTAAAAGATTC
1 GGGGTT-AAAATGGTAATTTTTGGTGGAGTC
*
51778226 GGGGGTAAAATGGTAATTTTTGGTGGAGTC
1 GGGGTTAAAATGGTAATTTTTGGTGGAGTC
51778256 GGGGTTAAAA
1 GGGGTTAAAA
51778266 CAGAATTTTA
Statistics
Matches: 93, Mismatches: 28, Indels: 11
0.70 0.21 0.08
Matches are distributed among these distances:
28 25 0.27
29 22 0.24
30 39 0.42
31 7 0.08
ACGTcount: A:0.33, C:0.04, G:0.32, T:0.31
Consensus pattern (30 bp):
GGGGTTAAAATGGTAATTTTTGGTGGAGTC
Found at i:51778442 original size:30 final size:30
Alignment explanation
Indices: 51778423--51778602 Score: 297
Period size: 30 Copynumber: 6.0 Consensus size: 30
51778413 ATGATTTTTG
* *
51778423 AAAGTTTTGGGGTTAAAATGTGATTTTGGA
1 AAAGTTTTGGGGTCAAAATGTAATTTTGGA
*
51778453 AAAGTTTTAGGGTCAAAATGTAATTTTGGA
1 AAAGTTTTGGGGTCAAAATGTAATTTTGGA
*
51778483 AAAGTTTCGGGGTCAAAATGTAATTTTGGA
1 AAAGTTTTGGGGTCAAAATGTAATTTTGGA
*
51778513 AAAGTTTTGGGGTTAAAATGTAATTTTGGA
1 AAAGTTTTGGGGTCAAAATGTAATTTTGGA
*
51778543 AAAGTTTTGGGGTCAAAATGTAATTTTAGA
1 AAAGTTTTGGGGTCAAAATGTAATTTTGGA
*
51778573 AAAGTTTTGGGGTCAAAATATAATTTTGGA
1 AAAGTTTTGGGGTCAAAATGTAATTTTGGA
51778603 CAATTTAGGG
Statistics
Matches: 139, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 139 1.00
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (30 bp):
AAAGTTTTGGGGTCAAAATGTAATTTTGGA
Found at i:51778626 original size:90 final size:90
Alignment explanation
Indices: 51778423--51778626 Score: 304
Period size: 90 Copynumber: 2.3 Consensus size: 90
51778413 ATGATTTTTG
* * *
51778423 AAAGTTTTGGGGTTAAAATGTGATTTTGGAAAAGTTTTAGGGTCAAAATGTAATTTTGGAAAAGT
1 AAAGTTTAGGGGTTAAAATGTAATTTTGGAAAAGTTTTAGGGTCAAAATGTAATTTTAGAAAAGT
*
51778488 TTCGGGGTCAAAATGTAATTTTGGA
66 TTCGGGGTCAAAATATAATTTTGGA
* *
51778513 AAAGTTTTGGGGTTAAAATGTAATTTTGGAAAAGTTTTGGGGTCAAAATGTAATTTTAGAAAAGT
1 AAAGTTTAGGGGTTAAAATGTAATTTTGGAAAAGTTTTAGGGTCAAAATGTAATTTTAGAAAAGT
*
51778578 TTTGGGGTCAAAATATAATTTTGGA
66 TTCGGGGTCAAAATATAATTTTGGA
*
51778603 CAA-TTTAGGGGCTTACAAA-GTAAT
1 AAAGTTTAGGGG-TTA-AAATGTAAT
51778627 AAAACCAAAA
Statistics
Matches: 105, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
89 7 0.07
90 95 0.90
91 3 0.03
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.36
Consensus pattern (90 bp):
AAAGTTTAGGGGTTAAAATGTAATTTTGGAAAAGTTTTAGGGTCAAAATGTAATTTTAGAAAAGT
TTCGGGGTCAAAATATAATTTTGGA
Found at i:51779432 original size:20 final size:18
Alignment explanation
Indices: 51779403--51779445 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
51779393 AAAGCTTCTC
51779403 TTTTTATTCTTAT-TATTAT
1 TTTTTATTCTT-TCTATT-T
51779422 TTTTTATTTCTTTCTATTT
1 TTTTTA-TTCTTTCTATTT
51779441 TTTTT
1 TTTTT
51779446 GTTTGGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTATTCTTTCTATTT
Found at i:51780454 original size:11 final size:11
Alignment explanation
Indices: 51780440--51780510 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
51780430 AAATTAGGTT
51780440 TAAATTTAAAA
1 TAAATTTAAAA
51780451 TAAATTT-AAA
1 TAAATTTAAAA
* *
51780461 T-AA-GTAAATT
1 TAAATTTAAA-A
*
51780471 TAAATTTAAGA
1 TAAATTTAAAA
51780482 TAAATTTAAAAA
1 TAAATTT-AAAA
*
51780494 TGAATTTAAAA
1 TAAATTTAAAA
*
51780505 TTAATT
1 TAAATT
51780511 CAAACATTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
8 1 0.02
9 4 0.09
10 5 0.11
