Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 7 of 199
Found at i:2654382 original size:30 final size:29
Alignment explanation
Indices: 2654342--2654406 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
2654332 GTTAATAAAT
2654342 TATAAAAATTAGATA-AAATTAAAATTTTA
1 TATAAAAATTAGA-ACAAATTAAAATTTTA
*
2654371 TATATAAAATTATAACAAATTAAAA-TTTA
1 TATA-AAAATTAGAACAAATTAAAATTTTA
*
2654400 TGTAAAA
1 TATAAAA
2654407 CTTATATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 3 0.09
29 12 0.38
30 17 0.53
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (29 bp):
TATAAAAATTAGAACAAATTAAAATTTTA
Found at i:2657908 original size:14 final size:15
Alignment explanation
Indices: 2657889--2657918 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2657879 TTTTTCACTT
2657889 TAATAA-TATAAAAA
1 TAATAATTATAAAAA
2657903 TAATAATTATAAAAA
1 TAATAATTATAAAAA
2657918 T
1 T
2657919 GGGCTTAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
TAATAATTATAAAAA
Found at i:2662385 original size:52 final size:49
Alignment explanation
Indices: 2662300--2662666 Score: 440
Period size: 46 Copynumber: 7.6 Consensus size: 49
2662290 TTTGAGTACT
* **
2662300 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
2662346 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
2662398 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
2662444 TCTGATCAAGTGAC---AAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
2662490 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
2662542 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
2662594 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
2662640 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
2662667 GCTACACTTA
Statistics
Matches: 292, Mismatches: 15, Indels: 28
0.87 0.04 0.08
Matches are distributed among these distances:
46 155 0.53
48 1 0.00
49 2 0.01
50 1 0.00
52 133 0.46
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:2662420 original size:98 final size:97
Alignment explanation
Indices: 2662300--2662666 Score: 501
Period size: 98 Copynumber: 3.7 Consensus size: 97
2662290 TTTGAGTACT
* *
2662300 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-
*
2662365 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
2662398 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
2662458 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
2662490 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
2662555 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAGTG-AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * * *
2662594 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGT
2662659 GATAAGTG
65 GA-AAGTG
2662667 GCTACACTTA
Statistics
Matches: 240, Mismatches: 15, Indels: 27
0.85 0.05 0.10
Matches are distributed among these distances:
92 41 0.17
95 1 0.00
96 1 0.00
98 145 0.60
99 10 0.04
101 1 0.00
104 41 0.17
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (97 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:2662648 original size:196 final size:196
Alignment explanation
Indices: 2662314--2662666 Score: 607
Period size: 196 Copynumber: 1.8 Consensus size: 196
2662304 ATCAAGTGAT
* * *
2662314 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
* * * *
2662379 ATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
2662444 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
2662509 G
196 G
* *
2662510 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
*
2662575 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
2662640 TCTGATCAAGAGACAAAGTGATAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTG
2662667 GCTACACTTA
Statistics
Matches: 146, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
196 146 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (196 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
G
Found at i:2662674 original size:37 final size:37
Alignment explanation
Indices: 2662630--2662812 Score: 307
Period size: 37 Copynumber: 5.0 Consensus size: 37
2662620 GATAGCTTTA
*
2662630 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
2662667 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
2662704 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
* *
2662741 GCTACACTTATGTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
2662778 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
2662813 ATCATACGTA
Statistics
Matches: 139, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
35 11 0.08
36 4 0.03
37 124 0.89
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:2662703 original size:150 final size:149
Alignment explanation
Indices: 2662300--2662655 Score: 467
Period size: 150 Copynumber: 2.4 Consensus size: 149
2662290 TTTGAGTACT
* * * * *
2662300 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* * * *
2662365 GAAAGTGATAAGTAATAGCTTC-G---GCTATACTTATC---TGATCAAGTGATAAAGTGATAAG
66 GAAAGTGATAACT-ATAGCTTCAGCAAACTAAACTGATCAAGTGA-CAAGTGATAAAGTGATAAG
2662423 TGATAGCTTCGGCTATACTTA
129 TGATAGCTTCGGCTATACTTA
* *
2662444 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* * * * *
2662509 GAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA-AAAGTGATAAG
66 GAAAGTGATAACT-ATAGCTTCAGC-AAACTAAACTGATCAAGTGACAAGTGATAAAGTGATAAG
2662573 TGATAGCTTCGGCTATACTTA
129 TGATAGCTTCGGCTATACTTA
*
2662594 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAA
2662656 AGTGATAAGT
Statistics
Matches: 192, Mismatches: 12, Indels: 10
0.90 0.06 0.05
Matches are distributed among these distances:
144 83 0.43
145 1 0.01
149 7 0.04
150 91 0.47
151 7 0.04
152 3 0.02
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (149 bp):
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
GAAAGTGATAACTATAGCTTCAGCAAACTAAACTGATCAAGTGACAAGTGATAAAGTGATAAGTG
ATAGCTTCGGCTATACTTA
Found at i:2664128 original size:49 final size:49
Alignment explanation
Indices: 2664067--2664259 Score: 323
Period size: 49 Copynumber: 3.9 Consensus size: 49
2664057 ATGTGAACAT
2664067 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
2664117 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* *
2664166 GTGATATGTGATTTCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * * *
2664215 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCG
2664260 AGAAAACGAA
Statistics
Matches: 137, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
49 133 0.97
50 4 0.03
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (49 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:2667468 original size:52 final size:49
Alignment explanation
Indices: 2667383--2667749 Score: 440
Period size: 46 Copynumber: 7.6 Consensus size: 49
2667373 TTTGAGTACT
* **
2667383 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
2667429 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
2667481 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
2667527 TCTGATCAAGTGAC---AAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
2667573 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
2667625 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
2667677 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
2667723 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
2667750 GCTACACTTA
Statistics
Matches: 292, Mismatches: 15, Indels: 28
0.87 0.04 0.08
Matches are distributed among these distances:
46 155 0.53
48 1 0.00
49 2 0.01
50 1 0.00
52 133 0.46
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:2667503 original size:98 final size:97
Alignment explanation
Indices: 2667383--2667749 Score: 501
Period size: 98 Copynumber: 3.7 Consensus size: 97
2667373 TTTGAGTACT
* *
2667383 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-
*
2667448 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
2667481 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
2667541 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
2667573 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
2667638 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAGTG-AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * * *
2667677 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGT
2667742 GATAAGTG
65 GA-AAGTG
2667750 GCTACACTTA
Statistics
Matches: 240, Mismatches: 15, Indels: 27
0.85 0.05 0.10
