Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 79 of 433
Found at i:23232905 original size:30 final size:30
Alignment explanation
Indices: 23232890--23233088 Score: 235
Period size: 30 Copynumber: 6.6 Consensus size: 30
23232880 AACCAAAATG
* *
23232890 AGAATCAGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGAATTAGGAAC
* *
23232920 AGAATCAGAATCAGAATCAGTATTAGTAAC
1 AGAATCAGAATCAGAATCAGAATTAGGAAC
23232950 AGAATCAGAATCAGAATCAGAATTAGGTAAC
1 AGAATCAGAATCAGAATCAGAATTAGG-AAC
* *
23232981 AGAATCAGAATCAGAATCAGAATCA-GAATT
1 AGAATCAGAATCAGAATCAGAATTAGGAA-C
23233011 AGTAA-CAGAATCAGAATCAGAATTA-GAATC
1 AG-AATCAGAATCAGAATCAGAATTAGGAA-C
* * *
23233041 AGTATTAGTAA-CAGAATCAGAATTAGGTGAC
1 AGAATCAG-AATCAGAATCAGAATTAGG-AAC
23233072 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
23233089 GTGAATGCAA
Statistics
Matches: 148, Mismatches: 13, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
29 3 0.02
30 99 0.67
31 45 0.30
32 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAGAATCAGAATTAGGAAC
Found at i:23233048 original size:36 final size:36
Alignment explanation
Indices: 23232890--23233063 Score: 234
Period size: 36 Copynumber: 5.0 Consensus size: 36
23232880 AACCAAAATG
* * * *
23232890 AGAATCAGAATCAGAATCAGAATCAGTAA-CAGAATC
1 AGAATCAGAATCAGTATTAGTAACAG-AATCAGAATC
23232926 AGAATCAGAATCAGTATTAGTAACAGAATCAGAATC
1 AGAATCAGAATCAGTATTAGTAACAGAATCAGAATC
*
23232962 AGAATCAGAAT---TA--GGTAACAGAATCAGAATC
1 AGAATCAGAATCAGTATTAGTAACAGAATCAGAATC
*
23232993 AGAATCAGAATCAGAATTAGTAACAGAATCAGAATC
1 AGAATCAGAATCAGTATTAGTAACAGAATCAGAATC
*
23233029 AGAATTAGAATCAGTATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGTATTAGTAACAGAATCAGAAT
23233064 TAGGTGACAG
Statistics
Matches: 123, Mismatches: 9, Indels: 12
0.85 0.06 0.08
Matches are distributed among these distances:
31 28 0.23
33 2 0.02
34 1 0.01
35 2 0.02
36 90 0.73
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (36 bp):
AGAATCAGAATCAGTATTAGTAACAGAATCAGAATC
Found at i:23233267 original size:27 final size:26
Alignment explanation
Indices: 23233225--23233326 Score: 105
Period size: 27 Copynumber: 3.8 Consensus size: 26
23233215 GCTCAGTTAT
* *
23233225 CAGATATTGTGACAGAGTCACCAAATA
1 CAGATATTGTGGCAGAGCCACCAAA-A
* *
23233252 CAGATATTGTGGCAGAGCCATCAGAA
1 CAGATATTGTGGCAGAGCCACCAAAA
*
23233278 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCA-AAA
* * *
23233306 CAGAAAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
23233327 TTAACAGAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 7 0.11
27 49 0.78
28 7 0.11
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAAAA
Found at i:23233519 original size:22 final size:22
Alignment explanation
Indices: 23233485--23233549 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
23233475 GCAAATACGT
* *
23233485 TTGGTACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
23233507 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
23233529 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
23233550 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:23234331 original size:27 final size:27
Alignment explanation
Indices: 23233976--23234332 Score: 468
Period size: 27 Copynumber: 13.3 Consensus size: 27
23233966 GGGGCAAAAT
* * * *
23233976 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
23234002 GATAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23234029 AGTAATTCTACCCTACAGGGGTATTTA
1 GGTAATTCTACCCTACAGGGGTATTTC
*
23234056 GGTAATTCTACCCTACAGGGGTGTTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23234083 AGTAATTCTACCCTAGAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
23234110 GATAATTCTACCCTACAGGGGTATTGT-
1 GGTAATTCTACCCTACAGGGGTATT-TC
*
23234137 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
23234164 AGTAATTCTACCCTACAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
23234190 TGGTAATTCTACCCTACAAGGGTATTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
* *
23234218 GATAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
23234245 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
23234272 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
23234299 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
23234326 GGTAATT
1 GGTAATT
23234333 TGTAAATCGA
Statistics
Matches: 291, Mismatches: 35, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
26 17 0.06
27 270 0.93
28 4 0.01
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:23234361 original size:27 final size:27
Alignment explanation
Indices: 23234326--23234401 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 27
23234316 GGGGTATTTC
23234326 GGTAA-TTTGTAAATCGAGGGTAAAAT
1 GGTAATTTTGTAAATCGAGGGTAAAAT
* ***
23234352 GGTAATTTTGTAAATCAAGGGTACTTT
1 GGTAATTTTGTAAATCGAGGGTAAAAT
** *
23234379 GGTAATTTTACAAGTCGAGGGTA
1 GGTAATTTTGTAAATCGAGGGTA
23234402 TTTCAATAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
26 5 0.12
27 36 0.88
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.34
Consensus pattern (27 bp):
GGTAATTTTGTAAATCGAGGGTAAAAT
Found at i:23234412 original size:54 final size:53
Alignment explanation
Indices: 23234317--23234628 Score: 324
Period size: 54 Copynumber: 5.8 Consensus size: 53
23234307 TACCCTACAG
* *** * *
23234317 GGGTATTTCGGTAATTTGT--AAATCGAGGGTAAAATGGTAATTTTGTAAATCAA
1 GGGTATTTTGGTAATTT-TACAAATC-AGGGTATTTTGGTAATTTTATAAACCAA
* * *** * ***
23234370 GGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAGGTCAA
1 GGGTATTTTGGTAATTTTACAAATC-AGGGTATTTTGGTAATTTTATAAACCAA
* * * * *
23234424 GGGTATTTTAGTAATTTCACAAATCAGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAATCAGGGTATTTTGGTAATTTTATAAACCAA
* *
23234477 GGGTATTTTGATAATTTTACAAACCAAGGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAATC-AGGGTATTTTGGTAATTTTATAAACCAA
* *
23234531 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCA-GGGTATTTTGGTAATTTTATAAACCAA
23234585 GGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTTTACAAATC-A-GGGTATTTTGGTAATTT
23234629 GGTAAACTAA
Statistics
Matches: 220, Mismatches: 34, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
52 1 0.00
53 58 0.26
54 161 0.73
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.39
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTACAAATCAGGGTATTTTGGTAATTTTATAAACCAA
Found at i:23234428 original size:107 final size:104
Alignment explanation
Indices: 23234290--23234619 Score: 302
Period size: 107 Copynumber: 3.1 Consensus size: 104
23234280 TACCCTACAG
* ** * * ***
23234290 GGGTATTTCAATAATTCTAC-CCTACAGGGGTATTTCGGTAATTTGTAAATCGAGGGTAAAATGG
1 GGGTATTTCAATAATTTTACAAAT-CAAGGGTATTTTGGTAATTT-TAAATC-AGGGTATTTTGG
* ** *
23234354 TAATTTTGTAAATCAAGGGTACTTTGGTAATTTTACAAGTCGA
63 TAATTTTGTAAA-CAAGGGTATTTTGGTAATTTTACAAACCAA
** * *
23234397 GGGTATTTCAATAATTTTACAGGTCAAGGGTATTTTAGTAATTTCACAAATCAGGGTATTTTGGT
1 GGGTATTTCAATAATTTTACAAATCAAGGGTATTTTGGTAATTT--TAAATCAGGGTATTTTGGT
** * *
23234462 AATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCAA
64 AATTTTGTAAAC-AAGGGTATTTTGGTAATTTTACAAACCAA
*** * * *
23234504 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGG
1 GGGTATTTCAATAATTTTACAAATCAAGGGTATTTTGGTAATTTT--AAATCA-GGGTATTTTGG
* *
23234569 TAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACTAG
63 TAATTTTGTAAA-CAAGGGTATTTTGGTAATTTTACAAACCAA
23234612 GGGTATTT
1 GGGTATTT
23234620 TGGTAATTTG
Statistics
Matches: 181, Mismatches: 35, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
106 1 0.01
107 119 0.66
108 60 0.33
109 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (104 bp):
GGGTATTTCAATAATTTTACAAATCAAGGGTATTTTGGTAATTTTAAATCAGGGTATTTTGGTAA
TTTTGTAAACAAGGGTATTTTGGTAATTTTACAAACCAA
Found at i:23234637 original size:27 final size:27
Alignment explanation
Indices: 23234351--23234628 Score: 324
Period size: 27 Copynumber: 10.3 Consensus size: 27
23234341 GAGGGTAAAA
** * *
23234351 TGGTAATTTTGTAAATCAAGGGTACTT
1 TGGTAATTTTACAAACCAAGGGTATTT
** *
23234378 TGGTAATTTTACAAGTCGAGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
*** ***
23234405 CAATAATTTTACAGGTCAAGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
* * *
23234432 TAGTAATTTCACAAATC-AGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
* *
23234458 TGGTAATTTTACAAACTAGGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
*
23234485 TGATAATTTTACAAACCAAGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
*
23234512 TGGTAATTTTATAAACCAAGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
*
23234539 TGGTAATTTTACAAACCAGGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
**
23234566 TGGTAATTTTGTAAACCAAGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
* *
23234593 TGGTAATTTTACAAACTAGGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
23234620 TGGTAATTT
1 TGGTAATTT
23234629 GGTAAACTAA
Statistics
Matches: 216, Mismatches: 34, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
26 22 0.10
27 194 0.90
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
TGGTAATTTTACAAACCAAGGGTATTT
Found at i:23236610 original size:6 final size:6
Alignment explanation
Indices: 23236599--23236779 Score: 167
Period size: 6 Copynumber: 29.8 Consensus size: 6
23236589 AACCAAAATG
*
23236599 AGAATC AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AAAATC
1 AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
* * * *
23236647 AGTATT AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC
* *
23236696 AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAA-C
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC
* *
23236744 AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAAT
23236780 GTGAATGCAA
Statistics
Matches: 143, Mismatches: 18, Indels: 28
0.76 0.10 0.15
Matches are distributed among these distances:
5 10 0.07
6 121 0.85
7 10 0.07
8 2 0.01
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:23236633 original size:30 final size:30
Alignment explanation
Indices: 23236599--23236754 Score: 216
Period size: 30 Copynumber: 5.4 Consensus size: 30
23236589 AACCAAAATG
*
23236599 AGAATCAGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGAATTAGTAAC
* *
23236629 AGAATCAGAATCAAAATCAGTATTAGTAAC
1 AGAATCAGAATCAGAATCAGAATTAGTAAC
23236659 AGAATCAGAATCAGAATCAGAATTAGGT---
1 AGAATCAGAATCAGAATCAGAATTA-GTAAC
*
23236687 -G-A-CAGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGAATTAGTAAC
*
23236714 AGAATCAGAATCAGAATCAGTATTAGTAAC
1 AGAATCAGAATCAGAATCAGAATTAGTAAC
23236744 AGAATCAGAAT
1 AGAATCAGAAT
23236755 TAGGTGACAG
Statistics
Matches: 111, Mismatches: 8, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
24 2 0.02
25 19 0.17
26 1 0.01
27 1 0.01
28 1 0.01
29 1 0.01
30 84 0.76
31 2 0.02
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (30 bp):
AGAATCAGAATCAGAATCAGAATTAGTAAC
Found at i:23236958 original size:27 final size:26
Alignment explanation
Indices: 23236916--23237017 Score: 105
Period size: 27 Copynumber: 3.8 Consensus size: 26
23236906 GCTCAGTTAT
* *
23236916 CAGATATTGTGACAGAGTCACCAAATA
1 CAGATATTGTGGCAGAGCCACCAAA-A