11 25 0.53
12 12 0.26
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.39
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:51780476 original size:31 final size:29
Alignment explanation
Indices: 51780438--51780508 Score: 97
Period size: 31 Copynumber: 2.4 Consensus size: 29
51780428 TTAAATTAGG
51780438 TTTAAATTTAAAATAAATTTAAATAAGTAAA
1 TTTAAATTTAAAATAAATTTAAA-AA-TAAA
* *
51780469 TTTAAATTTAAGATAAATTTAAAAATGAA
1 TTTAAATTTAAAATAAATTTAAAAATAAA
*
51780498 TTTAAAATTAA
1 TTTAAATTTAA
51780509 TTCAAACATT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 13 0.35
30 2 0.05
31 22 0.59
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.39
Consensus pattern (29 bp):
TTTAAATTTAAAATAAATTTAAAAATAAA
Found at i:51789268 original size:29 final size:29
Alignment explanation
Indices: 51789236--51789513 Score: 165
Period size: 29 Copynumber: 9.5 Consensus size: 29
51789226 ATCGAGGTAA
*
51789236 AAAATGG-AATTTTAAAAGATTCGAGGGGT
1 AAAATGGTAATTTTAGAAGATTCG-GGGGT
* ** * *
51789265 AAAATGGTAATTTTCGGTGAAATCGGGGTT
1 AAAATGGTAATTTTAGAAG-ATTCGGGGGT
*
51789295 AAAATGG-AATTTTAAAAGATTCGGGGGT
1 AAAATGGTAATTTTAGAAGATTCGGGGGT
* * *
51789323 AAAATGGGAAATTTTGGTGAAG--TCGGGGTT
1 AAAAT-GGTAATTTT--AGAAGATTCGGGGGT
* *
51789353 AAAAATGG-AATTTTAAAAGATTCAGGGGT
1 -AAAATGGTAATTTTAGAAGATTCGGGGGT
* ** * * *
51789382 AAAATGGTAATTTTCGGTGAAGTCGAGGTT
1 AAAATGGTAATTTTAGAAG-ATTCGGGGGT
* * *
51789412 CAAACGG-AATTTTAGAAGATTTGGGGGGT
1 AAAATGGTAATTTTAGAAGA-TTCGGGGGT
* ** ** *
51789441 AAAATGGTAATTTTTGGTGAAACCGGGGTT
1 AAAATGGTAATTTTAGAAG-ATTCGGGGGT
*
51789471 AAAAATGG-AATTTTAAAAGATTCGGGGGT
1 -AAAATGGTAATTTTAGAAGATTCGGGGGT
51789500 AAAATGGTAATTTT
1 AAAATGGTAATTTT
51789514 GGTGAAATAG
Statistics
Matches: 181, Mismatches: 52, Indels: 32
0.68 0.20 0.12
Matches are distributed among these distances:
27 3 0.02
28 28 0.15
29 66 0.36
30 64 0.35
31 17 0.09
32 3 0.02
ACGTcount: A:0.36, C:0.05, G:0.29, T:0.31
Consensus pattern (29 bp):
AAAATGGTAATTTTAGAAGATTCGGGGGT
Found at i:51789536 original size:30 final size:30
Alignment explanation
Indices: 51789205--51789536 Score: 121
Period size: 29 Copynumber: 11.3 Consensus size: 30
51789195 ACCCGGAGGC
** * *
51789205 AAAAATGGTAATTTTGGTGTCATCGAGGTA
1 AAAAATGGTAATTTTGGTGAAATCGGGGTT
** *
51789235 AAAAATGG-AATTTT--AAAAGATTCGAGGGGT
1 AAAAATGGTAATTTTGGTGAA-A-TCG-GGGTT
51789265 -AAAATGGTAATTTTCGGTGAAATCGGGGTT
1 AAAAATGGTAATTTT-GGTGAAATCGGGGTT
** *
51789295 -AAAATGG-AATTTT--AAAAGATTCGGGGGT
1 AAAAATGGTAATTTTGGTGAA-A-TCGGGGTT
* *
51789323 -AAAATGGGAAATTTTGGTGAAGTCGGGGTT
1 AAAAAT-GGTAATTTTGGTGAAATCGGGGTT
**
51789353 AAAAATGG-AATTTT--AAAAGATTCAGGGG-T
1 AAAAATGGTAATTTTGGTGAA-A-TC-GGGGTT
* *
51789382 -AAAATGGTAATTTTCGGTGAAGTCGAGGTT
1 AAAAATGGTAATTTT-GGTGAAATCGGGGTT
* * ** ** * *
51789412 -CAAACGG-AATTTTAGAAGATTTGGGGGGT
1 AAAAATGGTAATTTT-GGTGAAATCGGGGTT
*
51789441 -AAAATGGTAATTTTTGGTGAAACCGGGGTT
1 AAAAATGGTAA-TTTTGGTGAAATCGGGGTT
** *
51789471 AAAAATGG-AATTTT--AAAAGATTCGGGGGT
1 AAAAATGGTAATTTTGGTGAA-A-TCGGGGTT
*
51789500 -AAAATGGTAATTTTGGTGAAATAGGGGTT
1 AAAAATGGTAATTTTGGTGAAATCGGGGTT
51789529 AAAAATGG
1 AAAAATGG
51789537 GATTTAGGGA
Statistics
Matches: 220, Mismatches: 51, Indels: 62
0.66 0.15 0.19
Matches are distributed among these distances:
26 2 0.01
27 5 0.02
28 28 0.13
29 83 0.38
30 74 0.34
31 21 0.10
32 5 0.02
33 2 0.01
ACGTcount: A:0.36, C:0.05, G:0.30, T:0.30
Consensus pattern (30 bp):
AAAAATGGTAATTTTGGTGAAATCGGGGTT
Found at i:51789563 original size:58 final size:58
Alignment explanation
Indices: 51789206--51789541 Score: 460
Period size: 59 Copynumber: 5.7 Consensus size: 58
51789196 CCCGGAGGCA
** * *
51789206 AAAATGGTAATTTTGGTGTCATCGAGGTAAAAAATGGAATTTTAAAAGATTCGAGGGGT
1 AAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCG-GGGGT
51789265 AAAATGGTAATTTTCGGTGAAATCGGGGTT-AAAATGGAATTTTAAAAGATTCGGGGGT
1 AAAATGGTAATTTT-GGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
* * *
51789323 AAAATGGGAAATTTTGGTGAAGTCGGGGTTAAAAATGGAATTTTAAAAGATTCAGGGGT
1 AAAAT-GGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
* * * * * *
51789382 AAAATGGTAATTTTCGGTGAAGTCGAGGTT-CAAACGGAATTTTAGAAGATTTGGGGGGT
1 AAAATGGTAATTTT-GGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGA-TTCGGGGGT
*
51789441 AAAATGGTAATTTTTGGTGAAACCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
1 AAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
* *
51789500 AAAATGGTAATTTTGGTGAAATAGGGGTTAAAAATGGGATTT
1 AAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTT
51789542 AGGGAAGTTT
Statistics
Matches: 246, Mismatches: 24, Indels: 15
0.86 0.08 0.05
Matches are distributed among these distances:
58 77 0.31
59 138 0.56
60 31 0.13
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.31
Consensus pattern (58 bp):
AAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGT
Found at i:51789660 original size:89 final size:89
Alignment explanation
Indices: 51789546--51789801 Score: 356
Period size: 89 Copynumber: 2.9 Consensus size: 89
51789536 GGATTTAGGG
* * * * *
51789546 AAGTTTGGGGGT-AAAATGATGATTTTTG-AAAGTTTTGGGGTCAAAATGTGATTTTGGGAAAGT
1 AAGTTTCGGGGTCAAAATG-TAATTTTAGAAAAGTTTTGGGGTCAAAATGTAATTTTGGAAAAGT
51789609 TTTAGGGTCAAAATGTAATTT-TGGAA
65 TTTAGGGTCAAAATGTAATTTAT--AA
* *
51789635 AAGTTTCGGGGTCAAAATGTAATTTTGGAAAAGTTTTGGGGTTAAAATGTAATTTTGGAAAAGTT
1 AAGTTTCGGGGTCAAAATGTAATTTTAGAAAAGTTTTGGGGTCAAAATGTAATTTTGGAAAAGTT
51789700 TTAGGGTCAAAATGTAATTTATAA
66 TTAGGGTCAAAATGTAATTTATAA
* * *
51789724 AAGTTTTGGGGTCAAAATGTAATTTTAGAAAAGTTTTAGGGTCAAAATATAATTTTGGAAAAGTT
1 AAGTTTCGGGGTCAAAATGTAATTTTAGAAAAGTTTTGGGGTCAAAATGTAATTTTGGAAAAGTT
* *
51789789 CTGGGGTCAAAAT
66 TTAGGGTCAAAAT
51789802 ATGATTTTTG
Statistics
Matches: 151, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
89 91 0.60
90 59 0.39
91 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.36
Consensus pattern (89 bp):
AAGTTTCGGGGTCAAAATGTAATTTTAGAAAAGTTTTGGGGTCAAAATGTAATTTTGGAAAAGTT
TTAGGGTCAAAATGTAATTTATAA
Found at i:51789809 original size:30 final size:30
Alignment explanation
Indices: 51789546--51789801 Score: 349
Period size: 30 Copynumber: 8.6 Consensus size: 30
51789536 GGATTTAGGG
* * *
51789546 AAGTTTGGGGGT-AAAATGATGATTTTTG-A
1 AAGTTTTGGGGTCAAAATG-TAATTTTGGAA
* *
51789575 AAGTTTTGGGGTCAAAATGTGATTTTGGGA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
51789605 AAGTTTTAGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
51789635 AAGTTTCGGGGTCAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