Matches are distributed among these distances:
92 41 0.17
95 1 0.00
96 1 0.00
98 145 0.60
99 10 0.04
101 1 0.00
104 41 0.17
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (97 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:2667731 original size:196 final size:196
Alignment explanation
Indices: 2667397--2667749 Score: 607
Period size: 196 Copynumber: 1.8 Consensus size: 196
2667387 ATCAAGTGAT
* * *
2667397 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
* * * *
2667462 ATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
2667527 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
2667592 G
196 G
* *
2667593 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
*
2667658 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
2667723 TCTGATCAAGAGACAAAGTGATAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTG
2667750 GCTACACTTA
Statistics
Matches: 146, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
196 146 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (196 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
G
Found at i:2667757 original size:37 final size:37
Alignment explanation
Indices: 2667713--2667886 Score: 226
Period size: 37 Copynumber: 5.0 Consensus size: 37
2667703 GATAGCTTTA
2667713 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
2667750 GCTACACTTATCTGATCAAGAAACAAAGTG-TAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
2667786 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
* * *
2667823 GCTACACTTATGTGATC-A-AG-----GTGATAGGAG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
2667853 GCTACACTTATCTGATC-AG-GAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
2667887 ATCATACGTA
Statistics
Matches: 123, Mismatches: 8, Indels: 15
0.84 0.05 0.10
Matches are distributed among these distances:
30 26 0.21
34 8 0.07
35 1 0.01
36 37 0.30
37 51 0.41
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:2667791 original size:36 final size:37
Alignment explanation
Indices: 2667713--2667842 Score: 235
Period size: 37 Copynumber: 3.5 Consensus size: 37
2667703 GATAGCTTTA
*
2667713 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
2667750 GCTACACTTATCTGATCAAGAAACAAAGTG-TAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
2667786 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
2667823 GCTACACTTATGTGATCAAG
1 GCTACACTTATCTGATCAAG
2667843 GTGATAGGAG
Statistics
Matches: 90, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
36 36 0.40
37 54 0.60
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:2667856 original size:30 final size:30
Alignment explanation
Indices: 2667813--2667870 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
2667803 AAGAAACAAA
* *
2667813 GTGATAAGTGGCTACACTTATGTGATCAAG
1 GTGATAAGAGGCTACACTTATCTGATCAAG
*
2667843 GTGATAGGAGGCTACACTTATCTGATCA
1 GTGATAAGAGGCTACACTTATCTGATCA
2667871 GGACAAGTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (30 bp):
GTGATAAGAGGCTACACTTATCTGATCAAG
Found at i:2669737 original size:44 final size:46
Alignment explanation
Indices: 2669672--2669800 Score: 138
Period size: 49 Copynumber: 2.7 Consensus size: 46
2669662 ATGTACTAAT
* * *
2669672 GAACAGAGAGCACTAAAGTGCTATA-CAGAGAGCA-CAGATGTGCTA
1 GAACAGAGAGCACTAACGTGCTAAATCAGAGAGCACCA-ACGTGCTA
*
2669717 -AACAGAGAGCACTGACGTGCTAAAATCAGAGAGCACCAACGTGCTA
1 GAACAGAGAGCACTAACGTGCT-AAATCAGAGAGCACCAACGTGCTA
*
2669763 GTAGTCAGAGAGCACTAACGTGCTAATAATCAGAGAGC
1 G-A-ACAGAGAGCACTAACGTGCT-A-AATCAGAGAGC
2669801 GCGCTAAAGT
Statistics
Matches: 71, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
44 19 0.27
45 2 0.03
46 16 0.23
47 2 0.03
48 1 0.01
49 20 0.28
50 11 0.15
ACGTcount: A:0.39, C:0.20, G:0.26, T:0.16
Consensus pattern (46 bp):
GAACAGAGAGCACTAACGTGCTAAATCAGAGAGCACCAACGTGCTA
Found at i:2669776 original size:25 final size:24
Alignment explanation
Indices: 2669675--2669800 Score: 136
Period size: 22 Copynumber: 5.3 Consensus size: 24
2669665 TACTAATGAA
*
2669675 CAGAGAGCACTAAAGTGCTAT-A-
1 CAGAGAGCACTAACGTGCTATAAT
*
2669697 CAGAGAGCAC-AGATGTGCTA-AA-
1 CAGAGAGCACTA-ACGTGCTATAAT
* *
2669719 CAGAGAGCACTGACGTGCTAAAAT
1 CAGAGAGCACTAACGTGCTATAAT
* *
2669743 CAGAGAGCACCAACGTGCTAGTAGT
1 CAGAGAGCACTAACGTGCTA-TAAT
2669768 CAGAGAGCACTAACGTGCTAATAAT
1 CAGAGAGCACTAACGTGCT-ATAAT
2669793 CAGAGAGC
1 CAGAGAGC
2669801 GCGCTAAAGT
Statistics
Matches: 88, Mismatches: 9, Indels: 11
0.81 0.08 0.10
Matches are distributed among these distances:
21 1 0.01
22 35 0.40
23 2 0.02
24 18 0.20
25 31 0.35
26 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.16
Consensus pattern (24 bp):
CAGAGAGCACTAACGTGCTATAAT
Found at i:2670877 original size:8 final size:8
Alignment explanation
Indices: 2670864--2670895 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
2670854 TGTTTTATGT
2670864 ATATAATA
1 ATATAATA
2670872 ATATAATA
1 ATATAATA
*
2670880 TTATAATA
1 ATATAATA
2670888 ATATAATA
1 ATATAATA
2670896 TAACAACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
ATATAATA
Found at i:2670886 original size:16 final size:16
Alignment explanation
Indices: 2670865--2670896 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2670855 GTTTTATGTA
2670865 TATAATAATATAATAT
1 TATAATAATATAATAT
2670881 TATAATAATATAATAT
1 TATAATAATATAATAT
2670897 AACAACTTAC
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TATAATAATATAATAT
Found at i:2672526 original size:21 final size:21
Alignment explanation
Indices: 2672502--2672560 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
2672492 AGTGCTAAAT
2672502 AGAAACCCATAAGGGTTGAAC
1 AGAAACCCATAAGGGTTGAAC
* * * * *
2672523 AGAAGCTCGTAAGAGCTGAAC
1 AGAAACCCATAAGGGTTGAAC
* *
2672544 AGAAACCTATAAAGGTT
1 AGAAACCCATAAGGGTT
2672561 AAACTGAAGC
Statistics
Matches: 26, Mismatches: 12, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.42, C:0.17, G:0.24, T:0.17
Consensus pattern (21 bp):
AGAAACCCATAAGGGTTGAAC
Found at i:2672526 original size:42 final size:42
Alignment explanation
Indices: 2672479--2672583 Score: 120
Period size: 42 Copynumber: 2.5 Consensus size: 42
2672469 CGAAGGCTGC
* * * *
2672479 ACAGAAGCACATAAGTGCTAAATAGAAACCCATAAGGGTTGA
1 ACAGAAGCACATAAGAGCTAAACAGAAACCCATAAAGGTTAA
* * * *
2672521 ACAGAAGCTCGTAAGAGCTGAACAGAAACCTATAAAGGTTAA
1 ACAGAAGCACATAAGAGCTAAACAGAAACCCATAAAGGTTAA
* *
2672563 ACTGAAGCACAAAAGAGCTAA
1 ACAGAAGCACATAAGAGCTAA
2672584 GCTAAAACTT
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (42 bp):
ACAGAAGCACATAAGAGCTAAACAGAAACCCATAAAGGTTAA
Found at i:2675995 original size:12 final size:12
Alignment explanation
Indices: 2675978--2676019 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
2675968 GAACAAAGAG
*
2675978 ATAATGATAGTA
1 ATAATGATAATA
2675990 ATAATGATAATA
1 ATAATGATAATA
2676002 TATAAT-ATAATA
1 -ATAATGATAATA
2676014 ATAATG
1 ATAATG
2676020 TTTTTCTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 5 0.19
12 17 0.63
13 5 0.19
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.36
Consensus pattern (12 bp):
ATAATGATAATA
Found at i:2677123 original size:23 final size:23
Alignment explanation
Indices: 2677082--2677125 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
2677072 GGCGCCAGAT
* **
2677082 TGCTACGGCGCTGGGGCAGAAGC
1 TGCTACGACGCTGAAGCAGAAGC
2677105 TGCTACGACGCTGAAGCAGAA
1 TGCTACGACGCTGAAGCAGAA
2677126 AGGGCTAGGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.25, C:0.25, G:0.36, T:0.14
Consensus pattern (23 bp):
TGCTACGACGCTGAAGCAGAAGC
Found at i:2701986 original size:31 final size:26
Alignment explanation
Indices: 2701951--2702016 Score: 69
Period size: 26 Copynumber: 2.3 Consensus size: 26
2701941 TAAATAAATA
2701951 TATTAAAATATAATTAAATTATATATTATTT
1 TATTAAAATAT-ATTAAA-TA-ATA--ATTT
* *
2701982 TATTAAATTATATTTAATAATAATTT
1 TATTAAAATATATTAAATAATAATTT
2702008 TATTAAAAT
1 TATTAAAAT
2702017 TTAAATAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
26 12 0.38
28 3 0.09
29 2 0.06
30 5 0.16
31 10 0.31
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (26 bp):
TATTAAAATATATTAAATAATAATTT
Found at i:2702025 original size:26 final size:26
Alignment explanation
Indices: 2701964--2702025 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 26
2701954 TAAAATATAA
* *
2701964 TTAAATTATATATTATTTTATTAAAT
1 TTAAATAATATATAATTTTATTAAAT