* *
23236943 CAGATATTGTGGCAGAGCCATCAGAA
1 CAGATATTGTGGCAGAGCCACCAAAA
*
23236969 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCA-AAA
* * *
23236997 CAGATAATGTGACAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
23237018 TTAACAGAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
26 7 0.11
27 48 0.76
28 8 0.13
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAAAA
Found at i:23237725 original size:27 final size:27
Alignment explanation
Indices: 23237667--23238023 Score: 475
Period size: 27 Copynumber: 13.3 Consensus size: 27
23237657 GGGGCAAAAT
* * * *
23237667 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
23237693 GATAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
23237720 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23237747 GGTAATTCTACTCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
23237774 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23237801 GGTAATTCTACCCTACAAGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
23237828 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
23237855 AGTAATTCTACCCTACAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23237881 TGGTAATTCTACCCTATAAGGGTATTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
* *
23237909 GATAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23237936 GGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
23237963 GATAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
23237990 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
23238017 GGTAATT
1 GGTAATT
23238024 TTGTAAATCG
Statistics
Matches: 286, Mismatches: 42, Indels: 5
0.86 0.13 0.02
Matches are distributed among these distances:
26 16 0.06
27 267 0.93
28 3 0.01
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:23238038 original size:27 final size:27
Alignment explanation
Indices: 23238008--23238293 Score: 243
Period size: 27 Copynumber: 10.6 Consensus size: 27
23237998 TACCCTACAG
* ** *
23238008 GGGTATTTCGGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCAA
*** ** *
23238035 GGGTAAAATGGTAATTTTGTAAATTAA
1 GGGTATTTTGGTAATTTTACAAATCAA
* * * *
23238062 GGGTACTTTGGTAATTGTACAAGTCGA
1 GGGTATTTTGGTAATTTTACAAATCAA
*** * ** *
23238089 GGGTATTTCAATAATTTCACAGGTCGA
1 GGGTATTTTGGTAATTTTACAAATCAA
** *
23238116 GGGTATTTCAGTAATTTCACAAATC-A
1 GGGTATTTTGGTAATTTTACAAATCAA
*
23238142 GGGTATTTTGGTAATTTTACAAA-CTAG
1 GGGTATTTTGGTAATTTTACAAATC-AA
* *
23238169 GGGTATTTTGATAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCAA
* *
23238196 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCAA
* * *
23238223 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAATCAA
* *
23238250 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAATCAA
23238277 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
23238294 GGTAAACTAA
Statistics
Matches: 219, Mismatches: 37, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
25 1 0.00
26 21 0.10
27 196 0.89
28 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCAA
Found at i:23238300 original size:27 final size:27
Alignment explanation
Indices: 23238116--23238293 Score: 259
Period size: 27 Copynumber: 6.6 Consensus size: 27
23238106 CACAGGTCGA
** * *
23238116 GGGTATTTCAGTAATTTCACAAATCA-
1 GGGTATTTTGGTAATTTTACAAACCAG
*
23238142 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
23238169 GGGTATTTTGATAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
23238196 GGGTATTTTGGTAATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
*
23238223 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
23238250 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
23238277 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
23238294 GGTAAACTAA
Statistics
Matches: 137, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
26 21 0.15
27 116 0.85
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.39
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:23240991 original size:46 final size:46
Alignment explanation
Indices: 23240939--23241216 Score: 378
Period size: 46 Copynumber: 6.0 Consensus size: 46
23240929 GTGTGCTCTT
**
23240939 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*
23240985 TGATATGAAATGAATAAGACCATGGTTGAAAAATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*** * *
23241031 TGACGGGAAATGAATAAGACCATGGTTGACAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
** *
23241077 TGATATGAAATGAATAAGACTGTGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*
23241123 TGATATGAAATGAATAAGACCATGATTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * * *
23241169 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
23241215 TG
1 TG
23241217 TCAAAGATAA
Statistics
Matches: 205, Mismatches: 26, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 1 0.00
46 204 1.00
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:23241187 original size:138 final size:138
Alignment explanation
Indices: 23240939--23241211 Score: 420
Period size: 138 Copynumber: 2.0 Consensus size: 138
23240929 GTGTGCTCTT
**
23240939 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAGA
* * * * * *
23241004 CCATGGTTGAAAAATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTGACAGATACCA
66 CCATGATTGAAAAATACCATGGCAACATGACAGAAAATGAATAAGACCATAGTTGAAAGACACCA
23241069 TGGCAACG
131 TGGCAACG
** *
23241077 TGATATGAAATGAATAAGACTGTGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAGA
* * *
23241142 CCATGATTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACTA
66 CCATGATTGAAAAATACCATGGCAACATGACAGAAAATGAATAAGACCATAGTTGAAAGACACCA
23241207 TGGCA
131 TGGCA
23241212 TCATGTCAAA
Statistics
Matches: 121, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
138 121 1.00
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (138 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAGA
CCATGATTGAAAAATACCATGGCAACATGACAGAAAATGAATAAGACCATAGTTGAAAGACACCA
TGGCAACG
Found at i:23243772 original size:21 final size:23
Alignment explanation
Indices: 23243741--23243789 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
23243731 ATGTGGAAGA
* *
23243741 ATTTTATGAAATTTTATA-TCTT
1 ATTTTATGAAATATTAAATTCTT
23243763 ATTTT-TGAAATATTAAATTCTT
1 ATTTTATGAAATATTAAATTCTT
23243785 ATTTT
1 ATTTT
23243790 GTTTAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.42
22 14 0.58
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (23 bp):
ATTTTATGAAATATTAAATTCTT
Found at i:23247256 original size:16 final size:16
Alignment explanation
Indices: 23247237--23247290 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 16
23247227 AAGTCATGTA
23247237 CTAAAGAACAACTATG
1 CTAAAGAACAACTATG
*
23247253 CTAAA-AA-AAGTCATG
1 CTAAAGAACAACT-ATG
23247268 TACTAAAGAACAACTATG
1 --CTAAAGAACAACTATG
23247286 CTAAA
1 CTAAA
23247291 AAAAATAACT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
14 3 0.10
15 5 0.16
16 10 0.32
17 5 0.16
18 5 0.16
19 3 0.10
ACGTcount: A:0.52, C:0.17, G:0.11, T:0.20
Consensus pattern (16 bp):
CTAAAGAACAACTATG
Found at i:23247269 original size:33 final size:33
Alignment explanation
Indices: 23247227--23247294 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
23247217 TACTTCATAG
23247227 AAGTCATGTACTAAAGAACAACTATGCTAAAAA
1 AAGTCATGTACTAAAGAACAACTATGCTAAAAA
23247260 AAGTCATGTACTAAAGAACAACTATGCTAAAAA
1 AAGTCATGTACTAAAGAACAACTATGCTAAAAA
23247293 AA
1 AA
23247295 ATAACTCAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.53, C:0.15, G:0.12, T:0.21
Consensus pattern (33 bp):
AAGTCATGTACTAAAGAACAACTATGCTAAAAA
Found at i:23251759 original size:12 final size:13
Alignment explanation
Indices: 23251742--23251779 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
23251732 ATCCTAGAAT
23251742 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
23251754 ATTAAGAACACATA
1 ATTAAGAACA-AGA
23251768 ATTAAGAACAAG
1 ATTAAGAACAAG
23251780 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:23253141 original size:29 final size:28
Alignment explanation
Indices: 23253116--23253199 Score: 96
Period size: 28 Copynumber: 3.0 Consensus size: 28
23253106 AAGTAGGGGA
*
23253116 CAAAATTATAAAATCTGAAAAATAGGGG
1 CAAAATTATAAAATCTGAAAAATAAGGG
* * *
23253144 CAAAATTTTTAAATCTAAAAAATAAGGG
1 CAAAATTATAAAATCTGAAAAATAAGGG
** * *
23253172 CAAAACCATAAAATTTGAAAAACAAGGG
1 CAAAATTATAAAATCTGAAAAATAAGGG
23253200 ACACACGGCC
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.55, C:0.10, G:0.14, T:0.21
Consensus pattern (28 bp):
CAAAATTATAAAATCTGAAAAATAAGGG
Found at i:23254210 original size:23 final size:23
Alignment explanation
Indices: 23254166--23254212 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
23254156 ACTAACCTCC
*
23254166 TATATTTTGAGGCATGATATTTA
1 TATATTTTGAGGCATGACATTTA
* **
23254189 TATATTTTGGGGTGTGACATTTA
1 TATATTTTGAGGCATGACATTTA
23254212 T
1 T
23254213 CATCTAATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.26, C:0.04, G:0.21, T:0.49
Consensus pattern (23 bp):
TATATTTTGAGGCATGACATTTA
Found at i:23257200 original size:15 final size:15
Alignment explanation
Indices: 23257180--23257211 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
23257170 AGGCAAAATT
23257180 ACCATTTTGTCCCTA
1 ACCATTTTGTCCCTA
23257195 ACCATTTTGTCCCTA
1 ACCATTTTGTCCCTA
23257210 AC
1 AC
23257212 TTTTCCATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.22, C:0.34, G:0.06, T:0.38
Consensus pattern (15 bp):
ACCATTTTGTCCCTA
Found at i:23262311 original size:154 final size:154
Alignment explanation
Indices: 23262103--23262464 Score: 451
Period size: 156 Copynumber: 2.3 Consensus size: 154
23262093 GTTTTGTAAA
* * * * * *
23262103 ACAAAAGTGTTGAGGAAAACGACGCCGTGTATTGCTCAGCTATATAGGCATTAGCGGCGCTTTCT
1 ACAAAAGTTTTGA-GAAAACGACGTCGTGCATTGGTAAGCTATAGAGGCATTAGCGGCGCTTTCT
* * *
23262168 GA-AAATGCCGCAATATATCGAGAATTAGCGGC-GTTTTTTATAAAACGCCACAATAGGTGAAGC
65 -ATAAACGCCGCAATATATCAAGAATTAGCAGCAGTTTTTTATAAAACGCCACAATAGGTGAAGC
23262231 ATTAGCGGCGGTTGTCTAAAAACGCC
129 ATTAGCGGCGGTTGTCTAAAAACGCC
* * **
23262257 ACAAAAGTTTTGAGAAATACGATGTCGTGCATTGGTGAGCTATAGAGGTGTTAGCGGCGCTTTCT
1 ACAAAAGTTTTGAGAAA-ACGACGTCGTGCATTGGTAAGCTATAGAGGCATTAGCGGCGCTTTCT
* * * *
23262322 ATAAACGCTGCAATATATCAAGAATTAGCAGCATTTTTTTTCTAAAATGCCACAATAGGTGAAGC
65 ATAAACGCCGCAATATATCAAGAATTAGCAGCA-GTTTTTTATAAAACGCCACAATAGGTGAAGC
* *
23262387 ATTAGCGGGGGTTGTTTAAAAACGCC
129 ATTAGCGGCGGTTGTCTAAAAACGCC
* * *
23262413 GCAAAAGTTTTGAGAAAAACGACGTCGT-CTTTTGGTAAGCTATAGGGGCATT
1 ACAAAAGTTTTGAG-AAAACGACGTCGTGC-ATTGGTAAGCTATAGAGGCATT
23262465 TTAAAAAACG
Statistics
Matches: 177, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
153 5 0.03
154 77 0.44
155 1 0.01
156 91 0.51
157 3 0.02
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (154 bp):
ACAAAAGTTTTGAGAAAACGACGTCGTGCATTGGTAAGCTATAGAGGCATTAGCGGCGCTTTCTA
TAAACGCCGCAATATATCAAGAATTAGCAGCAGTTTTTTATAAAACGCCACAATAGGTGAAGCAT
TAGCGGCGGTTGTCTAAAAACGCC
Found at i:23265606 original size:26 final size:26
Alignment explanation
Indices: 23265576--23265678 Score: 170
Period size: 26 Copynumber: 4.0 Consensus size: 26