51789665 AAGTTTTGGGGTTAAAATGTAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
51789695 AAGTTTTAGGGTCAAAATGTAATTTAT--AA
1 AAGTTTTGGGGTCAAAATGTAATTT-TGGAA
*
51789724 AAGTTTTGGGGTCAAAATGTAATTTTAGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
* *
51789754 AAGTTTTAGGGTCAAAATATAATTTTGGAA
1 AAGTTTTGGGGTCAAAATGTAATTTTGGAA
*
51789784 AAGTTCTGGGGTCAAAAT
1 AAGTTTTGGGGTCAAAAT
51789802 ATGATTTTTG
Statistics
Matches: 205, Mismatches: 17, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
28 1 0.00
29 45 0.22
30 158 0.77
31 1 0.00
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.36
Consensus pattern (30 bp):
AAGTTTTGGGGTCAAAATGTAATTTTGGAA
Found at i:51790643 original size:20 final size:18
Alignment explanation
Indices: 51790614--51790656 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
51790604 AAAGCTTCTC
51790614 TTTTTATTCTTAT-TATTAT
1 TTTTTATTCTT-TCTATT-T
51790633 TTTTTATTTCTTTCTATTT
1 TTTTTA-TTCTTTCTATTT
51790652 TTTTT
1 TTTTT
51790657 TGTTTGGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTATTCTTTCTATTT
Found at i:51791596 original size:30 final size:31
Alignment explanation
Indices: 51791561--51791631 Score: 126
Period size: 30 Copynumber: 2.3 Consensus size: 31
51791551 CCCAATTGGG
51791561 CTTTTTGTAATCGGGCCTTTAATTTGGGCC-
1 CTTTTTGTAATCGGGCCTTTAATTTGGGCCT
51791591 CTTTTTGTAATCGGGCCTTTAATTTGGGCCT
1 CTTTTTGTAATCGGGCCTTTAATTTGGGCCT
*
51791622 TTTTTTGTAA
1 CTTTTTGTAA
51791632 ATGGACATTG
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
30 30 0.77
31 9 0.23
ACGTcount: A:0.14, C:0.17, G:0.21, T:0.48
Consensus pattern (31 bp):
CTTTTTGTAATCGGGCCTTTAATTTGGGCCT
Found at i:51791697 original size:11 final size:11
Alignment explanation
Indices: 51791683--51791753 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
51791673 AAATTAGGTT
51791683 TAAATTTAAAA
1 TAAATTTAAAA
51791694 TAAATTT-AAA
1 TAAATTTAAAA
* *
51791704 T-AA-GTAAATT
1 TAAATTTAAA-A
*
51791714 TAAATTTAAGA
1 TAAATTTAAAA
51791725 TAAATTTAAAAA
1 TAAATTT-AAAA
*
51791737 TGAATTTAAAA
1 TAAATTTAAAA
*
51791748 TTAATT
1 TAAATT
51791754 CAAACATTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
8 1 0.02
9 4 0.09
10 5 0.11
11 25 0.53
12 12 0.26
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.39
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:51791719 original size:31 final size:29
Alignment explanation
Indices: 51791681--51791751 Score: 97
Period size: 31 Copynumber: 2.4 Consensus size: 29
51791671 TTAAATTAGG
51791681 TTTAAATTTAAAATAAATTTAAATAAGTAAA
1 TTTAAATTTAAAATAAATTTAAA-AA-TAAA
* *
51791712 TTTAAATTTAAGATAAATTTAAAAATGAA
1 TTTAAATTTAAAATAAATTTAAAAATAAA
*
51791741 TTTAAAATTAA
1 TTTAAATTTAA
51791752 TTCAAACATT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 13 0.35
30 2 0.05
31 22 0.59
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.39
Consensus pattern (29 bp):
TTTAAATTTAAAATAAATTTAAAAATAAA
Found at i:51792739 original size:31 final size:31
Alignment explanation
Indices: 51792704--51792778 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
51792694 AAAAATTTAA
*
51792704 AGTTGAGTGACCAAAACAAGAATGTAAGAAT
1 AGTTGAGTGACCAAAACAAGAACGTAAGAAT
* *
51792735 AGTTGAGTGACCAAAACAGGAACGTAGGAAT
1 AGTTGAGTGACCAAAACAAGAACGTAAGAAT