**
2701990 TATATTTAATA-ATAATTTTATTAAAAT
1 T-TAAATAATATATAATTTTATT-AAAT
2702017 TTAAATAAT
1 TTAAATAAT
2702026 TATTTACCTA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
26 17 0.61
27 11 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
TTAAATAATATATAATTTTATTAAAT
Found at i:2702030 original size:23 final size:25
Alignment explanation
Indices: 2701975--2702030 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 25
2701965 TAAATTATAT
*
2701975 ATTATTTTATTAAATTATATTTAATA
1 ATTATTTTATTAAA-TATATTAAATA
*
2702001 ATAATTTTATTAAA-AT-TTAAATA
1 ATTATTTTATTAAATATATTAAATA
2702024 ATTATTT
1 ATTATTT
2702031 ACCTAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 12 0.44
24 2 0.07
26 13 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
ATTATTTTATTAAATATATTAAATA
Found at i:2705384 original size:23 final size:23
Alignment explanation
Indices: 2705354--2705423 Score: 88
Period size: 23 Copynumber: 3.1 Consensus size: 23
2705344 TTTCCATGCA
2705354 TGCAAGTGATAGTGGCACTACGG
1 TGCAAGTGATAGTGGCACTACGG
* * *
2705377 TGCAAGTGATAGCGGCAGTACAG
1 TGCAAGTGATAGTGGCACTACGG
* *
2705400 TGCAAGTG-TTGTGGCACTTCGG
1 TGCAAGTGATAGTGGCACTACGG
2705422 TG
1 TG
2705424 AAAAATGACA
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
22 11 0.28
23 28 0.72
ACGTcount: A:0.23, C:0.17, G:0.36, T:0.24
Consensus pattern (23 bp):
TGCAAGTGATAGTGGCACTACGG
Found at i:2706911 original size:20 final size:20
Alignment explanation
Indices: 2706886--2706927 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
2706876 GAAATAATAA
*
2706886 ATCTATATAGATCAGTAAGT
1 ATCTATATAGATCAATAAGT
2706906 ATCTATATAGATCAATAAGT
1 ATCTATATAGATCAATAAGT
2706926 AT
1 AT
2706928 AGGGACTATC
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:0.43, C:0.10, G:0.12, T:0.36
Consensus pattern (20 bp):
ATCTATATAGATCAATAAGT
Found at i:2709194 original size:30 final size:30
Alignment explanation
Indices: 2709132--2709196 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
2709122 ACTTATTTTA
* *
2709132 TTGTTAATTTTGTTATTATTTTTAAGATAT
1 TTGTTAATTTTGTTATTATTTTTAAAACAT
*
2709162 TTGTTAATTTTTTTATTA-TTTTAGAAACAT
1 TTGTTAATTTTGTTATTATTTTTA-AAACAT
2709192 TTGTT
1 TTGTT
2709197 TGTTAAGTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 5 0.16
30 26 0.84
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.63
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTTAAAACAT
Found at i:2712488 original size:5 final size:5
Alignment explanation
Indices: 2712460--2712519 Score: 79
Period size: 5 Copynumber: 12.2 Consensus size: 5
2712450 TTTTTATGTT
* *
2712460 TTATA -TATA TTATT TTAT- TATATA TTATA TTATA TTATA TTATA TTGTA
1 TTATA TTATA TTATA TTATA T-TATA TTATA TTATA TTATA TTATA TTATA
2712509 TTATA TTATA T
1 TTATA TTATA T
2712520 AAATTAAATA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
4 5 0.10
5 43 0.88
6 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (5 bp):
TTATA
Found at i:2712687 original size:20 final size:20
Alignment explanation
Indices: 2712662--2712700 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2712652 ATATTATTAT
2712662 AACAAAAAAAATAAAAGAAA
1 AACAAAAAAAATAAAAGAAA
**
2712682 AACAAATGAAATAAAAGAA
1 AACAAAAAAAATAAAAGAA
2712701 TAGAAAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.79, C:0.05, G:0.08, T:0.08
Consensus pattern (20 bp):
AACAAAAAAAATAAAAGAAA
Found at i:2717815 original size:5 final size:5
Alignment explanation
Indices: 2717805--2717835 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
2717795 AATAATGTAA
2717805 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG A
2717836 GCAACGACAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:2724653 original size:14 final size:15
Alignment explanation
Indices: 2724629--2724658 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
2724619 TCAAAAAATC
2724629 AATACATTTTTTAAA
1 AATACATTTTTTAAA
2724644 AATA-ATTTTTTAAA
1 AATACATTTTTTAAA
2724658 A
1 A
2724659 GTTATATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (15 bp):
AATACATTTTTTAAA
Found at i:2735986 original size:36 final size:35
Alignment explanation
Indices: 2735934--2736023 Score: 90
Period size: 36 Copynumber: 2.5 Consensus size: 35
2735924 TTTTGGTCCC
* * * *
2735934 ACACATGGGGAAAGGCTTACGTGAGGTCCTGCTCTT
1 ACACATGGGG-GAGGCTTACGGGAGGTCCTACTCCT
* * * *
2735970 ATATATGGGAGGAGGCTTATGGGAGGTCGTACTCCT
1 ACACATGGG-GGAGGCTTACGGGAGGTCCTACTCCT
2736006 ACACATGGGGGAGGCTTA
1 ACACATGGGGGAGGCTTA
2736024 TGAGAAGTGA
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
35 9 0.21
36 33 0.77
37 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.34, T:0.24
Consensus pattern (35 bp):
ACACATGGGGGAGGCTTACGGGAGGTCCTACTCCT
Found at i:2736253 original size:50 final size:50
Alignment explanation
Indices: 2736193--2736291 Score: 130
Period size: 50 Copynumber: 2.0 Consensus size: 50
2736183 AGGCCCTGTT
* * *
2736193 CCCAGACGCATA-AGGGGAGGGTTACGAAATA-TGGTAACGATGATCCTACA
1 CCCAAACGCATAGA-GGGAGGCTTACGAAA-AGTGGTAACAATGATCCTACA
*
2736243 CCCAAACGCATAGAGGGAGGCTTACGAAAAGTGGTAATAATGATCCTAC
1 CCCAAACGCATAGAGGGAGGCTTACGAAAAGTGGTAACAATGATCCTAC
2736292 TCCTAGATGC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
49 1 0.02
50 41 0.95
51 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.18
Consensus pattern (50 bp):
CCCAAACGCATAGAGGGAGGCTTACGAAAAGTGGTAACAATGATCCTACA
Found at i:2737631 original size:18 final size:17
Alignment explanation
Indices: 2737598--2737636 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
2737588 TTTTATAAAT
2737598 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
2737616 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
2737633 TGTG
1 TGTG
2737637 GAAGAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:2737885 original size:23 final size:23
Alignment explanation
Indices: 2737854--2737975 Score: 145
Period size: 23 Copynumber: 5.3 Consensus size: 23
2737844 AGTGTTATTG
2737854 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * * *
2737877 TTCAATGGTAGCTACAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
2737900 ATCAGTGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * * * *
2737923 TTTAGTGGTAGCTACGACTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
2737946 ATCAGTGGCAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
2737969 ATCAGTG
1 ATCAGTG
2737976 TGGCACTTAT
Statistics
Matches: 80, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 80 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:2737906 original size:46 final size:46
Alignment explanation
Indices: 2737854--2737968 Score: 169
Period size: 46 Copynumber: 2.5 Consensus size: 46
2737844 AGTGTTATTG
2737854 ATCAGTGGTAGCTTCGGCTACATTTCAATGGTAGCTAC-AGCTACAT
1 ATCAGTGGTAGCTTCGGCTACATTTCAATGGTAGCTACGA-CTACAT
* * * *
2737900 ATCAGTGGTAGCTTCAGCTACATTTTAGTGGTAGCTACGACTACGT
1 ATCAGTGGTAGCTTCGGCTACATTTCAATGGTAGCTACGACTACAT
*
2737946 ATCAGTGGCAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
2737969 ATCAGTGTGG
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
46 61 0.98
47 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.30
Consensus pattern (46 bp):
ATCAGTGGTAGCTTCGGCTACATTTCAATGGTAGCTACGACTACAT
Found at i:2761745 original size:16 final size:17
Alignment explanation
Indices: 2761706--2761756 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
2761696 AACTTAATTT
2761706 GATTTAAACCTTTG-AAAA
1 GATTTAAACC--TGAAAAA
2761724 GATTT-AACCTGAAAAA
1 GATTTAAACCTGAAAAA
* *
2761740 GGTTTAAACTTGAAAAA
1 GATTTAAACCTGAAAAA
2761757 AAAAATTCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
15 2 0.07
16 8 0.28
17 14 0.48
18 5 0.17
ACGTcount: A:0.47, C:0.10, G:0.14, T:0.29
Consensus pattern (17 bp):
GATTTAAACCTGAAAAA
Found at i:2761790 original size:15 final size:17
Alignment explanation
Indices: 2761755--2761807 Score: 67
Period size: 16 Copynumber: 3.3 Consensus size: 17
2761745 AAACTTGAAA
*
2761755 AAAAAAATTCT-AATCT
1 AAAAAAATTTTGAATCT
*
2761771 TAAAAAA-TTTGAA-CT
1 AAAAAAATTTTGAATCT
2761786 AAAAAAATTTTGAATCT
1 AAAAAAATTTTGAATCT
2761803 AAAAA
1 AAAAA
2761808 TCTTAGCTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 10 0.32
16 14 0.45
17 7 0.23
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.30
Consensus pattern (17 bp):
AAAAAAATTTTGAATCT