23265566 GAAATTCCCA
*
23265576 TCATGGAACATTTACCTAAACCATTG
1 TCATGGAACATTTACCTAACCCATTG
*
23265602 TCATGGAACATTTACCTAACCCATTA
1 TCATGGAACATTTACCTAACCCATTG
* *
23265628 TCATGGAATATTTACCTAATCCATTG
1 TCATGGAACATTTACCTAACCCATTG
23265654 TCATGGAACATTTACCTAACCCATT
1 TCATGGAACATTTACCTAACCCATT
23265679 ATCAATTTGT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 70 1.00
ACGTcount: A:0.33, C:0.24, G:0.10, T:0.33
Consensus pattern (26 bp):
TCATGGAACATTTACCTAACCCATTG
Found at i:23265652 original size:52 final size:52
Alignment explanation
Indices: 23265575--23265682 Score: 198
Period size: 52 Copynumber: 2.1 Consensus size: 52
23265565 TGAAATTCCC
23265575 ATCATGGAACATTTACCTAAACCATTGTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTGTCATGGAACATTTACCTAACCCATT
* *
23265627 ATCATGGAATATTTACCTAATCCATTGTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTGTCATGGAACATTTACCTAACCCATT
23265679 ATCA
1 ATCA
23265683 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.32
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTGTCATGGAACATTTACCTAACCCATT
Found at i:23266240 original size:7 final size:7
Alignment explanation
Indices: 23266230--23266304 Score: 64
Period size: 7 Copynumber: 10.9 Consensus size: 7
23266220 TTGGGGATAT
23266230 GGTTTAG
1 GGTTTAG
*
23266237 GGTTTAT
1 GGTTTAG
*
23266244 GGTTTAT
1 GGTTTAG
23266251 GGTTTAG
1 GGTTTAG
*
23266258 GG-AT-G
1 GGTTTAG
23266263 GGTTTAG
1 GGTTTAG
*
23266270 GGCTTAG
1 GGTTTAG
*
23266277 GGGTTAG
1 GGTTTAG
*
23266284 GGTTTATA
1 GGTTTA-G
*
23266292 GTTTTAG
1 GGTTTAG
23266299 GGTTTA
1 GGTTTA
23266305 AAGTATAATT
Statistics
Matches: 54, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
5 3 0.06
6 2 0.04
7 44 0.81
8 5 0.09
ACGTcount: A:0.16, C:0.01, G:0.39, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:23266253 original size:21 final size:21
Alignment explanation
Indices: 23266227--23266304 Score: 72
Period size: 21 Copynumber: 3.8 Consensus size: 21
23266217 AGTTTGGGGA
23266227 TATGGTTTAGGGTTTATGGTT
1 TATGGTTTAGGGTTTATGGTT
23266248 TATGGTTTAGGG---ATGGGTT
1 TATGGTTTAGGGTTTAT-GGTT
* * * *
23266267 TAGGGCTTAGGGGTTAGGGTT
1 TATGGTTTAGGGTTTATGGTT
*
23266288 TATAGTTTTAGGGTTTA
1 TAT-GGTTTAGGGTTTA
23266305 AAGTATAATT
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
18 2 0.04
19 14 0.31
21 18 0.40
22 11 0.24
ACGTcount: A:0.17, C:0.01, G:0.37, T:0.45
Consensus pattern (21 bp):
TATGGTTTAGGGTTTATGGTT
Found at i:23266351 original size:15 final size:15
Alignment explanation
Indices: 23266331--23266362 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
23266321 TTTAATTTAG
23266331 AAGATAAATATAAAT
1 AAGATAAATATAAAT
*
23266346 AAGATAAATATATAT
1 AAGATAAATATAAAT
23266361 AA
1 AA
23266363 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AAGATAAATATAAAT
Found at i:23267231 original size:45 final size:44
Alignment explanation
Indices: 23267139--23267277 Score: 129
Period size: 44 Copynumber: 3.1 Consensus size: 44
23267129 TTTCCTAAAT
* ** *
23267139 CCCAAATCCCAAATCCCTAAC-TCTTTTCCC-TTTCCTCCCCTAATTC
1 CCCAAA-CCCAAATCCCTAACAT-TTTCCCCAAATCC-CCCCT-TTTC
*
23267185 CCCAAACCCAAAATCCCTAACATTTTCCCCAAATCCCCTCTTTTC
1 CCCAAACCC-AAATCCCTAACATTTTCCCCAAATCCCCCCTTTTC
* ** **
23267230 CCCATAGTCATTTCCCTAACATTTTCCCCAAATCCCCCCTTTTC
1 CCCAAACCCAAATCCCTAACATTTTCCCCAAATCCCCCCTTTTC
23267274 CCCA
1 CCCA
23267278 TACTTTTTTC
Statistics
Matches: 79, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
44 36 0.46
45 12 0.15
46 27 0.34
47 4 0.05
ACGTcount: A:0.24, C:0.45, G:0.01, T:0.30
Consensus pattern (44 bp):
CCCAAACCCAAATCCCTAACATTTTCCCCAAATCCCCCCTTTTC
Found at i:23267310 original size:44 final size:44
Alignment explanation
Indices: 23267198--23267292 Score: 154
Period size: 44 Copynumber: 2.2 Consensus size: 44
23267188 AAACCCAAAA
* *
23267198 TCCCTAACATTTTCCCCAAATCCCCTCTTTTCCCCATAGTCATT
1 TCCCTAACATTTTCCCCAAATCCCCCCTTTTCCCCATACTCATT
**
23267242 TCCCTAACATTTTCCCCAAATCCCCCCTTTTCCCCATACTTTTT
1 TCCCTAACATTTTCCCCAAATCCCCCCTTTTCCCCATACTCATT
23267286 TCCCTAA
1 TCCCTAA
23267293 ATCTGTTCCC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.20, C:0.42, G:0.01, T:0.37
Consensus pattern (44 bp):
TCCCTAACATTTTCCCCAAATCCCCCCTTTTCCCCATACTCATT
Found at i:23269383 original size:2 final size:2
Alignment explanation
Indices: 23269376--23269412 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
23269366 GTAAAATTGT
23269376 TA TA TA 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 TA TA TA T
23269413 GTTATTGTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:23270679 original size:9 final size:9
Alignment explanation
Indices: 23270656--23270801 Score: 112
Period size: 9 Copynumber: 15.6 Consensus size: 9
23270646 ATTGATCATT
*
23270656 ACTTAAATA
1 ACTTACATA
*
23270665 AATTACATA
1 ACTTACATA
23270674 ACTTACATA
1 ACTTACATA
** *
23270683 ACCCATATA
1 ACTTACATA
23270692 ACTTACATA
1 ACTTACATA
** *
23270701 ACCGATATA
1 ACTTACATA
23270710 ACTTACATA
1 ACTTACATA
*
23270719 ATTTACATAACA
1 ACTTACAT---A
23270731 ACTTACATA
1 ACTTACATA
*
23270740 ACTCACATA
1 ACTTACATA
23270749 ACTTACATA
1 ACTTACATA
*
23270758 ATTTACATA
1 ACTTACATA
* *
23270767 ACTCATATA
1 ACTTACATA
*
23270776 ACGTACATAACA
1 ACTTACAT---A
23270788 ACTTACATA
1 ACTTACATA
23270797 ACTTA
1 ACTTA
23270802 ACTAATACAT
Statistics
Matches: 104, Mismatches: 27, Indels: 12
0.73 0.19 0.08
Matches are distributed among these distances:
9 88 0.85
12 16 0.15
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:23270692 original size:27 final size:27
Alignment explanation
Indices: 23270662--23270786 Score: 124
Period size: 27 Copynumber: 4.5 Consensus size: 27
23270652 CATTACTTAA
* * *
23270662 ATAAATTACATAACTTACATAACCCAT
1 ATAACTTACATAACTTACATAACTCAC
** * *
23270689 ATAACTTACATAACCGATATAACTTAC
1 ATAACTTACATAACTTACATAACTCAC
*
23270716 ATAATTTACATAACAACTTACATAACTCAC
1 ATAACTTACAT---AACTTACATAACTCAC
* *
23270746 ATAACTTACATAATTTACATAACTCAT
1 ATAACTTACATAACTTACATAACTCAC
*
23270773 ATAACGTACATAAC
1 ATAACTTACATAAC
23270787 AACTTACATA
Statistics
Matches: 78, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
27 56 0.72
30 22 0.28
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.30
Consensus pattern (27 bp):
ATAACTTACATAACTTACATAACTCAC
Found at i:23270750 original size:39 final size:39
Alignment explanation
Indices: 23270691--23270768 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
23270681 TAACCCATAT
*
23270691 AACTTACATAACCGATATAACTTACATAATTTACATAAC
1 AACTTACATAACCGACATAACTTACATAATTTACATAAC
23270730 AACTTACATAACTC-ACATAACTTACATAATTTACATAAC
1 AACTTACATAAC-CGACATAACTTACATAATTTACATAAC
23270769 TCATATAACG
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
39 36 0.97
40 1 0.03
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (39 bp):
AACTTACATAACCGACATAACTTACATAATTTACATAAC
Found at i:23270750 original size:57 final size:57
Alignment explanation
Indices: 23270673--23270799 Score: 164
Period size: 57 Copynumber: 2.2 Consensus size: 57
23270663 TAAATTACAT
* * * * **
23270673 AACTTACATAACCCATATAACTTACATAACCGATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAACCGACATAACTCACATAACGTACATAAC
*** *
23270730 AACTTACATAACTCACATAACTTACATAATTTACATAACTCATATAACGTACATAAC
1 AACTTACATAACTCACATAACTTACATAACCGACATAACTCACATAACGTACATAAC
23270787 AACTTACATAACT
1 AACTTACATAACT
23270800 TAACTAATAC
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.46, C:0.23, G:0.02, T:0.30
Consensus pattern (57 bp):
AACTTACATAACTCACATAACTTACATAACCGACATAACTCACATAACGTACATAAC
Found at i:23276380 original size:21 final size:21
Alignment explanation
Indices: 23276356--23276400 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
23276346 ACTTAGAGCA
*
23276356 GAGGCAGCAGCGCGAGAGGCG
1 GAGGCAGCAGCGAGAGAGGCG
*
23276377 GAGGCAGCAGCGAGGGAGGCG
1 GAGGCAGCAGCGAGAGAGGCG
23276398 GAG
1 GAG
23276401 CAGAAAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.24, C:0.20, G:0.56, T:0.00
Consensus pattern (21 bp):
GAGGCAGCAGCGAGAGAGGCG
Found at i:23276766 original size:42 final size:42
Alignment explanation
Indices: 23276694--23276810 Score: 173
Period size: 42 Copynumber: 2.8 Consensus size: 42
23276684 ACTGAGCAAA
*
23276694 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCCTG-TAT
1 TTAGCGGCGTTTTATA-AAAAGCGCCGCTAAAGGT-CCTGATAT
* *
23276737 TTAGCGGCGTTTTATAAAAAGTGCCGCTAAAGGTCCTGATCT
1 TTAGCGGCGTTTTATAAAAAGCGCCGCTAAAGGTCCTGATAT
*
23276779 TTAGCGGCATTTTATAAAAAGCGCCGCTAAAG
1 TTAGCGGCGTTTTATAAAAAGCGCCGCTAAAG
23276811 ACCAGGACTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 4 0.06
42 49 0.72
43 15 0.22
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (42 bp):
TTAGCGGCGTTTTATAAAAAGCGCCGCTAAAGGTCCTGATAT
Found at i:23276824 original size:42 final size:42
Alignment explanation
Indices: 23276694--23276826 Score: 128
Period size: 42 Copynumber: 3.1 Consensus size: 42
23276684 ACTGAGCAAA
* * * * *
23276694 TTAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGGTCCCTG-TAT
1 TTAGCGGCATTTTATA-AAAAGCGCCGCTAAAGG-ACCGGATCT
* * * *
23276737 TTAGCGGCGTTTTATAAAAAGTGCCGCTAAAGGTCCTGATCT
1 TTAGCGGCATTTTATAAAAAGCGCCGCTAAAGGACCGGATCT
23276779 TTAGCGGCATTTTATAAAAAGCGCCGCTAAA-GACCAGGA-CTT
1 TTAGCGGCATTTTATAAAAAGCGCCGCTAAAGGACC-GGATC-T
23276821 TTAGCG
1 TTAGCG
23276827 ACGTTTTTTT
Statistics
Matches: 79, Mismatches: 8, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
41 8 0.10
42 56 0.71
43 15 0.19
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.29
Consensus pattern (42 bp):
TTAGCGGCATTTTATAAAAAGCGCCGCTAAAGGACCGGATCT
Found at i:23278213 original size:25 final size:25
Alignment explanation
Indices: 23278179--23278235 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
23278169 TTGCACACAT
23278179 GGCCATGCCACACACTCGTGTGCTA
1 GGCCATGCCACACACTCGTGTGCTA
23278204 GGCCATGCCACACACTCGTGTGCTA
1 GGCCATGCCACACACTCGTGTGCTA
23278229 GGCCATG
1 GGCCATG
23278236 TGGTTAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.19, C:0.35, G:0.26, T:0.19
Consensus pattern (25 bp):
GGCCATGCCACACACTCGTGTGCTA
Found at i:23278351 original size:42 final size:42
Alignment explanation
Indices: 23278273--23278353 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
23278263 GTGCAGGTTT
* *
23278273 CACACGGCCAAGACACACGCCCGTGTTCTAGGTCGTGTGGCA
1 CACACGGCCAAGACACACGCCCATGTTCTAGCTCGTGTGGCA
** *
23278315 CACACGGCGGAGACACACGCCCATGTCTTTA-CTCGTGTG
1 CACACGGCCAAGACACACGCCCATGT-TCTAGCTCGTGTG
23278354 CTCAATTCTG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 30 0.91
43 3 0.09
ACGTcount: A:0.21, C:0.33, G:0.27, T:0.19
Consensus pattern (42 bp):
CACACGGCCAAGACACACGCCCATGTTCTAGCTCGTGTGGCA
Found at i:23280424 original size:41 final size:40
Alignment explanation
Indices: 23280297--23280441 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
23280287 CTCGCACAAG
* * * *
23280297 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
23280337 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
23280377 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