51792766 AGTTGAGTGACCA
1 AGTTGAGTGACCA
51792779 TTTATTTAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.43, C:0.12, G:0.27, T:0.19
Consensus pattern (31 bp):
AGTTGAGTGACCAAAACAAGAACGTAAGAAT
Found at i:51792907 original size:17 final size:18
Alignment explanation
Indices: 51792885--51792924 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
51792875 TAATTATTAT
51792885 CATATTTA-AAATAAAAC
1 CATATTTATAAATAAAAC
*
51792902 CATATTTATAGATAAAAC
1 CATATTTATAAATAAAAC
*
51792920 TATAT
1 CATAT
51792925 GTATTTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.35
Consensus pattern (18 bp):
CATATTTATAAATAAAAC
Found at i:51793605 original size:22 final size:22
Alignment explanation
Indices: 51793544--51793610 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
51793534 TTATAATTAG
*
51793544 ATTTAAATGTCAAT-TAATA-A
1 ATTTAAATGTCAATATAATATT
* *
51793564 ATATAAAT-TAAACTATTAATATT
1 ATTTAAATGTCAA-TA-TAATATT
*
51793587 ATTTAAATGTCAATATAATTTT
1 ATTTAAATGTCAATATAATATT
51793609 AT
1 AT
51793611 AGAGCTAAAC
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
19 3 0.08
20 8 0.22
22 13 0.36
23 9 0.25
24 3 0.08
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (22 bp):
ATTTAAATGTCAATATAATATT
Found at i:51795048 original size:18 final size:18
Alignment explanation
Indices: 51795025--51795059 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
51795015 TATAAATTAA
51795025 AAAGTCCAATTACAAAAG
1 AAAGTCCAATTACAAAAG
*
51795043 AAAGTCTAATTACAAAA
1 AAAGTCCAATTACAAAA
51795060 TATAGGCCCA
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:0.14, G:0.09, T:0.20
Consensus pattern (18 bp):
AAAGTCCAATTACAAAAG
Found at i:51796476 original size:21 final size:22
Alignment explanation
Indices: 51796450--51796491 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
51796440 TAAATATATA
51796450 TTAAATG-TATTAATTAATTTT
1 TTAAATGATATTAATTAATTTT
51796471 TTAAATGATATTAATTAATTT
1 TTAAATGATATTAATTAATTT
51796492 AAAGAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (22 bp):
TTAAATGATATTAATTAATTTT
Found at i:51797398 original size:29 final size:29
Alignment explanation
Indices: 51797364--51797420 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
51797354 TAAATTATAT
* *
51797364 TTTTGACCTTAAAACTTCAAAAAATTACG
1 TTTTGAACTCAAAACTTCAAAAAATTACG
* *
51797393 TTTTGAACTCGAAACTTCCAAAAATTAC
1 TTTTGAACTCAAAACTTCAAAAAATTAC
51797421 CATTTTACCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.33
Consensus pattern (29 bp):
TTTTGAACTCAAAACTTCAAAAAATTACG
Found at i:51797523 original size:58 final size:59
Alignment explanation
Indices: 51797410--51797723 Score: 411
Period size: 59 Copynumber: 5.4 Consensus size: 59
51797400 CTCGAAACTT
* *
51797410 CCAAAAATTACCATTTTACCCTTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
** *
51797469 TAAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCA-TTTTAACCCCGATTACA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * * ** *
51797527 CCCAAAATTACCATTTTA-CCCTCAAACCTTCTAAAATTCTA-TTTTAACCTTGATTTTA
1 CCAAAAATTACCATTTTACCCCT-AAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * *
51797585 TCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCTATTTTTAATCCC-ATTTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGA-TTTCA