Found at i:2764016 original size:18 final size:17
Alignment explanation
Indices: 2763990--2764023 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2763980 AAACAATTAT
*
2763990 ATACAATTAATCTCAAA
1 ATACAATTAATATCAAA
2764007 ATACACATTAATATCAA
1 ATACA-ATTAATATCAA
2764024 TTCAATACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (17 bp):
ATACAATTAATATCAAA
Found at i:2787979 original size:16 final size:16
Alignment explanation
Indices: 2787947--2787978 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
2787937 AATATTTATA
2787947 TATTTATTAAAAATTT
1 TATTTATTAAAAATTT
2787963 TATTTATT-AAAATTT
1 TATTTATTAAAAATTT
2787978 T
1 T
2787979 TTATATAGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTTATTAAAAATTT
Found at i:2792924 original size:16 final size:16
Alignment explanation
Indices: 2792902--2792970 Score: 111
Period size: 16 Copynumber: 4.2 Consensus size: 16
2792892 TTTGGTTCGC
2792902 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
2792918 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
2792934 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
*
2792951 TGTATTGGATTAGATG
1 TGTATTGGATTAGAGG
2792967 TGTA
1 TGTA
2792971 ATAGCTAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
16 33 0.67
17 16 0.33
ACGTcount: A:0.25, C:0.01, G:0.36, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:2792948 original size:33 final size:32
Alignment explanation
Indices: 2792902--2792970 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
2792892 TTTGGTTCGC
2792902 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
* *
2792934 TGTATTGGGATTAGAGGTGTATTGGATTAGATG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
2792967 TGTA
1 TGTA
2792971 ATAGCTAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 6 0.18
33 28 0.82
ACGTcount: A:0.25, C:0.01, G:0.36, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:2793318 original size:66 final size:66
Alignment explanation
Indices: 2793246--2793444 Score: 219
Period size: 66 Copynumber: 3.2 Consensus size: 66
2793236 GAAATTCTTA
2793246 ATAATTAATATTATTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAA
1 ATAATTAATATTATTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAA
2793311 C
66 C
* * * *
2793312 ATAATTATTATTA-AATA-TAATTTAATTAAA--AT-ATATA--AT--T-T--AATA-AAATTCT
1 ATAATTAATATTATTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAA-T-T
*
2793364 TA-
64 AAC
*
2793366 ATAATTAATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAA
1 ATAATTAATATTATTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAA
2793431 C
66 C
*
2793432 ATAATTATTATTA
1 ATAATTAATATTA
2793445 AATATATTTT
Statistics
Matches: 104, Mismatches: 13, Indels: 32
0.70 0.09 0.21
Matches are distributed among these distances:
53 3 0.03
54 16 0.15
55 5 0.05
56 12 0.12
57 1 0.01
58 2 0.02
59 7 0.07
61 7 0.07
62 2 0.02
63 1 0.01
64 12 0.12
65 5 0.05
66 28 0.27
67 3 0.03
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (66 bp):
ATAATTAATATTATTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATTAA
C
Found at i:2793326 original size:120 final size:120
Alignment explanation
Indices: 2793189--2794171 Score: 1867
Period size: 120 Copynumber: 8.2 Consensus size: 120
2793179 ATCATATTTA
2793189 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
* *
2793254 TATTATTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
* *
2793309 AACATAATTATTATTAAATATAATTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
*
2793374 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
2793429 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
*
2793494 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
2793549 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
2793614 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
2793669 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
2793734 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
2793789 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
*
2793854 TGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
2793909 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
*
2793974 TGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
2794029 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
*
2794094 TGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
*
2794149 AACATAATTATCATTAAATATAT
1 AACATAATTATTATTAAATATAT
2794172 AACTTGAAAA
Statistics
Matches: 853, Mismatches: 10, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 853 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATGAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:2793367 original size:17 final size:18
Alignment explanation
Indices: 2793326--2793360 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2793316 TTATTATTAA
2793326 ATATAATTTAATTAAAAT
1 ATATAATTTAATTAAAAT
2793344 ATATAATTTAA-TAAAAT
1 ATATAATTTAATTAAAAT
2793361 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATAATTTAATTAAAAT
Found at i:2793587 original size:18 final size:17
Alignment explanation
Indices: 2793566--2793600 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2793556 TTATTATTAA
*
2793566 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
2793584 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
2793601 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:2798517 original size:26 final size:26
Alignment explanation
Indices: 2798487--2798537 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
2798477 CCGTAAAATA
2798487 CTGCAGCTAATACCAATGACAAAAAC
1 CTGCAGCTAATACCAATGACAAAAAC
*
2798513 CTGCAGCTAATATCAATGACAAAAA
1 CTGCAGCTAATACCAATGACAAAAA
2798538 TAAATGCCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.47, C:0.24, G:0.12, T:0.18
Consensus pattern (26 bp):
CTGCAGCTAATACCAATGACAAAAAC
Found at i:2801282 original size:19 final size:18
Alignment explanation
Indices: 2801260--2801300 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
2801250 AATTACAAAA
*
2801260 AAAAATCAAAATAATTTTT
1 AAAAATCAAAAT-ATTTAT
*
2801279 AAAATTCAAAATATTTAT
1 AAAAATCAAAATATTTAT
2801297 AAAA
1 AAAA
2801301 TTTTTAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAAATCAAAATATTTAT
Found at i:2801294 original size:18 final size:19
Alignment explanation
Indices: 2801260--2801302 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
2801250 AATTACAAAA
* *
2801260 AAAAATCAAAATAATTTTT
1 AAAATTCAAAATAATTTAT
2801279 AAAATTCAAAAT-ATTTAT
1 AAAATTCAAAATAATTTAT
2801297 AAAATT
1 AAAATT
2801303 TTTAAACAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATTCAAAATAATTTAT
Found at i:2808203 original size:9 final size:10
Alignment explanation
Indices: 2808182--2808206 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
2808172 TTACTAATTT
2808182 AAAATTTTAA
1 AAAATTTTAA
2808192 AAAATTTTAA
1 AAAATTTTAA
2808202 AAAAT
1 AAAAT
2808207 CTAAATGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
AAAATTTTAA
Found at i:2809367 original size:14 final size:14
Alignment explanation
Indices: 2809330--2809371 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
2809320 AAATTTATTA
*
2809330 AAATATAAAACAAAG
1 AAATATAAAA-ATAG
2809345 AAA-AT-AAAATAG
1 AAATATAAAAATAG
2809357 AAATATAAAAATAG
1 AAATATAAAAATAG
2809371 A
1 A
2809372 TTTATTTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
12 6 0.25
13 5 0.21
14 10 0.42
15 3 0.12
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (14 bp):
AAATATAAAAATAG
Found at i:2820436 original size:6 final size:6
Alignment explanation
Indices: 2820427--2820457 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
2820417 TTTATTTTAT
*
2820427 TTAATA TTAATA TTAATA GTAATA TTAATA T
1 TTAATA TTAATA TTAATA TTAATA TTAATA T
2820458 AAATTTTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (6 bp):
TTAATA
Found at i:2821296 original size:20 final size:19
Alignment explanation
Indices: 2821272--2821316 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
2821262 TAAATTTTAT
2821272 TAAAAAT-TAGAAAAAAATA
1 TAAAAATCTA-AAAAAAATA
*
2821291 TAAAAATCGTAAAAGAAATA
1 TAAAAATC-TAAAAAAAATA
2821311 TAAAAA
1 TAAAAA
2821317 ATAGTGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 7 0.30
20 14 0.61
21 2 0.09
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.20
Consensus pattern (19 bp):
TAAAAATCTAAAAAAAATA