23280418 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
23280442 CATTCGAGTA
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.03
40 60 0.65
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:23288425 original size:41 final size:40
Alignment explanation
Indices: 23288298--23288442 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
23288288 CTCGCACAAG
* * * *
23288298 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
23288338 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
23288378 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
23288419 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
23288443 CATTCGAGTA
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.03
40 60 0.65
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:23291051 original size:40 final size:40
Alignment explanation
Indices: 23290958--23291172 Score: 348
Period size: 40 Copynumber: 5.5 Consensus size: 40
23290948 GGATGACATT
*
23290958 CGGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACTATAT-
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATC
*
23290996 CGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATC
*
23291036 CGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATC
23291076 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATC
*
23291116 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATC
*
23291156 C-GGCTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
23291173 TACTTGGGTT
Statistics
Matches: 168, Mismatches: 6, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
38 20 0.12
39 32 0.19
40 114 0.68
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATC
Found at i:23296106 original size:40 final size:40
Alignment explanation
Indices: 23295940--23296107 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
23295930 CATTTGAATG
* * * *
23295940 ATATCCAGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* *
23295980 ATGTCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATT
* * * **
23296020 ATATCCGGGCTAAGACCCGAAGGCAATGGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
* * * *
23296060 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
*
23296100 GTATCCGG
1 ATATCCGG
23296108 TTAAATCCCG
Statistics
Matches: 101, Mismatches: 23, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
39 3 0.03
40 94 0.93
41 4 0.04
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATT
Found at i:23299888 original size:20 final size:21
Alignment explanation
Indices: 23299850--23299889 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
23299840 GTTACACGGA
*
23299850 CGTGTGGAGTAGTCACACAGG
1 CGTGTGGAGTAGCCACACAGG
23299871 CGTGTGGA-TAGCCACACAG
1 CGTGTGGAGTAGCCACACAG
23299890 TTATGTCTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.25, C:0.23, G:0.35, T:0.17
Consensus pattern (21 bp):
CGTGTGGAGTAGCCACACAGG
Found at i:23300336 original size:21 final size:20
Alignment explanation
Indices: 23300301--23300339 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
23300291 TAAAATATTA
23300301 AAATTTCTAATATTTTTAGC
1 AAATTTCTAATATTTTTAGC
*
23300321 AAATTTTTATATATTTTTA
1 AAATTTCTA-ATATTTTTA
23300340 ATTTTATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (20 bp):
AAATTTCTAATATTTTTAGC
Found at i:23300705 original size:26 final size:26
Alignment explanation
Indices: 23300676--23300731 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
23300666 GGGCTGGACT
23300676 TGTACTTTAGAGGTCAAATAAACAGG
1 TGTACTTTAGAGGTCAAATAAACAGG
*
23300702 TGTACTTTAGAGGTCAGATAAACAGG
1 TGTACTTTAGAGGTCAAATAAACAGG
23300728 TGTA
1 TGTA
23300732 AGGCTTTGGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.29
Consensus pattern (26 bp):
TGTACTTTAGAGGTCAAATAAACAGG
Found at i:23316247 original size:5 final size:5
Alignment explanation
Indices: 23316237--23316261 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
23316227 GAAATCACAC
23316237 CTTGG CTTGG CTTGG CTTGG CTTGG
1 CTTGG CTTGG CTTGG CTTGG CTTGG
23316262 GCCAATTCTG
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:0.00, C:0.20, G:0.40, T:0.40
Consensus pattern (5 bp):
CTTGG
Found at i:23318517 original size:4 final size:4
Alignment explanation
Indices: 23318504--23318532 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
23318494 TGGTTTTTCG
23318504 AATT -ATT AATT AATT AATT AATT AATT AA
1 AATT AATT AATT AATT AATT AATT AATT AA
23318533 CTGAAGTTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:23319949 original size:29 final size:29
Alignment explanation
Indices: 23319916--23319974 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
23319906 GCAACAAAAG
23319916 TCCATCAGCATTCAGCCTAAAACAACCAA
1 TCCATCAGCATTCAGCCTAAAACAACCAA
23319945 TCCATCAGCATTCAGCCTAAAACAACCAA
1 TCCATCAGCATTCAGCCTAAAACAACCAA
23319974 T
1 T
23319975 TTTGGCTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.41, C:0.34, G:0.07, T:0.19
Consensus pattern (29 bp):
TCCATCAGCATTCAGCCTAAAACAACCAA
Found at i:23325984 original size:40 final size:39
Alignment explanation
Indices: 23325940--23326069 Score: 127
Period size: 40 Copynumber: 3.3 Consensus size: 39
23325930 CGGAATATAA
*
23325940 CCGGATATAACCATGTGCACAAATGCCTTCGAGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
23325980 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
23326020 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
23326060 CCGGATATAA
1 CCGGATATAA
23326070 TTTCCAGCAT
Statistics
Matches: 71, Mismatches: 15, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
38 1 0.01
40 68 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:23326084 original size:40 final size:40
Alignment explanation
Indices: 23325956--23326107 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
23325946 ATAACCATGT
* * * *
23325956 GCACAAATGCCTTCGAGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
23325996 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
23326036 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
23326076 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
23326108 CATTCAATTT
Statistics
Matches: 90, Mismatches: 18, Indels: 8
0.78 0.16 0.07
Matches are distributed among these distances:
39 2 0.02
40 85 0.94
41 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:23326090 original size:80 final size:80
Alignment explanation
Indices: 23325956--23326105 Score: 189
Period size: 80 Copynumber: 1.9 Consensus size: 80
23325946 ATAACCATGT
*
23325956 GCACAAATGCCTTCGAGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGAGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
23326020 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * * *
23326036 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGAGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
23326099 CCCGGAT
64 CCCGGAT
23326106 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
79 3 0.05
80 56 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGAGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:23331822 original size:22 final size:22
Alignment explanation
Indices: 23331788--23331833 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
23331778 CATCTTTTAA
*
23331788 CACAAACATTCAATTATATTGG
1 CACAAACAATCAATTATATTGG
*
23331810 CACAATCAATCAATTATATTGG
1 CACAAACAATCAATTATATTGG
23331832 CA
1 CA
23331834 TGTGATCATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (22 bp):
CACAAACAATCAATTATATTGG
Found at i:23335678 original size:40 final size:40
Alignment explanation
Indices: 23335606--23335712 Score: 126
Period size: 40 Copynumber: 2.6 Consensus size: 40
23335596 AAACCAAAGT
* *
23335606 TATCTCAGTATCGCACACTTAGTGCCACATATAGCCGAAGC
1 TATCTCA-AATCGCACACTAAGTGCCACATATAGCCGAAGC
* * * *
23335647 TAT-TCCAATTCGCACACTAAGTGCTATATATAGCTGAAGC
1 TATCT-CAAATCGCACACTAAGTGCCACATATAGCCGAAGC
*
23335687 TATCTCAAACCGCACACTAAGTGCCA
1 TATCTCAAATCGCACACTAAGTGCCA
23335713 AACATAGTCG
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
40 49 0.89
41 6 0.11
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (40 bp):
TATCTCAAATCGCACACTAAGTGCCACATATAGCCGAAGC
Found at i:23336157 original size:29 final size:28
Alignment explanation
Indices: 23336120--23336184 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 28
23336110 ATTTCATTTA
* *
23336120 TTTCACAATTTAACCCCTCAATTTACATT
1 TTTCTCAATTTAACCCCT-AATATACATT
* *
23336149 TTTCTCAATTTAATCCCTAATATGCATT
1 TTTCTCAATTTAACCCCTAATATACATT
*
23336177 TTACTCAA
1 TTTCTCAA
23336185 AATCACTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 15 0.48
29 16 0.52
ACGTcount: A:0.31, C:0.25, G:0.02, T:0.43
Consensus pattern (28 bp):
TTTCTCAATTTAACCCCTAATATACATT
Found at i:23336950 original size:36 final size:36
Alignment explanation
Indices: 23336882--23336950 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
23336872 TAGTAGATTA
* *
23336882 GTAGATTTCGCTCTATTAAGATTTGTTTAGTATTCC
1 GTAGATTTCGCTCGATTAAGATTTGTTCAGTATTCC
* *
23336918 GTAGATTTCGCTCGGTTGAGATTCT-TTCAGTAT
1 GTAGATTTCGCTCGATTAAGATT-TGTTCAGTAT
23336951 ATTAGTGGAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
36 27 0.96
37 1 0.04
ACGTcount: A:0.20, C:0.14, G:0.20, T:0.45
Consensus pattern (36 bp):
GTAGATTTCGCTCGATTAAGATTTGTTCAGTATTCC
Found at i:23346251 original size:15 final size:15
Alignment explanation
Indices: 23346227--23346257 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23346217 AGGGTTGAAA
*
23346227 AGATAGAGAATTCAT
1 AGATAAAGAATTCAT
23346242 AGATAAAGAATTCAT
1 AGATAAAGAATTCAT
23346257 A
1 A
23346258 CCATGAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.16, T:0.26
Consensus pattern (15 bp):
AGATAAAGAATTCAT
Found at i:23348316 original size:2 final size:2
Alignment explanation
Indices: 23348311--23348336 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
23348301 TTAAAAAACA
23348311 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
23348337 GAAATGAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23351457 original size:42 final size:42
Alignment explanation
Indices: 23351397--23351491 Score: 147
Period size: 42 Copynumber: 2.3 Consensus size: 42
23351387 AAGGAAAGCA
* *
23351397 TTCATTGCATTTAGAGGCCCAAC-TGTGCATGTCCATTTACTT
1 TTCATTGCATTTAAAGGCCC-ACGTGTGCAGGTCCATTTACTT
*
23351439 TTCATTGCATTTAAAGGCCCACGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAAAGGCCCACGTGTGCAGGTCCATTTACTT
23351481 TTCATTGCATT
1 TTCATTGCATT
23351492 GTATATGAAG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
41 2 0.04
42 47 0.96
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.39
Consensus pattern (42 bp):
TTCATTGCATTTAAAGGCCCACGTGTGCAGGTCCATTTACTT
Found at i:23351947 original size:3 final size:3
Alignment explanation
Indices: 23351939--23352012 Score: 112
Period size: 3 Copynumber: 24.7 Consensus size: 3
23351929 CAAGGGCCCA
23351939 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
23351987 CAT TAC TAC TAC TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
23352013 AATATCATTA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:23352463 original size:51 final size:51