* *
51797644 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATCCCATTTTTAATCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* *
51797703 CAAAAAATTATCATTTTACCC
1 CCAAAAATTACCATTTTACCC
51797724 TCGAATATTC
Statistics
Matches: 222, Mismatches: 28, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
57 4 0.02
58 91 0.41
59 126 0.57
60 1 0.00
ACGTcount: A:0.35, C:0.27, G:0.01, T:0.37
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:51797563 original size:117 final size:118
Alignment explanation
Indices: 51797410--51797723 Score: 440
Period size: 117 Copynumber: 2.7 Consensus size: 118
51797400 CTCGAAACTT
*
51797410 CCAAAAATTACCATTTTACCCTTAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCATAAAAA
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCATAAAAA
51797475 ATTACCATTTTACCCCTAAACTTTCCAAAATTCCA-TTTTAACCCCGA-TTACA
66 ATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCC-ATTTACA
* * * * * * *
51797527 CCCAAAATTACCATTTTACCCTCAAACCTTCTAAAATTCTA-TTTTAACCTTGATTTTATCAAAA
1 CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCATAAAAA
* * *
51797591 ATTACCATTTTACCCCTAAACTTTCCAAAATTCTATTTTTAATCCCATTTTCA
66 ATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCATTTACA
* *
51797644 CCAAAAATTACCATTTTACCC-CTAAACTTTCCAAAATCCCATTTTTAATCC-CGATTTCACAAA
1 CCAAAAATTACCATTTTACCCTC-AAACTTTCCAAAATTCCATTTTTAA-CCTCGATTTCATAAA
*
51797707 AAATTATCATTTTACCC
64 AAATTACCATTTTACCC
51797724 TCGAATATTC
Statistics
Matches: 171, Mismatches: 21, Indels: 9
0.85 0.10 0.04
Matches are distributed among these distances:
116 56 0.33
117 83 0.49
118 30 0.18
119 2 0.01
ACGTcount: A:0.35, C:0.27, G:0.01, T:0.37
Consensus pattern (118 bp):
CCAAAAATTACCATTTTACCCTCAAACTTTCCAAAATTCCATTTTTAACCTCGATTTCATAAAAA
ATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCATTTACA
Found at i:51797689 original size:29 final size:29
Alignment explanation
Indices: 51797404--51797690 Score: 89
Period size: 29 Copynumber: 9.8 Consensus size: 29
51797394 TTTGAACTCG
*
51797404 AAAC-TTCCAAAAATTACCA-TTTTACCCTT
1 AAACTTTCC-AAAA-TACCATTTTTACCCCT
* *
51797433 AAACTTTCCAAAATTCCATTTTTA-ACCT
1 AAACTTTCCAAAATACCATTTTTACCCCT
** *
51797461 CGA-TTTCATAAAAAATTACCA-TTTTACCCCT
1 AAACTTTC---CAAAA-TACCATTTTTACCCCT
* * *
51797492 AAACTTTCCAAAATTCCATTTTAACCCCG
1 AAACTTTCCAAAATACCATTTTTACCCCT
* **
51797521 ATTAC-ACCCAAAATTACCA-TTTTA-CCCT
1 A-AACTTTCCAAAA-TACCATTTTTACCCCT
* * * * * *
51797549 CAAACCTTCTAAAATTCTA-TTTTAACCTT
1 -AAACTTTCCAAAATACCATTTTTACCCCT
* ** *
51797578 GATTTTATCAAAAATTACCA-TTTTACCCCT
1 AAACTT-TCCAAAA-TACCATTTTTACCCCT
* * *
51797608 AAACTTTCCAAAATTCTATTTTTAATCCC-
1 AAACTTTCCAAAATACCATTTTT-ACCCCT
*
51797637 --ATTTTCACCAAAAATTACCA-TTTTACCCCT
1 AAACTTT--CC-AAAA-TACCATTTTTACCCCT
*
51797667 AAACTTTCCAAAATCCCATTTTTA
1 AAACTTTCCAAAATACCATTTTTA
51797691 ATCCCGATTT
Statistics
Matches: 183, Mismatches: 49, Indels: 52
0.64 0.17 0.18
Matches are distributed among these distances:
27 8 0.04
28 33 0.18
29 76 0.42
30 47 0.26
31 11 0.06
32 8 0.04
ACGTcount: A:0.35, C:0.27, G:0.01, T:0.37
Consensus pattern (29 bp):
AAACTTTCCAAAATACCATTTTTACCCCT
Found at i:51809161 original size:46 final size:46
Alignment explanation
Indices: 51809064--51809191 Score: 177