Found at i:2821346 original size:60 final size:59
Alignment explanation
Indices: 2821240--2821356 Score: 164
Period size: 60 Copynumber: 2.0 Consensus size: 59
2821230 GTGACATGTG
* * *
2821240 GTAAAAAATTATAAAAAATATTTAAATTTTATTAAAAATTAGAAAAAAATATAAAAATC
1 GTAAAAAAATATAAAAAATAGTGAAATTTTATTAAAAATTAGAAAAAAATATAAAAATC
* *
2821299 GTAAAAGAAATATAAAAAATAGTGAAATTTTA-TAAAAATCATAAAAAATATATAAAAA
1 GTAAAA-AAATATAAAAAATAGTGAAATTTTATTAAAAATTAGAAAAAA-ATATAAAAA
2821357 GGCATCAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
59 20 0.39
60 31 0.61
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (59 bp):
GTAAAAAAATATAAAAAATAGTGAAATTTTATTAAAAATTAGAAAAAAATATAAAAATC
Found at i:2821352 original size:20 final size:19
Alignment explanation
Indices: 2821272--2821356 Score: 64
Period size: 19 Copynumber: 4.3 Consensus size: 19
2821262 TAAATTTTAT
* *
2821272 TAAAAATTAGAAAAAAATA
1 TAAAAATCATAAAAAAATA
*
2821291 TAAAAATCGTAAAAGAAATA
1 TAAAAATCATAAAA-AAATA
* ***
2821311 TAAAAAAT-AGTGAAATTTTA
1 T-AAAAATCA-TAAAAAAATA
2821331 TAAAAATCATAAAAAATATA
1 TAAAAATCATAAAAAA-ATA
2821351 TAAAAA
1 TAAAAA
2821357 GGCATCAAAA
Statistics
Matches: 49, Mismatches: 12, Indels: 9
0.70 0.17 0.13
Matches are distributed among these distances:
19 21 0.43
20 18 0.37
21 10 0.20
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (19 bp):
TAAAAATCATAAAAAAATA
Found at i:2821710 original size:19 final size:18
Alignment explanation
Indices: 2821663--2821715 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
2821653 TTATTTCTAT
*
2821663 TTTTTAAAATAATTTAATA
1 TTTTTATAA-AATTTAATA
2821682 -TTTTATTAAAATTTAATAA
1 TTTTTA-TAAAATTTAAT-A
*
2821701 TTTTTATAAATTTTA
1 TTTTTATAAAATTTA
2821716 TTGGTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
18 13 0.45
19 11 0.38
20 5 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTTATAAAATTTAATA
Found at i:2821711 original size:18 final size:18
Alignment explanation
Indices: 2821673--2821713 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
2821663 TTTTTAAAAT
*
2821673 AATTTAATATTTTATTAA
1 AATTTAATAATTTATTAA
2821691 AATTTAATAATTT-TTATA
1 AATTTAATAATTTATTA-A
2821709 AATTT
1 AATTT
2821714 TATTGGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AATTTAATAATTTATTAA
Found at i:2824678 original size:26 final size:26
Alignment explanation
Indices: 2824618--2824678 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 26
2824608 AAAGAAAATT
*
2824618 TAAAATATTATTTTATTTTACTTTGAA
1 TAAAATATTATTTTATTTTAC-TTCAA
*
2824645 -AAAGTATTATTTTATTTTTA-TTCAA
1 TAAAATATTATTTTA-TTTTACTTCAA
*
2824670 TAAATTATT
1 TAAAATATT
2824679 CTTATCAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 4 0.14
26 20 0.69
27 5 0.17
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (26 bp):
TAAAATATTATTTTATTTTACTTCAA
Found at i:2833790 original size:15 final size:15
Alignment explanation
Indices: 2833754--2833793 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
2833744 TTTTCCATAT
*
2833754 TTAA-TTTTCAACAC
1 TTAATTTTTCAGCAC
2833768 TT-ATTTTTCAGCAC
1 TTAATTTTTCAGCAC
2833782 TTAATTTTTCAG
1 TTAATTTTTCAG
2833794 TTTATCAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 1 0.04
14 13 0.57
15 9 0.39
ACGTcount: A:0.28, C:0.17, G:0.05, T:0.50
Consensus pattern (15 bp):
TTAATTTTTCAGCAC
Found at i:2838066 original size:33 final size:33
Alignment explanation
Indices: 2838024--2838090 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
2838014 AACCCAAAAA
2838024 GTCCTTGAATGAAATAACTAAAGAACTTTGCCC
1 GTCCTTGAATGAAATAACTAAAGAACTTTGCCC
2838057 GTCCTTGAATGAAATAACTAAAGAACTTTGCCC
1 GTCCTTGAATGAAATAACTAAAGAACTTTGCCC
2838090 G
1 G
2838091 GTAAATGACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (33 bp):
GTCCTTGAATGAAATAACTAAAGAACTTTGCCC
Found at i:2850157 original size:5 final size:5
Alignment explanation
Indices: 2850147--2850171 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
2850137 GAAAAACAAC
2850147 TATGA TATGA TATGA TATGA TATGA
1 TATGA TATGA TATGA TATGA TATGA
2850172 ATTACTGATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
TATGA
Found at i:2858099 original size:19 final size:21
Alignment explanation
Indices: 2858075--2858114 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
2858065 TAAAATTGCT
2858075 AAAATAT-AAAAATT-TATGA
1 AAAATATGAAAAATTATATGA
*
2858094 AAAATATGTAAAATTATATGA
1 AAAATATGAAAAATTATATGA
2858115 CGTGTATAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 6 0.33
21 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (21 bp):
AAAATATGAAAAATTATATGA
Found at i:2864758 original size:15 final size:16
Alignment explanation
Indices: 2864730--2864762 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
2864720 TTAGTATTTT
2864730 TAAATTATATTTAAAA
1 TAAATTATATTTAAAA
2864746 TAAATTA-ATTTAAAA
1 TAAATTATATTTAAAA
2864761 TA
1 TA
2864763 CACGAGAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TAAATTATATTTAAAA
Found at i:2866301 original size:11 final size:10
Alignment explanation
Indices: 2866264--2866299 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
2866254 CGTTTTTATT
2866264 TTTTAAAATA
1 TTTTAAAATA
2866274 TTTTAAAATA
1 TTTTAAAATA
*
2866284 TTTTATAATA
1 TTTTAAAATA
2866294 TCTTTA
1 T-TTTA
2866300 TAGGCAGGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 20 0.83
11 4 0.17
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTTAAAATA
Found at i:2868857 original size:21 final size:21
Alignment explanation
Indices: 2868817--2868865 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
2868807 ATAGTAAGAA
*
2868817 TAAAAATGTTTCCTAAAATTT
1 TAAAAATGTTTCCTAAAATTG
** *
2868838 TAAAAATGTTTGGTATAATTG
1 TAAAAATGTTTCCTAAAATTG
2868859 TAAAAAT
1 TAAAAAT
2868866 AATAATTCCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.45, C:0.04, G:0.10, T:0.41
Consensus pattern (21 bp):
TAAAAATGTTTCCTAAAATTG
Found at i:2872819 original size:11 final size:11
Alignment explanation
Indices: 2872805--2872832 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
2872795 TAAAAAAATG
2872805 TTATTAAATTA
1 TTATTAAATTA
2872816 TTATTAAATTA
1 TTATTAAATTA
2872827 TTATTA
1 TTATTA
2872833 TATTTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
TTATTAAATTA
Found at i:2884266 original size:2 final size:2
Alignment explanation
Indices: 2884259--2884283 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2884249 CCACCTCCTT
2884259 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
2884284 TCACTCTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:2905076 original size:42 final size:42
Alignment explanation
Indices: 2905009--2905136 Score: 204
Period size: 42 Copynumber: 3.0 Consensus size: 42
2904999 TGCCTGAACC
* * *
2905009 ATGAAGGGTGGGT-AAAAGCTAAGAAGCTGCCAAAATGGCCAA
1 ATGAAGGGTGGGTGGAAA-CTTAGAAGCTCCCAAAATGGCCAA
2905051 ATGAAGGGTGGGTGGAAACTTAGAAGCTCCCAAAATGGCCAA
1 ATGAAGGGTGGGTGGAAACTTAGAAGCTCCCAAAATGGCCAA
*
2905093 ATGAAGGGTGGGTGGAAACTTAGAAGCTCCCGAAATGGCCAA
1 ATGAAGGGTGGGTGGAAACTTAGAAGCTCCCAAAATGGCCAA
2905135 AT
1 AT
2905137 AAACCAGAGA
Statistics
Matches: 81, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
42 78 0.96
43 3 0.04
ACGTcount: A:0.37, C:0.16, G:0.31, T:0.16
Consensus pattern (42 bp):
ATGAAGGGTGGGTGGAAACTTAGAAGCTCCCAAAATGGCCAA
Found at i:2907630 original size:16 final size:16
Alignment explanation
Indices: 2907609--2907640 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2907599 GTATCCCAAT
2907609 AACTATAAATGAATGG
1 AACTATAAATGAATGG
2907625 AACTATAAATGAATGG
1 AACTATAAATGAATGG
2907641 GTGTAATTAA
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:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (16 bp):
AACTATAAATGAATGG
Found at i:2935949 original size:31 final size:31
Alignment explanation
Indices: 2935911--2935969 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
2935901 GGTGCTTTGG
*
2935911 TTCACGTTTGAAATTATAAATATGATGTAAT
1 TTCACGTTTCAAATTATAAATATGATGTAAT
*
2935942 TTCACGTTTCAAATTATAAATATTATGT
1 TTCACGTTTCAAATTATAAATATGATGT
2935970 TCGGATTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.44
Consensus pattern (31 bp):
TTCACGTTTCAAATTATAAATATGATGTAAT
Found at i:2936322 original size:19 final size:18
Alignment explanation
Indices: 2936283--2936331 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
2936273 TTTAAAATTA