Alignment explanation
Indices: 23352392--23352634 Score: 138
Period size: 51 Copynumber: 4.9 Consensus size: 51
23352382 TAGTCATATT
* *
23352392 AAAGGAAAAGCTTAAATTTTTAAAACAAAGTTTTGATTTTTTTAACTATTTC
1 AAAGAAAAAGCTTTAATTTTTAAAA-AAAGTTTTGATTTTTTTAACTATTTC
**
23352444 AAA-AAAAAGCTTTAATTTTTAAGAAAAA-TAGTGATTTTTTT---TA----
1 AAAGAAAAAGCTTTAATTTTTAA-AAAAAGTTTTGATTTTTTTAACTATTTC
* ** * *
23352487 AAAGAGAAAG-TTTATATTTTTAAAATAAAAATTT-A-TTTTTTAAGTCATTTT
1 AAAGAAAAAGCTTTA-ATTTTTAAAA-AAAGTTTTGATTTTTTTAACT-ATTTC
* * * *
23352538 AAAGGAAAAG-TTTAAAATTTTTAAAACAAAGTTTTTATATTTTTCAACTATTGC
1 AAAGAAAAAGCTTT--AATTTTTAAAA-AAAGTTTTGAT-TTTTTTAACTATTTC
* * **
23352592 AAA-ATAAAA-CTTTGATTTTTAAGAAAAGTAGTGATTTTTTTAA
1 AAAGA-AAAAGCTTTAATTTTTAAAAAAAGTTTTGATTTTTTTAA
23352635 AGAAAACTTT
Statistics
Matches: 147, Mismatches: 24, Indels: 42
0.69 0.11 0.20
Matches are distributed among these distances:
43 15 0.10
44 17 0.12
45 1 0.01
46 1 0.01
47 3 0.02
50 18 0.12
51 39 0.27
52 30 0.20
53 2 0.01
54 13 0.09
55 8 0.05
ACGTcount: A:0.43, C:0.05, G:0.09, T:0.43
Consensus pattern (51 bp):
AAAGAAAAAGCTTTAATTTTTAAAAAAAGTTTTGATTTTTTTAACTATTTC
Found at i:23352521 original size:21 final size:21
Alignment explanation
Indices: 23352480--23352529 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
23352470 AATAGTGATT
*
23352480 TTTTTTAAAAGAGAAAGTTTA
1 TTTTTTAAAAGAGAAAATTTA
*
23352501 TATTTTTAAAATA-AAAATTTA
1 T-TTTTTAAAAGAGAAAATTTA
23352522 TTTTTTAA
1 TTTTTTAA
23352530 GTCATTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.27
21 9 0.35
22 10 0.38
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (21 bp):
TTTTTTAAAAGAGAAAATTTA
Found at i:23352617 original size:148 final size:145
Alignment explanation
Indices: 23352330--23352640 Score: 446
Period size: 148 Copynumber: 2.1 Consensus size: 145
23352320 GGAAACATTT
*
23352330 TGATTTTTTTAAAAAAAGAGAGTTTATATTTTTAAAATAAAAATATGATTGTTAGTCATATTAAA
1 TGATTTTTTTAAAAAAAGAAAGTTTATATTTTTAAAATAAAAATATGATTGTTAGTCATATTAAA
* *
23352395 GGAAAAGCTTAAATTTTTAAAACAAAGTTTTGATTTTTTTAACTATTTCAAAAAAAAGCTTTAAT
66 GGAAAAGCTTAAATTTTTAAAACAAAGTTTTGATTTTTTCAACTATTGCAAAAAAAAGCTTTAAT
23352460 TTTTAAGAAAAATAG
131 TTTTAAGAAAAATAG
* * * * *
23352475 TGATTTTTTTTAAAAGAGAAAGTTTATATTTTTAAAATAAAAAT-TTATTTTTTAAGTCATTTTA
1 TGATTTTTTTAAAAAAAGAAAGTTTATATTTTTAAAATAAAAATATGA-TTGTT-AGTCATATTA
* *
23352539 AAGGAAAAGTTTAAAATTTTTAAAACAAAGTTTTTATATTTTTCAACTATTGCAAAATAAAA-CT
64 AAGGAAAAGCTT-AAATTTTTAAAACAAAGTTTTGAT-TTTTTCAACTATTGCAAAA-AAAAGCT
* *
23352603 TTGATTTTTAAGAAAAGTAG
126 TTAATTTTTAAGAAAAATAG
23352623 TGATTTTTTTAAAGAAAA
1 TGATTTTTTTAAA-AAAA
23352641 CTTTGATTTT
Statistics
Matches: 146, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
144 2 0.01
145 45 0.31
146 20 0.14
147 23 0.16
148 49 0.34
149 7 0.05
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.42
Consensus pattern (145 bp):
TGATTTTTTTAAAAAAAGAAAGTTTATATTTTTAAAATAAAAATATGATTGTTAGTCATATTAAA
GGAAAAGCTTAAATTTTTAAAACAAAGTTTTGATTTTTTCAACTATTGCAAAAAAAAGCTTTAAT
TTTTAAGAAAAATAG
Found at i:23352647 original size:21 final size:21
Alignment explanation
Indices: 23352597--23352661 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
23352587 ATTGCAAAAT
23352597 AAAACTTTGA--TTTTT-AAG
1 AAAACTTTGATTTTTTTAAAG
* *
23352615 AAAAGTAGTGATTTTTTTAAAG
1 AAAACT-TTGATTTTTTTAAAG
* *
23352637 AAAACTTTGATTTTGTTAAAA
1 AAAACTTTGATTTTTTTAAAG
23352658 AAAA
1 AAAA
23352662 AAAGGGGCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
18 5 0.14
19 3 0.08
21 21 0.57
22 8 0.22
ACGTcount: A:0.45, C:0.03, G:0.12, T:0.40
Consensus pattern (21 bp):
AAAACTTTGATTTTTTTAAAG
Found at i:23352663 original size:146 final size:146
Alignment explanation
Indices: 23352330--23352663 Score: 421
Period size: 145 Copynumber: 2.3 Consensus size: 146
23352320 GGAAACATTT
* * * * * * *
23352330 TGATTTTTTTAAAAAAAGAGAGTTTATATTTTTAAAATAAAAATATGA-TTGTT-AGTCATATTA
1 TGATTTTTTTTAAAAGAGAAACTTTATATTTTTAAAAAAAAAAT-TTATTTTTTAAGTCATATTA
* *
23352393 AAGGAAAAGCTTAAATTTTTAAAACAAAGTTTTGATTTTTTTAACTATTTCAAAAAAAAGCTTTA
65 AAGGAAAAGCTTAAATTTTTAAAACAAAGTTTTGATTTTTTCAACTATTGCAAAAAAAAGCTTTA
23352458 ATTTTTAAGAAAAATAG
130 ATTTTTAAGAAAAATAG
* * *
23352475 TGATTTTTTTTAAAAGAGAAAGTTTATATTTTTAAAATAAAAATTTATTTTTTAAGTCATTTTAA
1 TGATTTTTTTTAAAAGAGAAACTTTATATTTTTAAAAAAAAAATTTATTTTTTAAGTCATATTAA
* *
23352540 AGGAAAAGTTTAAAATTTTTAAAACAAAGTTTTTATATTTTTCAACTATTGCAAAATAAAA-CTT
66 AGGAAAAGCTT-AAATTTTTAAAACAAAGTTTTGAT-TTTTTCAACTATTGCAAAA-AAAAGCTT
* *
23352604 TGATTTTTAAGAAAAGTAG
128 TAATTTTTAAGAAAAATAG
23352623 TGA-TTTTTTT-AAAGA-AAACTTTGAT-TTTGTTAAAAAAAAAA
1 TGATTTTTTTTAAAAGAGAAACTTT-ATATTT-TTAAAAAAAAAA
23352664 AGGGGCCACT
Statistics
Matches: 168, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
144 2 0.01
145 54 0.32
146 38 0.23
147 30 0.18
148 40 0.24
149 4 0.02
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.42
Consensus pattern (146 bp):
TGATTTTTTTTAAAAGAGAAACTTTATATTTTTAAAAAAAAAATTTATTTTTTAAGTCATATTAA
AGGAAAAGCTTAAATTTTTAAAACAAAGTTTTGATTTTTTCAACTATTGCAAAAAAAAGCTTTAA
TTTTTAAGAAAAATAG
Found at i:23353268 original size:26 final size:26
Alignment explanation
Indices: 23353239--23353346 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
23353229 TGATACAAAT
*
23353239 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
**
23353265 TGATAATGCATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
23353291 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* * *
23353317 TGATAATGGTTTAAGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
23353343 TGAT
1 TGAT
23353347 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:23360128 original size:26 final size:26
Alignment explanation
Indices: 23360099--23360205 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
23360089 TGATACAAAT
23360099 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
23360125 TGATAAT-GATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
23360150 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
23360176 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
23360202 TGAT
1 TGAT
23360206 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
25 23 0.31
26 52 0.69
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:23360154 original size:51 final size:52
Alignment explanation
Indices: 23360099--23360205 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
23360089 TGATACAAAT
23360099 TGATAATGGGTTAGGTAAATGTTCCATGATAAT-GATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
23360150 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
23360202 TGAT
1 TGAT
23360206 GGGCATTTCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 33 0.62
52 20 0.38
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:23363297 original size:43 final size:43
Alignment explanation
Indices: 23363231--23363312 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
23363221 AAGTAATATG
* * * *
23363231 TAGGATTGCTTTTAGGATTTTAAACTAAT-TTTAAATATCATA
1 TAGGATTCCTTTTAGAATCTTAAACTAATGTGTAAATATCATA
*
23363273 TAGGATTCCTCTTTAGAATCTTAAATTAATGTGTAAATAT
1 TAGGATTCCT-TTTAGAATCTTAAACTAATGTGTAAATAT
23363313 TCTTTAGAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 9 0.27
43 16 0.48
44 8 0.24
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (43 bp):
TAGGATTCCTTTTAGAATCTTAAACTAATGTGTAAATATCATA
Found at i:23369386 original size:41 final size:41
Alignment explanation
Indices: 23369341--23369458 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
23369331 TGAAAGATAA
23369341 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
23369382 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
23369412 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
23369453 ATGTAG
1 ATGTAG
23369459 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:23369397 original size:71 final size:71
Alignment explanation
Indices: 23369309--23369472 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
23369299 GAGATGTATC
23369309 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
23369374 AGGACA
66 AGGACA
23369380 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
23369445 AGGACA
66 AGGACA
23369451 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
23369473 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:23376955 original size:41 final size:41
Alignment explanation
Indices: 23376910--23377027 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
23376900 TGAAAGATAA
23376910 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
23376951 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
23376981 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
23377022 ATGTAG
1 ATGTAG
23377028 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:23376966 original size:71 final size:71
Alignment explanation
Indices: 23376878--23377041 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
23376868 GAGATGTATC
23376878 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
23376943 AGGACA
66 AGGACA
23376949 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
23377014 AGGACA
66 AGGACA
23377020 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
23377042 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:23387771 original size:28 final size:28
Alignment explanation
Indices: 23387702--23387802 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
23387692 GACAAGATTG
* * * *
23387702 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
23387732 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
23387760 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
23387789 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
23387803 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:23395724 original size:28 final size:28
Alignment explanation
Indices: 23395655--23395755 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
23395645 GACAAGATTG
* * * *
23395655 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
23395685 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
23395713 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
23395742 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
23395756 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:23406274 original size:13 final size:13
Alignment explanation
Indices: 23406258--23406283 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23406248 TAATTAAAGG
23406258 GTTAAAATTTAAA
1 GTTAAAATTTAAA
23406271 GTTAAAATTTAAA
1 GTTAAAATTTAAA
23406284 TATGATAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (13 bp):
GTTAAAATTTAAA
Found at i:23406379 original size:9 final size:9
Alignment explanation
Indices: 23406354--23406465 Score: 58
Period size: 9 Copynumber: 13.0 Consensus size: 9
23406344 AACTTTAGAT
23406354 CATAACTTA
1 CATAACTTA
* *
23406363 CATGACTTG
1 CATAACTTA
23406372 CATAACTTA
1 CATAACTTA
*
23406381 CATAA-ATA
1 CATAACTTA
* * *
23406389 TATATCATA
1 CATAACTTA
23406398 TCATAACTTA
1 -CATAACTTA
23406408 CAT-A---A
1 CATAACTTA
*
23406413 C-TAACTTG