Period size: 47 Copynumber: 2.7 Consensus size: 46
51809054 TACTTTCCCT
**
51809064 AAAAAAAGATTTGAGAAGAAAACTGGCAAAGGGACGTCTCGATTCAA
1 AAAAAAAGATTTGAGAAGAAAACCCGCAAAGGG-CGTCTCGATTCAA
51809111 AAAAAAAGATTTGAGAAGAAAACCCGCAAAAGGGCGTCTCGATTCAA
1 AAAAAAAGATTTGAGAAGAAAACCCGC-AAAGGGCGTCTCGATTCAA
* * *
51809158 AAAAAAA-AGTTCACGATGAAAACCCGCAAAGGGC
1 AAAAAAAGATTTGA-GAAGAAAACCCGCAAAGGGC
51809192 ATCCTGGAAC
Statistics
Matches: 74, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
46 11 0.15
47 57 0.77
48 6 0.08
ACGTcount: A:0.48, C:0.16, G:0.22, T:0.14
Consensus pattern (46 bp):
AAAAAAAGATTTGAGAAGAAAACCCGCAAAGGGCGTCTCGATTCAA
Found at i:51810507 original size:200 final size:200
Alignment explanation
Indices: 51810005--51810989 Score: 1476
Period size: 200 Copynumber: 4.9 Consensus size: 200
51809995 TAAGTAGGTA
* * * ** * *
51810005 ATCTTTCTGATGAGATAAAGAGAAGAACACCAACTCAGTGCTCAACACGAGCAAATCTTCGAACC
1 ATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGCGAGCAAATCTTTGAACC
*
51810070 CAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGTAATAAAAAGGTTAGCTTCCTGATGAGAC
66 CAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCCTGATGAGAC
* *
51810135 ACAAAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAACAACCGAGG
131 ACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAACAAGCGAGG
*
51810200 -GATC
196 CGGTC
* * *
51810204 ATCTTCCTGATGAGATACAAAGAAGAATACCAACTGAACGCTCAACACGAGCAAAT-TTTCGAAC
1 ATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGCGAGCAAATCTTT-GAAC
* * *
51810268 CCAGCTTCCTGATGAGACACTGAGAAGCGGGTCGAAGCAATAAAAGGGTTAGCTTCCTAATGAGA
65 CCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCCTGATGAGA
* * *
51810333 TACAGAGAAGTGGACCAGATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATCAAAACAAGCGAG
130 CACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAACAAGCGAG
51810398 GCGGTC
195 GCGGTC
*
51810404 ATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGC-CTAATGCGAGCAAATCTTTGAAC
1 ATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTC-AACGCGAGCAAATCTTTGAAC
* * *
51810468 CCAGCTTCCTGATGAGACACTGAGAAGTAGGTTGAAGCAATAAAAAGGTTAGCTTCCTAATGAGA
65 CCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCCTGATGAGA
* * * * *
51810533 CAGAGAGAAGTGCACCAAATTCGTCTTCCTGAGGAGATTCAGAGAAGCGAATTGAAACAAACGAG
130 CACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAACAAGCGAG
51810598 GCGGTC
195 GCGGTC
* * * * *
51810604 ATCTTCCTAATGAGACACAGAGAAGAATACCAAATCAACGCTCAAAGCGAGCAAAT-TTTCGTAC
1 ATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGCGAGCAAATCTTT-GAAC
* *
51810668 CCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAACAATAAAATGGTTAGCTTCCTGATGAGA
65 CCAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCCTGATGAGA
* *
51810733 TACAGAGAAGTGGACCAAATTTGTCTTCCTGAGGAGATCCAGAGAAGC-AAGTTAAAACAAGCGA
130 CACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAA-TTAAAACAAGCGA
* *
51810797 GACGGTT
194 GGCGGTC
* *
51810804 ATCTTTCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGCGAGCAAATCTTCGAACC
1 ATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGCGAGCAAATCTTTGAACC
* * *
51810869 CAGCTTCCTGATGAGATACTGAGAAGCAGGTCAAAACAATAAAAAGGTTAGCTTCCTGATGAGAC
66 CAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCCTGATGAGAC
* *
51810934 ACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCTAGAGAAGCAAATTAAAA
131 ACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAA
51810990 TAGATGATTG
Statistics
Matches: 711, Mismatches: 66, Indels: 17
0.90 0.08 0.02
Matches are distributed among these distances:
198 2 0.00
199 181 0.25
200 520 0.73
201 8 0.01
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (200 bp):
ATCTTCCTGATGAGATACAGAGAAGAATACCAACTCAACGCTCAACGCGAGCAAATCTTTGAACC
CAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAAAGGTTAGCTTCCTGATGAGAC
ACAGAGAAGTGGACCAAATTCGTCTTCCTGAGGAGATCCAGAGAAGCGAATTAAAACAAGCGAGG
CGGTC
Found at i:51811486 original size:18 final size:18
Alignment explanation
Indices: 51811463--51811497 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
51811453 TATAAATTAA
51811463 AAAGTCCAATTACAAAAG
1 AAAGTCCAATTACAAAAG
51811481 AAAGTCCAATTACAAAA
1 AAAGTCCAATTACAAAA
51811498 TATAGGCCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.17, G:0.09, T:0.17
Consensus pattern (18 bp):
AAAGTCCAATTACAAAAG
Found at i:51812253 original size:21 final size:22
Alignment explanation
Indices: 51812227--51812269 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
51812217 TAAATATATA
*
51812227 TTAAATG-TATTAATTGATTTT
1 TTAAATGATATTAATTAATTTT
*
51812248 TTAAATGATATTACTTAATTTT
1 TTAAATGATATTAATTAATTTT
51812270 AAGAATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (22 bp):
TTAAATGATATTAATTAATTTT
Found at i:51813020 original size:30 final size:29
Alignment explanation
Indices: 51812997--51813094 Score: 92
Period size: 29 Copynumber: 3.3 Consensus size: 29
51812987 AAAATTGTAT
*
51812997 TTTTGACCCCAAAACTTTAAAAAATTACA
1 TTTTAACCCCAAAACTTTAAAAAATTACA
* *
51813026 TTTTAACCCCGAAACTTTTAAAAATTACCA
1 TTTTAACCCCAAAACTTTAAAAAATTA-CA
* * **
51813056 TTTT-ACCCTAAAATTTTCCAAAATT-CTA
1 TTTTAACCCCAAAACTTTAAAAAATTAC-A
51813084 TTTTTAACCCC
1 -TTTTAACCCC
51813095 GATTTCATCC
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
27 1 0.02
28 1 0.02
29 44 0.79
30 10 0.18
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.37
Consensus pattern (29 bp):
TTTTAACCCCAAAACTTTAAAAAATTACA
Found at i:51813078 original size:29 final size:29
Alignment explanation
Indices: 51813046--51813254 Score: 166
Period size: 29 Copynumber: 7.2 Consensus size: 29
51813036 GAAACTTTTA
51813046 AAAATTACCATTTTACCCTAAAATTTTCC
1 AAAATTACCATTTTACCCTAAAATTTTCC
* **
51813075 AAAATT-CTATTTTTAACCC--CGATTTCATCC
1 AAAATTACCA-TTTT-ACCCTAAAATTT--TCC
* *
51813105 AAAATTACCATTTTTCCCTAAAATTTTCT
1 AAAATTACCATTTTACCCTAAAATTTTCC
*
51813134 AAAATT-CCATTTTAACCCT-AATTTTATCC
1 AAAATTACCATTTT-ACCCTAAAATTT-TCC
51813163 AAAATTACCATTTTACCCTAAAACTTTT-C
1 AAAATTACCATTTTACCCTAAAA-TTTTCC
* * ** *
51813192 GAAATT-CCATTTTAACCT-TGATTTCACC
1 AAAATTACCATTTTACCCTAAAATTT-TCC
*
51813220 AAAATTACCATTTTACCCTTAAACTTTT-C
1 AAAATTACCATTTTACCC-TAAAATTTTCC
51813249 AAAATT
1 AAAATT
51813255 CTATTTTTAA
Statistics
Matches: 140, Mismatches: 23, Indels: 34
0.71 0.12 0.17
Matches are distributed among these distances:
26 3 0.02
27 1 0.01
28 35 0.25
29 61 0.44
30 28 0.20
31 12 0.09
ACGTcount: A:0.35, C:0.23, G:0.01, T:0.40
Consensus pattern (29 bp):
AAAATTACCATTTTACCCTAAAATTTTCC
Done.