2936283 TAATTTATAAATATATTT
1 TAATTTATAAATATATTT
*
2936301 TAATGTTATATATAT-TTAT
1 TAAT-TTATAAATATATT-T
*
2936320 TAATATATAAAT
1 TAATTTATAAAT
2936332 TATAATAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
TAATTTATAAATATATTT
Found at i:2938587 original size:27 final size:27
Alignment explanation
Indices: 2938552--2938603 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
2938542 CCACTGAATC
* *
2938552 GGGGAATCATCACTTAGCAACCCCTCG
1 GGGGAATCAGCACATAGCAACCCCTCG
2938579 GGGGAATCAGCACATAGCAACCCCT
1 GGGGAATCAGCACATAGCAACCCCT
2938604 TTTCATTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.29, C:0.33, G:0.23, T:0.15
Consensus pattern (27 bp):
GGGGAATCAGCACATAGCAACCCCTCG
Found at i:2938677 original size:69 final size:71
Alignment explanation
Indices: 2938562--2938711 Score: 232
Period size: 71 Copynumber: 2.1 Consensus size: 71
2938552 GGGGAATCAT
* *
2938562 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAA-CCCCTTTTCATTTCAAATATACAATGG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGG
2938626 ATATCG
66 ATATCG
***
2938632 CACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATACAATG
2938696 GATATCG
65 GATATCG
2938703 CACTTAGCA
1 CACTTAGCA
2938712 CCACCAATGA
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
69 20 0.27
70 23 0.32
71 30 0.41
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (71 bp):
CACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTACATTTCAAAGATACAATGG
ATATCG
Found at i:2938815 original size:104 final size:103
Alignment explanation
Indices: 2938631--2938853 Score: 367
Period size: 104 Copynumber: 2.2 Consensus size: 103
2938621 AATGGATATC
2938631 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
1 GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
* *
2938696 GATATCGCACTTAGCACCACCAATGAACCGGGGAATCA
66 GATATCGCACATAGCACCACCAATAAACCGGGGAATCA
2938734 GCACTTAGCAACCCCTCGGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
1 GCACTTAGCAACCCCTC-GGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGT
* *
2938799 GGATCA-CGCACATAGCACCACCCATAAATCGGGGAATCA
65 GGAT-ATCGCACATAGCACCACCAATAAACCGGGGAATCA
**
2938838 GCACACAGCAACCCCT
1 GCACTTAGCAACCCCT
2938854 TTTATATACA
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 17 0.15
104 94 0.84
105 1 0.01
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (103 bp):
GCACTTAGCAACCCCTCGGGGAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATATGGTG
GATATCGCACATAGCACCACCAATAAACCGGGGAATCA
Found at i:2939214 original size:29 final size:29
Alignment explanation
Indices: 2939181--2939244 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
2939171 TAATCCACCA
2939181 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
2939210 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
2939240 CCCAA
1 CCCAA
2939245 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:2939218 original size:30 final size:30
Alignment explanation
Indices: 2939188--2939244 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
2939178 CCACCCAACT
2939188 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
2939217 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
2939245 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:2941215 original size:25 final size:25
Alignment explanation
Indices: 2941175--2941265 Score: 146
Period size: 25 Copynumber: 3.6 Consensus size: 25
2941165 TTATTATGCA
*
2941175 CTAATAAACAGAGAGCACTGACGTG
1 CTAATAATCAGAGAGCACTGACGTG
* *
2941200 CTAGTAATCAGAGAGCACTAACGTG
1 CTAATAATCAGAGAGCACTGACGTG
*
2941225 CTAATAATCAGAGAGCACTGATGTG
1 CTAATAATCAGAGAGCACTGACGTG
2941250 CTAATAATCAGAGAGC
1 CTAATAATCAGAGAGC
2941266 GCACTAAGGT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 60 1.00
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.20
Consensus pattern (25 bp):
CTAATAATCAGAGAGCACTGACGTG
Found at i:2942508 original size:13 final size:13
Alignment explanation
Indices: 2942490--2942515 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2942480 AACTAATTCT
2942490 ATAAATATTTTTA
1 ATAAATATTTTTA
2942503 ATAAATATTTTTA
1 ATAAATATTTTTA
2942516 CGAGTCCGTT
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATAAATATTTTTA
Found at i:2942747 original size:25 final size:25
Alignment explanation
Indices: 2942709--2942756 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
2942699 CAAGCGAACC
2942709 ATATCAGGAAGCTCACAAAGAGCCT
1 ATATCAGGAAGCTCACAAAGAGCCT
* * *
2942734 ATATCGGGACGCTCATAAAGAGC
1 ATATCAGGAAGCTCACAAAGAGC
2942757 TGCGGTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (25 bp):
ATATCAGGAAGCTCACAAAGAGCCT
Found at i:2943254 original size:21 final size:21
Alignment explanation
Indices: 2943230--2943273 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
2943220 AGTAAATTTA
* *
2943230 ATTCATTTTAATACAATTCAC
1 ATTCAATTCAATACAATTCAC
* *
2943251 ATTCAATTCCATCCAATTCAC
1 ATTCAATTCAATACAATTCAC
2943272 AT
1 AT
2943274 CCTAGGAAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (21 bp):
ATTCAATTCAATACAATTCAC
Found at i:2943259 original size:11 final size:11
Alignment explanation
Indices: 2943243--2943275 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
2943233 CATTTTAATA
*
2943243 CAATTCACATT
1 CAATTCACATC
2943254 CAATTC-CATC
1 CAATTCACATC
2943264 CAATTCACATC
1 CAATTCACATC
2943275 C
1 C
2943276 TAGGAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.33, C:0.36, G:0.00, T:0.30
Consensus pattern (11 bp):
CAATTCACATC
Found at i:2945572 original size:17 final size:18
Alignment explanation
Indices: 2945550--2945583 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2945540 TAATTGTGAA
2945550 TTAAAT-TATAATTATTT
1 TTAAATGTATAATTATTT
*
2945567 TTAAATGTATAGTTATT
1 TTAAATGTATAATTATT
2945584 ACAATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (18 bp):
TTAAATGTATAATTATTT
Found at i:2945602 original size:25 final size:27
Alignment explanation
Indices: 2945554--2945608 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 27
2945544 TGTGAATTAA
* * *
2945554 ATTATAATTATTTTTAAATGTATAGTT
1 ATTACAATTATTTTTAAATCTATAATT
2945581 ATTACAATT-TTTTTAAA-CTATAATT
1 ATTACAATTATTTTTAAATCTATAATT
2945606 ATT
1 ATT
2945609 TAAAAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 9 0.36
26 8 0.32
27 8 0.32
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (27 bp):
ATTACAATTATTTTTAAATCTATAATT
Found at i:2946249 original size:22 final size:22
Alignment explanation
Indices: 2946219--2946261 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
2946209 TAAAATGCTT
2946219 AAATAATAATT-TAATATAATTA
1 AAATAATAATTATAAT-TAATTA
*
2946241 AAATCATAATTATAATTAATT
1 AAATAATAATTATAATTAATT
2946262 CTTTAAATCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
AAATAATAATTATAATTAATTA
Found at i:2950289 original size:50 final size:51
Alignment explanation
Indices: 2950213--2950315 Score: 199
Period size: 50 Copynumber: 2.0 Consensus size: 51
2950203 AGATCTCTAG
2950213 ATTGTTTTTTTTTTGCTTGAGAGGATGCATTTGAGGTGTGTTAGTTTATCA
1 ATTGTTTTTTTTTTGCTTGAGAGGATGCATTTGAGGTGTGTTAGTTTATCA
2950264 ATTG-TTTTTTTTTGCTTGAGAGGATGCATTTGAGGTGTGTTAGTTTATCA
1 ATTGTTTTTTTTTTGCTTGAGAGGATGCATTTGAGGTGTGTTAGTTTATCA
2950314 AT
1 AT
2950316 GAGCCAAATG
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 48 0.92
51 4 0.08
ACGTcount: A:0.18, C:0.06, G:0.25, T:0.50
Consensus pattern (51 bp):
ATTGTTTTTTTTTTGCTTGAGAGGATGCATTTGAGGTGTGTTAGTTTATCA
Found at i:2952896 original size:35 final size:33
Alignment explanation
Indices: 2952830--2952896 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
2952820 TAACTTTTCC
* *
2952830 ATATATTCTTTAGAATTTTATAATTTTTTAAAA
1 ATATATTCTTTAGAATTTTATAATATCTTAAAA
2952863 ATATATAT-TTTAGAATTTCTATAAATATCTTAAA
1 ATATAT-TCTTTAGAATTT-TAT-AATATCTTAAA
2952897 TTTTACAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 16 0.55
34 4 0.14
35 9 0.31
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (33 bp):
ATATATTCTTTAGAATTTTATAATATCTTAAAA
Found at i:2969233 original size:18 final size:17
Alignment explanation
Indices: 2969200--2969238 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
2969190 TTGTATAAAT
2969200 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
2969218 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
2969235 TGTG
1 TGTG