1 CATAACTTA
23406421 CATAACTTA
1 CATAACTTA
*
23406430 CATAA-ATA
1 CATAACTTA
* * *
23406438 TATATCATA
1 CATAACTTA
23406447 TCATAACTTA
1 -CATAACTTA
23406457 CATAACTTA
1 CATAACTTA
23406466 TAAATAAACA
Statistics
Matches: 76, Mismatches: 18, Indels: 18
0.68 0.16 0.16
Matches are distributed among these distances:
4 1 0.01
5 3 0.04
8 12 0.16
9 48 0.63
10 12 0.16
ACGTcount: A:0.44, C:0.19, G:0.03, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:23406384 original size:27 final size:26
Alignment explanation
Indices: 23406372--23406467 Score: 112
Period size: 27 Copynumber: 3.8 Consensus size: 26
23406362 ACATGACTTG
*
23406372 CATAACTTACATAAATATATATCATAT
1 CATAACTTACATAACT-TATATCATAT
23406399 CATAACTTACATAAC-TA-A-C-T-T
1 CATAACTTACATAACTTATATCATAT
*
23406420 GCATAACTTACATAAATATATATCATAT
1 -CATAACTTACATAACT-TATATCATAT
23406448 CATAACTTACATAACTTATA
1 CATAACTTACATAACTTATA
23406468 AATAAACAAC
Statistics
Matches: 59, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
21 1 0.02
22 15 0.25
23 1 0.02
24 3 0.05
25 3 0.05
26 5 0.08
27 30 0.51
28 1 0.02
ACGTcount: A:0.46, C:0.18, G:0.01, T:0.35
Consensus pattern (26 bp):
CATAACTTACATAACTTATATCATAT
Found at i:23406429 original size:49 final size:49
Alignment explanation
Indices: 23406367--23406463 Score: 194
Period size: 49 Copynumber: 2.0 Consensus size: 49
23406357 AACTTACATG
23406367 ACTTGCATAACTTACATAAATATATATCATATCATAACTTACATAACTA
1 ACTTGCATAACTTACATAAATATATATCATATCATAACTTACATAACTA
23406416 ACTTGCATAACTTACATAAATATATATCATATCATAACTTACATAACT
1 ACTTGCATAACTTACATAAATATATATCATATCATAACTTACATAACT
23406464 TATAAATAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (49 bp):
ACTTGCATAACTTACATAAATATATATCATATCATAACTTACATAACTA
Found at i:23406446 original size:22 final size:22
Alignment explanation
Indices: 23406372--23406446 Score: 64
Period size: 22 Copynumber: 3.2 Consensus size: 22
23406362 ACATGACTTG
23406372 CATAACTTACATAAATATATATCATAT
1 CATAACTTACAT--A-A-ATAT-ATAT
*
23406399 CATAACTTACATAACTA-ACT-T
1 CATAACTTACATAAATATA-TAT
23406420 GCATAACTTACATAAATATATAT
1 -CATAACTTACATAAATATATAT
23406443 CATA
1 CATA
23406447 TCATAACTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 13
0.74 0.04 0.23
Matches are distributed among these distances:
21 2 0.05
22 22 0.52
23 4 0.10
24 1 0.02
25 1 0.02
27 12 0.29
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.35
Consensus pattern (22 bp):
CATAACTTACATAAATATATAT
Found at i:23408251 original size:46 final size:45
Alignment explanation
Indices: 23408184--23408627 Score: 474
Period size: 46 Copynumber: 9.9 Consensus size: 45
23408174 TTATCTTCGA
* * * * * *
23408184 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTAT
* * ** * **
23408230 CAGGTTGTCATGGTATCTTTCAACCATGGTCTTATTCATTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTAT
* *** * **
23408275 CATGTTGCCATGGTATCTTTCAACCATGGTTTTATTTATTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTAT
*
23408320 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTAT
* *
23408366 CCTATTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TAT
* * *
23408412 CATGTTGCCATGGTGTCTTTCAA-C-----C--ACA-TTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTAT
* *
23408448 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTAT
* *
23408494 CATTTTGCCATGGTATCTTTTAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TAT
*
23408540 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TAT
* *
23408586 CATATTGCCGTGGTATCTTTCAACCATGGTCTTACACATTTC
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC
23408628 ATTTCAGAAA
Statistics
Matches: 345, Mismatches: 40, Indels: 26
0.84 0.10 0.06
Matches are distributed among these distances:
36 26 0.08
37 4 0.01
38 3 0.01
40 1 0.00
42 1 0.00
44 3 0.01
45 87 0.25
46 220 0.64
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.41
Consensus pattern (45 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTAT
Found at i:23408440 original size:36 final size:36
Alignment explanation
Indices: 23408400--23408473 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
23408390 CATGGTCTTA
23408400 CACATTTCATATCATGTTGCCATGGTGTCTTTCAAC
1 CACATTTCATATCATGTTGCCATGGTGTCTTTCAAC
*
23408436 CACATTTTATATCATGTTGCCATGGTGTCTTTCAAC
1 CACATTTCATATCATGTTGCCATGGTGTCTTTCAAC
23408472 CA
1 CA
23408474 TGGTCTTACA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (36 bp):
CACATTTCATATCATGTTGCCATGGTGTCTTTCAAC
Found at i:23408490 original size:128 final size:128
Alignment explanation
Indices: 23408319--23408626 Score: 463
Period size: 128 Copynumber: 2.3 Consensus size: 128
23408309 TTTATTCCCG
*
23408319 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCCTATTGCCATGGTATCT
1 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCATATTGCCATGGTATCT
23408384 TTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTGTCTTTCAACCACATTTTATA
66 TTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTGTCTTTCAACCACATTTTATA
* *
23408447 TCATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTTATATCATTTTGCCATGGTATCT
1 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCATATTGCCATGGTATCT
*
23408512 TTTAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTGTCTTTCAACCATGGTCTTACAC
66 TTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTGTCTTTC-A--A----C---CAC
*
23408577 ATTTCATA
121 ATTTTATA
* *
23408585 TCATATTGCCGTGGTATCTTTCAACCATGGTCTTACACATTT
1 TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTT
23408627 CATTTCAGAA
Statistics
Matches: 162, Mismatches: 8, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
128 110 0.68
129 1 0.01
131 1 0.01
135 1 0.01
138 49 0.30
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (128 bp):
TCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTTATATCATATTGCCATGGTATCT
TTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTGTCTTTCAACCACATTTTATA
Found at i:23409890 original size:35 final size:35
Alignment explanation
Indices: 23409844--23409914 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
23409834 TTAGCTAAAA
23409844 ACACCATAGGAGGGTCCCCAAAAGCTGGTTTTCAT
1 ACACCATAGGAGGGTCCCCAAAAGCTGGTTTTCAT
23409879 ACACCATAGGAGGGTCCCCAAAAGCTGGTTTTCAT
1 ACACCATAGGAGGGTCCCCAAAAGCTGGTTTTCAT
23409914 A
1 A
23409915 TTTCTCTTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (35 bp):
ACACCATAGGAGGGTCCCCAAAAGCTGGTTTTCAT
Found at i:23410818 original size:21 final size:21
Alignment explanation
Indices: 23410792--23410836 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
23410782 TCTATTGAGC
23410792 TTCTATTTAAGCATGATGGGT
1 TTCTATTTAAGCATGATGGGT
23410813 TTCTATTTAAGCATGATGGGT
1 TTCTATTTAAGCATGATGGGT
23410834 TTC
1 TTC
23410837 CGTTCAACCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.44
Consensus pattern (21 bp):
TTCTATTTAAGCATGATGGGT
Found at i:23417224 original size:38 final size:39
Alignment explanation
Indices: 23417127--23417315 Score: 150
Period size: 40 Copynumber: 4.8 Consensus size: 39
23417117 CGAATGATGT
* * * * *
23417127 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTAATA-AA
* *
23417167 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 CCGGGCTAAG-TCCCGAAGGCATTCGTGCGAGTTAATAAA
* * * *
23417206 TCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTAATAAA
* * * *
23417244 CCGGGTTAAGTCCCGAAGGCATTCGCGCGAGTCACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTAATA-AA
** * *
23417284 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGT
23417316 CGTTATATCC
Statistics
Matches: 120, Mismatches: 24, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
38 32 0.27
39 30 0.25
40 51 0.43
41 7 0.06
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.23
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTAATAAA
Found at i:23417297 original size:40 final size:39
Alignment explanation
Indices: 23417179--23417316 Score: 145
Period size: 38 Copynumber: 3.5 Consensus size: 39
23417169 GGACTAGGAT
* * * *
23417179 CCGAAGGCATTCGTGCGAGTTAATAAATCGGGCTAAG-C
1 CCGAAGGCATTCGTGCGAGTCACTAAACCGGGCTTAGTC
* * *
23417217 CCGAAGGCATTTGTGCAAGTTACTAAACCGGG-TTAAGTC
1 CCGAAGGCATTCGTGCGAGTCACTAAACCGGGCTT-AGTC
* *
23417256 CCGAAGGCATTCGCGCGAGTCACTATAACCGGGCTTCGTC
1 CCGAAGGCATTCGTGCGAGTCACTA-AACCGGGCTTAGTC
* *
23417296 CCGAAGGCATTTGAGCGAGTC
1 CCGAAGGCATTCGTGCGAGTC
23417317 GTTATATCCG
Statistics
Matches: 84, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
37 1 0.01
38 30 0.36
39 22 0.26
40 29 0.35
41 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.22
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTCACTAAACCGGGCTTAGTC
Found at i:23417306 original size:79 final size:80
Alignment explanation
Indices: 23417127--23417308 Score: 212
Period size: 77 Copynumber: 2.3 Consensus size: 80
23417117 CGAATGATGT
* *
23417127 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTC
* *
23417191 GTGCGAGTTAATAAA
66 GCGCGAGTCAATAAA
* * **
23417206 TCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTA-AACCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTATAACCGGACTAAGAT-CCGAAGGCATT
*
23417267 CGCGCGAGTCACTATAA
65 CGCGCGAGTCAATA-AA
**
23417284 CCGGGCTTCGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
23417309 AGCGAGTCGT
Statistics
Matches: 87, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
76 1 0.01
77 30 0.34
78 26 0.30
79 30 0.34
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTATAACCGGACTAAGATCCGAAGGCATTC
GCGCGAGTCAATAAA
Found at i:23425294 original size:79 final size:82
Alignment explanation
Indices: 23425154--23425338 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
23425144 TCGAATGATG
* * *
23425154 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
23425218 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
23425234 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
23425296 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
23425314 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
23425339 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:23425346 original size:40 final size:40
Alignment explanation
Indices: 23425155--23425346 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
23425145 CGAATGATGT
* * * * *
23425155 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
23425195 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
23425235 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
23425274 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
23425314 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
23425347 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:23425369 original size:79 final size:79
Alignment explanation
Indices: 23425154--23425371 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
23425144 TCGAATGATG
* * * * ** *
23425154 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
23425217 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
23425234 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
23425299 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
23425314 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
23425372 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:23433097 original size:3 final size:3
Alignment explanation
Indices: 23433089--23433137 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
23433079 CTTTTTCTTC
23433089 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
23433137 A
1 A
23433138 AGAGTTCTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:23436158 original size:374 final size:374
Alignment explanation
Indices: 23435463--23436199 Score: 1366
Period size: 374 Copynumber: 2.0 Consensus size: 374
23435453 GTCAAGTTGG
23435463 TGTATCGAAGGTAAAAATTCCGAAGGTTCGATTGACGCTGAGTCTAGGGTTTTAAGCCAAAATTC
1 TGTATCGAAGGTAAAAATTCCGAAGGTTCGATTGACGCTGAGTCTAGGGTTTTAAGCCAAAATTC
*
23435528 ATCCATCTTTCACTACCCCTAGCCTAGCCATATTACAACCTTGATAAAGACCTATTGATTCAAAG
66 ATCCATCTTTCACTACCCCTAGCCTAGCCACATTACAACCTTGATAAAGACCTATTGATTCAAAG
*
23435593 TCCTAGTGCTACCTACATTAATGGAGAGAAATTGCTACAATCAACATATGAAGACATAAGTTAAA
131 TCCTAATGCTACCTACATTAATGGAGAGAAATTGCTACAATCAACATATGAAGACATAAGTTAAA
*
23435658 CTTAATGATTGCAGCTTAGTCTTAAATAAAGGAATAAAAATCAAACTGGTAAGGGTTAACATGTC
196 CTTAATGATTGCAGCTTAGTCTTAAATAAAGGAATAAAAATCAAACTGGTAAGGGTTAACATCTC
23435723 TTTGTTATAAAAGCATTTAGTCTAAAATTTGCTATTATAATAAGATGTTGATTCTAATCTGAACA
261 TTTGTTATAAAAGCATTTAGTCTAAAATTTGCTATTATAATAAGATGTTGATTCTAATCTGAACA
*
23435788 TTATACTTAAGTAGTATAACTATCATATTTCTTGTTTTGAAAGAGCACA
326 TTATACTTAAGTAGCATAACTATCATATTTCTTGTTTTGAAAGAGCACA
* * *
23435837 TGTATTGAAGGTAAAAATTTCGAAGGTTCGATTGACGCTGAGTCTAGGGTTTTAAGCCAAAATTT
1 TGTATCGAAGGTAAAAATTCCGAAGGTTCGATTGACGCTGAGTCTAGGGTTTTAAGCCAAAATTC
23435902 ATCCATCTTTCACTACCCCTAGCCTAGCCACATTACAACCTTGATAAAGACCTATTGATTCAAAG
66 ATCCATCTTTCACTACCCCTAGCCTAGCCACATTACAACCTTGATAAAGACCTATTGATTCAAAG
23435967 TCCTAATGCTACCTACATTAATGGAGAGAAATTGCTACAATCAACATATGAAGACATAAGTTAAA
131 TCCTAATGCTACCTACATTAATGGAGAGAAATTGCTACAATCAACATATGAAGACATAAGTTAAA
* * *
23436032 CTTAATGATTGCAGCTTAGTCTTGAATAAATGAATAAAAATCAAATTGGTAAGGGTTAACATCTC
196 CTTAATGATTGCAGCTTAGTCTTAAATAAAGGAATAAAAATCAAACTGGTAAGGGTTAACATCTC
* *
23436097 TTTGTTATAAAAGCATTTAGTCTAAAATTTGCTATTATAATAAGTTGTTGATTCTAATCTGAACG
261 TTTGTTATAAAAGCATTTAGTCTAAAATTTGCTATTATAATAAGATGTTGATTCTAATCTGAACA
23436162 TTATACTTAAGTAGCATAACTATCATATTTCTTGTTTT
326 TTATACTTAAGTAGCATAACTATCATATTTCTTGTTTT
23436200 TGAGCATGAG
Statistics
Matches: 351, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
374 351 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (374 bp):
TGTATCGAAGGTAAAAATTCCGAAGGTTCGATTGACGCTGAGTCTAGGGTTTTAAGCCAAAATTC
ATCCATCTTTCACTACCCCTAGCCTAGCCACATTACAACCTTGATAAAGACCTATTGATTCAAAG
TCCTAATGCTACCTACATTAATGGAGAGAAATTGCTACAATCAACATATGAAGACATAAGTTAAA
CTTAATGATTGCAGCTTAGTCTTAAATAAAGGAATAAAAATCAAACTGGTAAGGGTTAACATCTC
TTTGTTATAAAAGCATTTAGTCTAAAATTTGCTATTATAATAAGATGTTGATTCTAATCTGAACA
TTATACTTAAGTAGCATAACTATCATATTTCTTGTTTTGAAAGAGCACA
Found at i:23436657 original size:16 final size:15
Alignment explanation
Indices: 23436636--23436666 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
23436626 AAAAATGTGT
23436636 ATTAATTTATAATTTA
1 ATTAATTT-TAATTTA
23436652 ATTAATTTTAATTTA
1 ATTAATTTTAATTTA
23436667 TTCCCTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
ATTAATTTTAATTTA
Found at i:23440387 original size:86 final size:86
Alignment explanation
Indices: 23440283--23440467 Score: 187
Period size: 86 Copynumber: 2.2 Consensus size: 86
23440273 TAAAAACGAA
** * * * *
23440283 GCTAAAGAACATGAC-TTTTGGCAGCTTTTTTCGAAAAAGCGCCGCCAA-AAGTGATGTTCTTTA
1 GCTAAAGGTCATGACTTTTTAGCAGCGTTTGT-GAAAAAGCGCCG-CAATAAGTGATGTTCTATA
** *
23440346 GTTGCGTTTGTCGGGGAAAGCGCC
64 GCGGCGTTTGT-GGGAAAAGCGCC
* ** * *
23440370 GCTAAAGGTCATG-CTTTTTAGCGGCGTTTGTGGGAAATCGCCGCAATAAGTTATGTTCTATAGC
1 GCTAAAGGTCATGACTTTTTAGCAGCGTTTGTGAAAAAGCGCCGCAATAAGTGATGTTCTATAGC
*
23440434 GGCGTTTGTGGGAAAAGTGCC
66 GGCGTTTGTGGGAAAAGCGCC
23440455 GCTAAAGGTCATG
1 GCTAAAGGTCATG
23440468 TTCTATAGCG
Statistics
Matches: 81, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
85 26 0.32
86 32 0.40
87 23 0.28
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (86 bp):
GCTAAAGGTCATGACTTTTTAGCAGCGTTTGTGAAAAAGCGCCGCAATAAGTGATGTTCTATAGC
GGCGTTTGTGGGAAAAGCGCC
Found at i:23440390 original size:44 final size:43
Alignment explanation
Indices: 23440318--23440482 Score: 165
Period size: 44 Copynumber: 3.8 Consensus size: 43
23440308 TTTTTTCGAA
* * **
23440318 AAAGCGCCGCCAAAAGTGATGTTCTTTAGTTGCGTTTGTCGGGG
1 AAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTGT-GGGG
*
23440362 AAAGCGCCGCTAAAGGTCATGCTT-TTTAGCGGCGTTTGT-GGG
1 AAAGCGCCGCTAAAAGTCATG-TTCTTTAGCGGCGTTTGTGGGG
* * * *
23440404 AAATCGCCGC-AATAAGTTATGTTCTATAGCGGCGTTTGTGGGA
1 AAAGCGCCGCTAA-AAGTCATGTTCTTTAGCGGCGTTTGTGGGG
* * * *
23440447 AAAGTGCCGCTAAAGGTCATGTTCTATAGCGACGTT
1 AAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTT
23440483 CATGGGAAAA
Statistics
Matches: 101, Mismatches: 15, Indels: 11
0.80 0.12 0.09
Matches are distributed among these distances:
41 4 0.04
42 32 0.32
43 30 0.30
44 33 0.33
45 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (43 bp):
AAAGCGCCGCTAAAAGTCATGTTCTTTAGCGGCGTTTGTGGGG
Found at i:23440470 original size:43 final size:43
Alignment explanation
Indices: 23440317--23440526 Score: 192
Period size: 43 Copynumber: 4.9 Consensus size: 43
23440307 CTTTTTTCGA
* * * * **
23440317 AAAAGCGCCGCCAAAAGTGATGTTCTTTAGTTGCGTTTGTCGGG
1 AAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGT-GGG
* *
23440361 GAAAGCGCCGCTAAAGGTCATGCTT-TTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCATG-TTCTATAGCGGCGTTTGTGGG
* * *
23440404 -AAATCGCCGC-AATAAGTTATGTTCTATAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAA-AGGTCATGTTCTATAGCGGCGTTTGTGGG
* * **
23440446 AAAAGTGCCGCTAAAGGTCATGTTCTATAGCGACGTTCATGGG
1 AAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGTGGG
** * * *
23440489 AAAAGCATCACTAAAGGTCATGTTCAATAGCGGTGTTT
1 AAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTT
23440527 TTTCACATAA
Statistics
Matches: 136, Mismatches: 25, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
41 4 0.03
42 32 0.24
43 65 0.48
44 33 0.24
45 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTGTGGG
Found at i:23440477 original size:85 final size:86
Alignment explanation
Indices: 23440322--23440491 Score: 211
Period size: 85 Copynumber: 2.0 Consensus size: 86
23440312 TTCGAAAAAG
* ** *
23440322 CGCCGCCAAAAGTGATGTTCTTTAGTTGCGTTTGTCGGGGAAAGCGCCGCTAAAGGTCATGCTTT
1 CGCCGCCAAAAGTGATGTTCTATAGCGGCGTTTGTCGGGAAAAGCGCCGCTAAAGGTCATGCTTT
* * **
23440387 TTAGCGGCGTTTGTGGGAAAT
66 ATAGCGACGTTCATGGGAAAT
* *
23440408 CGCCG-CAATAAGTTATGTTCTATAGCGGCGTTTGT-GGGAAAAGTGCCGCTAAAGGTCATG-TT
1 CGCCGCCAA-AAGTGATGTTCTATAGCGGCGTTTGTCGGGAAAAGCGCCGCTAAAGGTCATGCTT
23440470 CTATAGCGACGTTCATGGGAAA
65 -TATAGCGACGTTCATGGGAAA
23440492 AGCATCACTA
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
84 2 0.03
85 43 0.60
86 27 0.38
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (86 bp):
CGCCGCCAAAAGTGATGTTCTATAGCGGCGTTTGTCGGGAAAAGCGCCGCTAAAGGTCATGCTTT
ATAGCGACGTTCATGGGAAAT
Found at i:23440571 original size:30 final size:30
Alignment explanation
Indices: 23440535--23440591 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
23440525 TTTTTCACAT
*
23440535 AAACGCCGTAAAATTTAATGGCAGTTACCA
1 AAACGCCGTAAAATTTAACGGCAGTTACCA
23440565 AAACGCCGTAAAATTTAACGGCAGTTA
1 AAACGCCGTAAAATTTAACGGCAGTTA
23440592 TTTTAGCGGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.23
Consensus pattern (30 bp):
AAACGCCGTAAAATTTAACGGCAGTTACCA
Found at i:23443817 original size:25 final size:25
Alignment explanation
Indices: 23443788--23443835 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
23443778 TTATAATGTG
* * *
23443788 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
23443813 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
23443836 GTTTAATTAT
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:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:23443906 original size:20 final size:20
Alignment explanation
Indices: 23443862--23443937 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
23443852 GATACGTGGG
23443862 GTATGATAT--ACATGAT-T
1 GTATGATATGCACATGATAT
* *
23443879 GATGTGATATGTACATGATAT
1 G-TATGATATGCACATGATAT
*
23443900 GTATGATATACACATGATAT
1 GTATGATATGCACATGATAT
*
23443920 GTATGAAATGCACATGAT
1 GTATGATATGCACATGAT
23443938 GAATTCATAA
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
17 1 0.02
18 7 0.14
20 39 0.80
21 2 0.04
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.36
Consensus pattern (20 bp):
GTATGATATGCACATGATAT
Found at i:23444078 original size:25 final size:26
Alignment explanation
Indices: 23443987--23444109 Score: 178
Period size: 26 Copynumber: 4.8 Consensus size: 26
23443977 GAGGAAGTGC
***
23443987 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCA
*
23444013 AAAAGGGCTTATGCCCTAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCA
23444039 AAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTACCA
* *
23444065 AAAAGGGCTT-TGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCA
23444090 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
23444110 ATTAAAGAGG
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
25 32 0.36
26 57 0.64
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCA
Found at i:23444313 original size:42 final size:42
Alignment explanation
Indices: 23444254--23444343 Score: 162
Period size: 42 Copynumber: 2.1 Consensus size: 42
23444244 TAGTCTCCCT
*
23444254 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
*
23444296 AAATGGGCTTGCATACATTCATTGATATTTCATGTGTTATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
23444338 AAATGG
1 AAATGG
23444344 CCCTATGGGC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
Found at i:23444404 original size:31 final size:31
Alignment explanation
Indices: 23444369--23444443 Score: 141
Period size: 31 Copynumber: 2.4 Consensus size: 31
23444359 CGTTTACAAT
23444369 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
23444400 AAAGGCTTCGGCCCAGTGATTTGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
23444431 AAAGGCTTCGGCC
1 AAAGGCTTCGGCC
23444444 TAGTAACCGT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:23448213 original size:21 final size:21
Alignment explanation
Indices: 23448189--23448236 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
23448179 CTATAGAGTA
*
23448189 AATTTA-ACATCAATTTAATGT
1 AATTTATAC-TCAATTTAATCT
* *
23448210 AATTCATACTCAATTTAGTCT
1 AATTTATACTCAATTTAATCT
23448231 AATTTA
1 AATTTA
23448237 CACTTTAAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.40, C:0.12, G:0.04, T:0.44
Consensus pattern (21 bp):
AATTTATACTCAATTTAATCT
Found at i:23460463 original size:16 final size:16
Alignment explanation
Indices: 23460442--23460476 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
23460432 TAATGCTTAG
23460442 TAAGCTCATAGGTACT
1 TAAGCTCATAGGTACT
23460458 TAAGCTCATAGGTACT