2969239 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:2969356 original size:8 final size:8
Alignment explanation
Indices: 2969343--2969371 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
2969333 CACTAGAGAC
2969343 CAGTGTTA
1 CAGTGTTA
2969351 CAGTGTTA
1 CAGTGTTA
2969359 CAGTGTTA
1 CAGTGTTA
2969367 CAGTG
1 CAGTG
2969372 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:2969485 original size:23 final size:23
Alignment explanation
Indices: 2969458--2969535 Score: 129
Period size: 23 Copynumber: 3.3 Consensus size: 23
2969448 AGTGTTATTG
2969458 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
2969481 TTCAGTGGTAGCTTCGGCTATAT
1 ATCAGTGGTAGCTTCGGCTACAT
2969504 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
2969527 ATCATGTGG
1 ATCA-GTGG
2969536 CACTTATGTG
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
23 46 0.92
24 4 0.08
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:2971753 original size:55 final size:55
Alignment explanation
Indices: 2971688--2971809 Score: 235
Period size: 55 Copynumber: 2.2 Consensus size: 55
2971678 ATTGTCATTG
2971688 CAGGGGATTTAGTCTGGACTAGTAATCCCGACAATACTCTATGAGTTTATAATTA
1 CAGGGGATTTAGTCTGGACTAGTAATCCCGACAATACTCTATGAGTTTATAATTA
*
2971743 CAGGGGATTTAGTCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATAATTA
1 CAGGGGATTTAGTCTGGACTAGTAATCCCGACAATACTCTATGAGTTTATAATTA
2971798 CAGGGGATTTAG
1 CAGGGGATTTAG
2971810 CCTAGACAGG
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
55 66 1.00
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.32
Consensus pattern (55 bp):
CAGGGGATTTAGTCTGGACTAGTAATCCCGACAATACTCTATGAGTTTATAATTA
Found at i:2971822 original size:55 final size:55
Alignment explanation
Indices: 2971688--2971824 Score: 231
Period size: 55 Copynumber: 2.5 Consensus size: 55
2971678 ATTGTCATTG
2971688 CAGGGGATTTAGTCTGGACTA-GTAATCCCGACAATACTCTATGAGTTTATAATTA
1 CAGGGGATTTAGTCTGGAC-AGGTAATCCCGACAATACTCTATGAGTTTATAATTA
*
2971743 CAGGGGATTTAGTCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATAATTA
1 CAGGGGATTTAGTCTGGACAGGTAATCCCGACAATACTCTATGAGTTTATAATTA
* *
2971798 CAGGGGATTTAGCCTAGACAGGTAATC
1 CAGGGGATTTAGTCTGGACAGGTAATC
2971825 TCGCTGTAAG
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
55 77 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (55 bp):
CAGGGGATTTAGTCTGGACAGGTAATCCCGACAATACTCTATGAGTTTATAATTA
Found at i:2974005 original size:33 final size:33
Alignment explanation
Indices: 2973923--2973998 Score: 143
Period size: 33 Copynumber: 2.3 Consensus size: 33
2973913 TGGAAAAGCT
*
2973923 AATATTTTCTGGTGTTTGGATGAATCTGTGTAA
1 AATATTTTCTGGTGTTTGAATGAATCTGTGTAA
2973956 AATATTTTCTGGTGTTTGAATGAATCTGTGTAA
1 AATATTTTCTGGTGTTTGAATGAATCTGTGTAA
2973989 AATATTTTCT
1 AATATTTTCT
2973999 TTTGTTTTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.26, C:0.07, G:0.20, T:0.47
Consensus pattern (33 bp):
AATATTTTCTGGTGTTTGAATGAATCTGTGTAA
Found at i:2977015 original size:6 final size:6
Alignment explanation
Indices: 2977006--2977030 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
2976996 GGTTGAAATT
2977006 GATGCA GATGCA GATGCA GATGCA G
1 GATGCA GATGCA GATGCA GATGCA G
2977031 TCCTGAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.36, T:0.16
Consensus pattern (6 bp):
GATGCA
Found at i:2977694 original size:18 final size:17
Alignment explanation
Indices: 2977666--2977700 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2977656 ATTATTAAGA
*
2977666 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
2977683 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
2977701 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:2977949 original size:45 final size:44
Alignment explanation
Indices: 2977860--2977954 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
2977850 TTACACCTCT
*
2977860 ATTACATTCAACCAAACACAGGATTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
*** *
2977904 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACACAGGA-TTACTATTACACCTCTATTCC
2977949 ATTACA
1 ATTACA
2977955 CCTCTATTCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 20 0.44
45 25 0.56
ACGTcount: A:0.34, C:0.27, G:0.06, T:0.33
Consensus pattern (44 bp):
ATTACATTCAACCAAACACAGGATTACTATTACACCTCTATTCC
Found at i:2977954 original size:16 final size:16
Alignment explanation
Indices: 2977933--2977986 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
2977923 TTGATTTGCT
2977933 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
2977949 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
2977965 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
*
2977981 AATACA
1 ATTACA
2977987 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:2979944 original size:18 final size:18
Alignment explanation
Indices: 2979921--2979956 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
2979911 ATTAAGAAAT
2979921 TTAATTACTATAA-TAAAA
1 TTAATTA-TATAATTAAAA
2979939 TTAATTATATAATTAAAA
1 TTAATTATATAATTAAAA
2979957 GTCGATTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
TTAATTATATAATTAAAA
Found at i:2985268 original size:18 final size:18
Alignment explanation
Indices: 2985244--2985280 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
2985234 ACTCTAACCT
*
2985244 TTTTTTTTTTTTTTGTAAA
1 TTTTTTTCTTTTTT-TAAA
2985263 TTTTTTTCTTTTTTTAAA
1 TTTTTTTCTTTTTTTAAA
2985281 AAATTCCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (18 bp):
TTTTTTTCTTTTTTTAAA
Found at i:2985284 original size:21 final size:20
Alignment explanation
Indices: 2985243--2985285 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
2985233 AACTCTAACC
***
2985243 TTTTTTTTTTTTTTTGTAAA
1 TTTTTTTTTTTTTTAAAAAA
2985263 TTTTTTTCTTTTTTTAAAAAA
1 TTTTTTT-TTTTTTTAAAAAA
2985284 TT
1 TT
2985286 CCCATTTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTTTTTTTTTTTTAAAAAA
Found at i:2987369 original size:14 final size:15
Alignment explanation
Indices: 2987350--2987381 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
2987340 CTGTGTCTTC
2987350 TTCTTTTT-TTTTTT
1 TTCTTTTTCTTTTTT
2987364 TTCTTTTTCTTTTTT
1 TTCTTTTTCTTTTTT
2987379 TTC
1 TTC
2987382 AGCAGGGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (15 bp):
TTCTTTTTCTTTTTT
Found at i:3002458 original size:18 final size:19
Alignment explanation
Indices: 3002410--3002458 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 19
3002400 AATGAAAATG
*
3002410 AATAAATTATA-TATTTTT
1 AATAATTTATATTATTTTT
*
3002428 ACTATATTT-TATTA-TTTT
1 AATA-ATTTATATTATTTTT
3002446 AATAATTTATATT
1 AATAATTTATATT
3002459 TTTATAACTT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
17 4 0.16
18 16 0.64
19 5 0.20
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
AATAATTTATATTATTTTT
Found at i:3002738 original size:6 final size:7
Alignment explanation
Indices: 3002706--3002736 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
3002696 ACATTTTCTT
3002706 AAAATTA
1 AAAATTA
3002713 AAAATTA
1 AAAATTA
3002720 AAAATTA
1 AAAATTA
3002727 AAAATTA
1 AAAATTA
3002734 AAA
1 AAA
3002737 TTTACTCCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAATTA
Found at i:3023399 original size:18 final size:19
Alignment explanation
Indices: 3023347--3023399 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 19
3023337 AAGCATAATT
3023347 ATATTTGAAATAATTAATTAAA
1 ATATTTGAAAT-A-TAA-TAAA
* *
3023369 ATATTTCACATATAA-AAA
1 ATATTTGAAATATAATAAA
3023387 ATATTTGAAATAT
1 ATATTTGAAATAT
3023400 TATACTCATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 14 0.52
20 3 0.11
21 1 0.04
22 9 0.33
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (19 bp):
ATATTTGAAATATAATAAA
Found at i:3025045 original size:21 final size:21
Alignment explanation
Indices: 3025019--3025061 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
3025009 ATTGGGTGGA
3025019 TCAGCTCTTACGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
*
3025040 TCAGCTTTTACGAGCTTCTGT
1 TCAGCTCTTACGAGCTTCTGT
3025061 T
1 T
3025062 GGTATTTTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.26, G:0.19, T:0.42
Consensus pattern (21 bp):
TCAGCTCTTACGAGCTTCTGT
Found at i:3026778 original size:16 final size:16
Alignment explanation
Indices: 3026754--3026784 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3026744 AATTCGAGTT
*
3026754 GAATTTGAAAATATCC
1 GAATATGAAAATATCC
3026770 GAATATGAAAATATC
1 GAATATGAAAATATC
3026785 ATGTTGGAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.29
Consensus pattern (16 bp):
GAATATGAAAATATCC
Found at i:3027741 original size:17 final size:17
Alignment explanation
Indices: 3027721--3027774 Score: 69
Period size: 16 Copynumber: 3.4 Consensus size: 17
3027711 TTAGCTAAGA
3027721 TTTTTTAGATTCAAAAT
1 TTTTTTAGATTCAAAAT
3027738 TTTTTTAG-TTC-AAAT
1 TTTTTTAGATTCAAAAT
* *
3027753 TTTTTAAGATT-AGAAT
1 TTTTTTAGATTCAAAAT
3027769 TTTTTT
1 TTTTTT
3027775 TTTCAAGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
15 11 0.34
16 13 0.41
17 8 0.25
ACGTcount: A:0.30, C:0.04, G:0.07, T:0.59
Consensus pattern (17 bp):
TTTTTTAGATTCAAAAT
Found at i:3027743 original size:31 final size:31
Alignment explanation
Indices: 3027705--3027774 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
3027695 TTGGATTTGG
3027705 ATTTTTTTAGCT-AAGATTTTTT-AGATTCAAA
1 ATTTTTTTAGCTCAA-ATTTTTTAAGATT-AAA
* *
3027736 ATTTTTTTAGTTCAAATTTTTTAAGATTAGA
1 ATTTTTTTAGCTCAAATTTTTTAAGATTAAA
3027767 ATTTTTTT
1 ATTTTTTT
3027775 TTTCAAGTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 28 0.80
32 7 0.20
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (31 bp):
ATTTTTTTAGCTCAAATTTTTTAAGATTAAA
Found at i:3027820 original size:16 final size:16
Alignment explanation
Indices: 3027774--3027821 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
3027764 AGAATTTTTT
*
3027774 TTTTCAAGTTTAAACC
1 TTTTCAAGTTTAAATC
* *
3027790 TTTTCAGGTTCAAATC
1 TTTTCAAGTTTAAATC
3027806 TTTTCAAGTTTAAATC
1 TTTTCAAGTTTAAATC
3027822 AAATTAAGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.29, C:0.17, G:0.08, T:0.46
Consensus pattern (16 bp):
TTTTCAAGTTTAAATC
Found at i:3031377 original size:50 final size:50
Alignment explanation
Indices: 3031253--3031501 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
3031243 GATAATAACA
* * ** * *
3031253 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
3031304 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
3031354 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
3031404 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
3031459 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
3031502 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:3031431 original size:100 final size:104
Alignment explanation
Indices: 3031252--3031501 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
3031242 TGATAATAAC
**
3031252 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
3031317 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
3031354 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
3031417 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
3031459 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
3031502 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:3031617 original size:13 final size:13
Alignment explanation
Indices: 3031596--3031627 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
3031586 GCTTGGATCA
*
3031596 TCATCAAATAAAT
1 TCATAAAATAAAT
3031609 TCATAAAATAAAT
1 TCATAAAATAAAT
3031622 TCATAA
1 TCATAA
3031628 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:3031874 original size:30 final size:30
Alignment explanation
Indices: 3031839--3031896 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
3031829 CCTCGACTCT
*
3031839 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
3031869 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
3031897 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:3040143 original size:50 final size:50
Alignment explanation
Indices: 3040007--3040248 Score: 266
Period size: 50 Copynumber: 4.8 Consensus size: 50
3039997 GATAATAACA
* *
3040007 TGCCAAAGCCATGTCCCAGACATGGTCTTACAT--GA--TGT--TCTC-G
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
3040050 TGATCCCATGCCATGTCCCAGACATGGTCTTATA-GGGACCTCTCATCTCGG
1 TG--CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
3040101 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
3040151 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATC-T-CGG
*
3040206 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
3040249 TTACCCAAAT
Statistics
Matches: 167, Mismatches: 16, Indels: 19
0.83 0.08 0.09
Matches are distributed among these distances:
43 2 0.01
45 27 0.16
46 2 0.01
48 2 0.01
49 27 0.16
50 60 0.36
51 3 0.02
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:3040235 original size:106 final size:97
Alignment explanation
Indices: 3040006--3040249 Score: 300
Period size: 106 Copynumber: 2.4 Consensus size: 97
3039996 TGATAATAAC
*
3040006 ATGCCAAAGCCATGTCCCAGACATGGTCTTACAT--GA-TGTTCTCGTGATCCCATGCCATGTCC
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACTCTTCTCGTGA-CCCATGCCATGTCC
* *
3040068 CAGACATGGTCTTATAGGGACCTCTCATCTCGG
65 CAGACATGGTCTTACAGGGACCTCTCATCTAGG
*
3040101 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGGTG-CCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CTCT--TCTC-GTGACCCATGCCATG
3040164 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
62 TCCCAGACATGGTCTTACA-GGGACCTCTC---ATC-T-AGG
*
3040206 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCTT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CTCTT
3040250 TACCCAAATG
Statistics
Matches: 129, Mismatches: 6, Indels: 19
0.84 0.04 0.12
Matches are distributed among these distances:
94 32 0.25
96 2 0.02
98 2 0.02
99 29 0.22
100 14 0.11
101 3 0.02
103 3 0.02
104 2 0.02
105 2 0.02
106 40 0.31
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (97 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACTCTTCTCGTGACCCATGCCATGTCCC
AGACATGGTCTTACAGGGACCTCTCATCTAGG
Found at i:3040364 original size:13 final size:13
Alignment explanation
Indices: 3040343--3040374 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
3040333 GCTTGGATCA
*
3040343 TCATCAAATAAAT
1 TCATAAAATAAAT
3040356 TCATAAAATAAAT
1 TCATAAAATAAAT
3040369 TCATAA
1 TCATAA
3040375 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:3040621 original size:30 final size:30
Alignment explanation
Indices: 3040586--3040643 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
3040576 CCTCGACTCT
*
3040586 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
3040616 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
3040644 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:3047749 original size:49 final size:50
Alignment explanation
Indices: 3047588--3047835 Score: 293
Period size: 49 Copynumber: 4.8 Consensus size: 50
3047578 GATAATAACA
* ** *
3047588 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGT-CTCGG
* * * *
3047639 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
*
3047689 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
* * *
3047738 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--G-TC-T-CGG
*
3047793 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
3047836 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
49 46 0.27
50 45 0.27
51 33 0.20
52 1 0.01
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
Found at i:3047765 original size:99 final size:104
Alignment explanation
Indices: 3047587--3047835 Score: 366
Period size: 99 Copynumber: 2.4 Consensus size: 104
3047577 TGATAATAAC
*
3047587 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGAT-CTCTCGTGATGGTGCCCATGCCATG
* *
3047652 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
3047689 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCGTGAT-GGTGCCCATGCCATG
3047751 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
*
3047793 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
3047836 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 6, Indels: 12
0.88 0.04 0.08
Matches are distributed among these distances:
98 1 0.01
99 50 0.38
101 36 0.27
102 3 0.02
103 1 0.01
104 2 0.02
105 36 0.27
106 4 0.03
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:3047951 original size:13 final size:13
Alignment explanation
Indices: 3047930--3047961 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
3047920 GCTTGGATCA
*
3047930 TCATCAAATAAAT
1 TCATAAAATAAAT
3047943 TCATAAAATAAAT
1 TCATAAAATAAAT
3047956 TCATAA
1 TCATAA
3047962 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Done.