1 TAAGCTCATAGGTACT
23460474 TAA
1 TAA
23460477 ACGGCGAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (16 bp):
TAAGCTCATAGGTACT
Found at i:23462188 original size:727 final size:727
Alignment explanation
Indices: 23459221--23462149 Score: 5579
Period size: 727 Copynumber: 4.0 Consensus size: 727
23459211 AACAATTTAC
23459221 AAAACCATCTTTTTAGACACAACTTGCATTCTATTCTATACATTACATTCCTATCAAAATAGGTA
1 AAAACCATCTTTTTAGACACAACTTGCATTCTATTCTATACATTACATTCCTATCAAAATAGGTA
23459286 CAATTCCAACACAAGTTAATTTATCTATTAACCATTAGCATCCATAAACCTAACATTCTCTCAAC
66 CAATTCCAACACAAGTTAATTTATCTATTAACCATTAGCATCCATAAACCTAACATTCTCTCAAC
23459351 TTGCACTCATAGATATATCATACATCTATTATCATTCAAATCAAATACTTACTCACATCACCACC
131 TTGCACTCATAGATATATCATACATCTATTATCATTCAAATCAAATACTTACTCACATCACCACC
23459416 TATATACATATCATAAACACATTCCAAATAGGCATACATATTATTTAAGTCTCATATGCATGTCA
196 TATATACATATCATAAACACATTCCAAATAGGCATACATATTATTTAAGTCTCATATGCATGTCA
*
23459481 TATAAACATGTAAAATAAGCATTACATGTAGATCATTTTATCATCAACCAAAATAAACACTTATC
261 TATAAACATTTAAAATAAGCATTACATGTAGATCATTTTATCATCAACCAAAATAAACACTTATC
23459546 CACATTGAAACCTATATACATGCCACATAACTAATTCTAGAACAATTTAAAAGTCTACCGAGACT
326 CACATTGAAACCTATATACATGCCACATAACTAATTCTAGAACAATTTAAAAGTCTACCGAGACT
23459611 GAAGCTAGATAGTATAAGCTCTGAAGATGATATGATTGTCGAGTTTCGCAAAACGATAATTACAA
391 GAAGCTAGATAGTATAAGCTCTGAAGATGATATGATTGTCGAGTTTCGCAAAACGATAATTACAA
23459676 AAACAAAAATGAAACAGAGTAAGCATTACTAATGCTTAGTAAGCTCATAGGTACTTAAACGGCGA
456 AAACAAAAATGAAACAGAGTAAGCATTACTAATGCTTAGTAAGCTCATAGGTACTTAAACGGCGA
*
23459741 GCTTACCTCAATTCATAATTAAACATATTAAAACTACCAATTCAACTAAGTCTTATCATAACATT
521 ACTTACCTCAATTCATAATTAAACATATTAAAACTACCAATTCAACTAAGTCTTATCATAACATT
23459806 TCATTTACATAGGTTGAGCATTTCCTAATACAATTATATAATTGTCAATTCATTCAATACAATAT
586 TCATTTACATAGGTTGAGCATTTCCTAATACAATTATATAATTGTCAATTCATTCAATACAATAT
23459871 AATTCAGTACAATTTCATAAAATTTGTCGAACATTTACATCATTTACCCAATCCAATCATATGTA
651 AATTCAGTACAATTTCATAAAATTTGTCGAACATTTACATCATTTACCCAATCCAATCATATGTA
23459936 AATTTATTTGTA
716 AATTTATTTGTA
23459948 AAAACCATCTTTTTAGACACAACTTGCATTCTATTCTATACATTACATTCCTATCAAAATAGGTA
1 AAAACCATCTTTTTAGACACAACTTGCATTCTATTCTATACATTACATTCCTATCAAAATAGGTA
23460013 CAATTCCAACACAAGTTAATTTATCTATTAACCATTAGCATCCATAAACCTAACATTCTCTCAAC
66 CAATTCCAACACAAGTTAATTTATCTATTAACCATTAGCATCCATAAACCTAACATTCTCTCAAC
23460078 TTGCACTCATAGATATATCATACATCTATTATCATTCAAATCAAATACTTACTCACATCACCACC
131 TTGCACTCATAGATATATCATACATCTATTATCATTCAAATCAAATACTTACTCACATCACCACC
*
23460143 TATATACATATCATAAACACATTCCAAATAGGCATACATATTATTTATGTCTCATATGCATGTCA
196 TATATACATATCATAAACACATTCCAAATAGGCATACATATTATTTAAGTCTCATATGCATGTCA
*
23460208 TATAAACATTTAAAATAAGCATTACATGTAGGTCATTTTATCATCAACCAAAATAAACACTTATC
261 TATAAACATTTAAAATAAGCATTACATGTAGATCATTTTATCATCAACCAAAATAAACACTTATC
*
23460273 CACATTGAAACCTATATACATGCCACATAACTAATTCTAGAACAATTTAAAAGTTTACCGAGACT
326 CACATTGAAACCTATATACATGCCACATAACTAATTCTAGAACAATTTAAAAGTCTACCGAGACT
*
23460338 GAAGCTAGATAGTATAAGCTCTGAAGATGATATAATTGTCGAGTTTCGCAAAACGATAATTACAA
391 GAAGCTAGATAGTATAAGCTCTGAAGATGATATGATTGTCGAGTTTCGCAAAACGATAATTACAA
*
23460403 AAACAAAAATGAAACAAAGTAAGCATTACTAATGCTTAGTAAGCTCATAGGTACTTAAGCTCATA
456 AAACAAAAATGAAACAGAGTAAGCATTACT-A-----A-T--GCT--TA-G----TAAGCTCATA
23460468 GGTACTTAAACGGCGAACTTACCTCAATTCATAATTAAACATATTAAAACTACCAATTCAACTAA
505 GGTACTTAAACGGCGAACTTACCTCAATTCATAATTAAACATATTAAAACTACCAATTCAACTAA
23460533 GTCTTATCATAACATTTCATTTACATAGGTTGAGCATTTCCTAATACAATTATATAATTGTCAAT
570 GTCTTATCATAACATTTCATTTACATAGGTTGAGCATTTCCTAATACAATTATATAATTGTCAAT
23460598 TCATTCAATACAATATAATTCAGTACAATTTCATAAAATTTGTCGAACATTTACATCATTTACCC
635 TCATTCAATACAATATAATTCAGTACAATTTCATAAAATTTGTCGAACATTTACATCATTTACCC
23460663 AATCCAATCATATGTAAATTTATTTGTA
700 AATCCAATCATATGTAAATTTATTTGTA
23460691 AAAACCATCTTTTTAGACACAACTTGCATTCTATTCTATACATTACATTCCTATCAAAATAGGTA
1 AAAACCATCTTTTTAGACACAACTTGCATTCTATTCTATACATTACATTCCTATCAAAATAGGTA
*
23460756 CAATTCCAACACAAGTTAATTTATCTATTAACCATTAGCATCCATAAACCTAACATTCTCTCAGC
66 CAATTCCAACACAAGTTAATTTATCTATTAACCATTAGCATCCATAAACCTAACATTCTCTCAAC
23460821 TTGCACTCATAGATATATCATACATCTATTATCATTCAAATCAAATACTTACTCACATCACCACC
131 TTGCACTCATAGATATATCATACATCTATTATCATTCAAATCAAATACTTACTCACATCACCACC
23460886 TATATACATATCATAAACACATTCCAAATAGGCATACATATTATTTAAGTCTCATATGCATGTCA
196 TATATACATATCATAAACACATTCCAAATAGGCATACATATTATTTAAGTCTCATATGCATGTCA
23460951 TATAAACATTTAAAATAAGCATTACATGTAGATCATTTTATCATCAACCAAAATAAACACTTATC
261 TATAAACATTTAAAATAAGCATTACATGTAGATCATTTTATCATCAACCAAAATAAACACTTATC
*
23461016 CACATTGAAACCTATATACATGCCACATAACTAATTCTAGAACAATTTAAAAGTCTACAGAGACT
326 CACATTGAAACCTATATACATGCCACATAACTAATTCTAGAACAATTTAAAAGTCTACCGAGACT
*
23461081 GAAGCTAGATAGTATAAGCTCTGAAGATGATATGATTGTCAAGTTTCGCAAAACGATAATTACAA
391 GAAGCTAGATAGTATAAGCTCTGAAGATGATATGATTGTCGAGTTTCGCAAAACGATAATTACAA
23461146 AAACAAAAATGAAACAGAGTAAGCATTACTAATGCTTAGTAAGCTCATAGGTACTTAAACGGCGA
456 AAACAAAAATGAAACAGAGTAAGCATTACTAATGCTTAGTAAGCTCATAGGTACTTAAACGGCGA
23461211 ACTTACCTCAATTCATAATTAAACATATTAAAACTACCAATTCAACTAAGTCTTATCATAACATT
521 ACTTACCTCAATTCATAATTAAACATATTAAAACTACCAATTCAACTAAGTCTTATCATAACATT
23461276 TCATTTACATAGGTTGAGCATTTCCTAATACAATTATATAATTGTCAATTCATTCAATACAATAT
586 TCATTTACATAGGTTGAGCATTTCCTAATACAATTATATAATTGTCAATTCATTCAATACAATAT
23461341 AATTCAGTACAATTTCATAAAATTTGTCGAACATTTACATCATTTACCCAATCCAATCATATGTA
651 AATTCAGTACAATTTCATAAAATTTGTCGAACATTTACATCATTTACCCAATCCAATCATATGTA
23461406 AATTTATTTGTA
716 AATTTATTTGTA
23461418 AAAACCATCTTTTTAGACACAACTTGCATTCTATTCTATACATTACATTCCTATCAAAATAGGTA
1 AAAACCATCTTTTTAGACACAACTTGCATTCTATTCTATACATTACATTCCTATCAAAATAGGTA
23461483 CAATTCCAACACAAGTTAATTTATCTATTAACCATTAGCATCCATAAACCTAACATTCTCTCAAC
66 CAATTCCAACACAAGTTAATTTATCTATTAACCATTAGCATCCATAAACCTAACATTCTCTCAAC
23461548 TTGCACTCATAGATATATCATACATCTATTATCATTCAAATCAAATACTTACTCACATCACCACC
131 TTGCACTCATAGATATATCATACATCTATTATCATTCAAATCAAATACTTACTCACATCACCACC
* *
23461613 TATATGCATATCATAAACACATTCCAAATAGGCATACATGTTATTTAAGTCTCATATGCATGTCA
196 TATATACATATCATAAACACATTCCAAATAGGCATACATATTATTTAAGTCTCATATGCATGTCA
23461678 TATAAACATTTAAAATAAGCATTACATGTAGATCATTTTATCATCAACCAAAATAAACACTTATC
261 TATAAACATTTAAAATAAGCATTACATGTAGATCATTTTATCATCAACCAAAATAAACACTTATC
23461743 CACATTGAAACCTATATACATGCCACATAACTAATTCTAGAACAATTTAAAAGTCTACCGAGACT
326 CACATTGAAACCTATATACATGCCACATAACTAATTCTAGAACAATTTAAAAGTCTACCGAGACT
*
23461808 GAAGCTAGATAGTATAAGCTCTGAAGATGATATGATTGTCGAGTTTCACAAAACGATAATTACAA
391 GAAGCTAGATAGTATAAGCTCTGAAGATGATATGATTGTCGAGTTTCGCAAAACGATAATTACAA
23461873 AAACAAAAATGAAACAGAGTAAGCATTACTAATGCTTAGTAAGCTCATAGGTACTTAAACGGCGA
456 AAACAAAAATGAAACAGAGTAAGCATTACTAATGCTTAGTAAGCTCATAGGTACTTAAACGGCGA
*
23461938 ACTTACCTCAATTCATAATTAAACATATTAAAGCTACCAATTCAACTAAGTCTTATCATAACATT
521 ACTTACCTCAATTCATAATTAAACATATTAAAACTACCAATTCAACTAAGTCTTATCATAACATT
23462003 TCATTTACATAGGTTGAGCATTTCCTAATACAATTATATAATTGTCAATTCATTCAATACAATAT
586 TCATTTACATAGGTTGAGCATTTCCTAATACAATTATATAATTGTCAATTCATTCAATACAATAT
*
23462068 AATTCAGTACAATTTCATAAAATTTGTAGAACATTTACATCATTTACCCAATCCAATCATATGTA
651 AATTCAGTACAATTTCATAAAATTTGTCGAACATTTACATCATTTACCCAATCCAATCATATGTA
23462133 AATTTATTTGTA
716 AATTTATTTGTA
23462145 AAAAC
1 AAAAC
23462150 ACATATTTCC
Statistics
Matches: 2163, Mismatches: 23, Indels: 32
0.98 0.01 0.01
Matches are distributed among these distances:
727 1436 0.66
728 1 0.00
731 1 0.00
732 2 0.00
733 1 0.00
734 4 0.00
736 4 0.00
737 1 0.00
738 2 0.00
739 1 0.00
742 1 0.00
743 709 0.33
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (727 bp):
AAAACCATCTTTTTAGACACAACTTGCATTCTATTCTATACATTACATTCCTATCAAAATAGGTA
CAATTCCAACACAAGTTAATTTATCTATTAACCATTAGCATCCATAAACCTAACATTCTCTCAAC
TTGCACTCATAGATATATCATACATCTATTATCATTCAAATCAAATACTTACTCACATCACCACC
TATATACATATCATAAACACATTCCAAATAGGCATACATATTATTTAAGTCTCATATGCATGTCA
TATAAACATTTAAAATAAGCATTACATGTAGATCATTTTATCATCAACCAAAATAAACACTTATC
CACATTGAAACCTATATACATGCCACATAACTAATTCTAGAACAATTTAAAAGTCTACCGAGACT
GAAGCTAGATAGTATAAGCTCTGAAGATGATATGATTGTCGAGTTTCGCAAAACGATAATTACAA
AAACAAAAATGAAACAGAGTAAGCATTACTAATGCTTAGTAAGCTCATAGGTACTTAAACGGCGA
ACTTACCTCAATTCATAATTAAACATATTAAAACTACCAATTCAACTAAGTCTTATCATAACATT
TCATTTACATAGGTTGAGCATTTCCTAATACAATTATATAATTGTCAATTCATTCAATACAATAT
AATTCAGTACAATTTCATAAAATTTGTCGAACATTTACATCATTTACCCAATCCAATCATATGTA
AATTTATTTGTA
Found at i:23462287 original size:22 final size:22
Alignment explanation
Indices: 23462259--23462337 Score: 104
Period size: 22 Copynumber: 3.6 Consensus size: 22
23462249 ACCACACCAA
* *
23462259 TAGGCACCGAAGTGTTGAGTAG
1 TAGGCACCGAAGTGTTAAATAG
* * *
23462281 TAGGCACCAAAGTGTTAAACAA
1 TAGGCACCGAAGTGTTAAATAG
*
23462303 TAGGCACTGAAGTGTTAAATAG
1 TAGGCACCGAAGTGTTAAATAG
23462325 TAGGCACCGAAGT
1 TAGGCACCGAAGT
23462338 TCTTAACAAT
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.22
Consensus pattern (22 bp):
TAGGCACCGAAGTGTTAAATAG
Found at i:23463262 original size:16 final size:17
Alignment explanation
Indices: 23463232--23463264 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23463222 CTTTCAGGTG
*
23463232 AAAATGATGGGTGATGA
1 AAAATGATGGATGATGA
23463249 AAAATGAT-GATGATGA
1 AAAATGATGGATGATGA
23463265 TGATGATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.24
Consensus pattern (17 bp):
AAAATGATGGATGATGA
Found at i:23468201 original size:24 final size:25
Alignment explanation
Indices: 23468161--23468213 Score: 90
Period size: 24 Copynumber: 2.1 Consensus size: 25
23468151 AATTGGACAC
23468161 CTTACACATAGAATTCCTCCATGAAA
1 CTTACACA-AGAATTCCTCCATGAAA
23468187 CTTACAC-AGAATTCCTCCATGAAA
1 CTTACACAAGAATTCCTCCATGAAA
23468211 CTT
1 CTT
23468214 TATCGCATGC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 20 0.74
26 7 0.26
ACGTcount: A:0.36, C:0.28, G:0.08, T:0.28
Consensus pattern (25 bp):
CTTACACAAGAATTCCTCCATGAAA
Found at i:23473871 original size:106 final size:106
Alignment explanation
Indices: 23473686--23473897 Score: 415
Period size: 106 Copynumber: 2.0 Consensus size: 106
23473676 TTCTGAGGTA
23473686 TTCTGTATGTTTAATTGCTCTCGGAAATATTTTTACGGTTATTGCCCTACTGATAAAATCCTTAT
1 TTCTGTATGTTTAATTGCTCTCGGAAATATTTTTACGGTTATTGCCCTACTGATAAAATCCTTAT
23473751 TTTATGGGAGTGCTTTCTAATCATGATGTATAGACGAAAGT
66 TTTATGGGAGTGCTTTCTAATCATGATGTATAGACGAAAGT
23473792 TTCTGTATGTTTAATTGCTCTCGGAAATATTTTTACGGTTATTGCCCTACTGATAAAATCCTTAT
1 TTCTGTATGTTTAATTGCTCTCGGAAATATTTTTACGGTTATTGCCCTACTGATAAAATCCTTAT
*
23473857 TTTATGGGAGTGCTTTCTAATCATGATGTATAGATGAAAGT
66 TTTATGGGAGTGCTTTCTAATCATGATGTATAGACGAAAGT
23473898 GTTGATAGCC
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 105 1.00
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (106 bp):
TTCTGTATGTTTAATTGCTCTCGGAAATATTTTTACGGTTATTGCCCTACTGATAAAATCCTTAT
TTTATGGGAGTGCTTTCTAATCATGATGTATAGACGAAAGT
Found at i:23479516 original size:41 final size:41
Alignment explanation
Indices: 23479379--23479540 Score: 139
Period size: 42 Copynumber: 3.9 Consensus size: 41
23479369 GCACATAAGT
* *
23479379 GCTAAACT-GAAACCCATAAAGGTTGAA-CGAAAGCTCAGAAGA
1 GCTAAA-TGGAAACCCATAAGGGTTAAACCG-AAGCTCA-AAGA
* * * ** *
23479421 GCTAAATGAAAACTCATGAGGGTTAAATTGAAGCTTGAAAGA
1 GCTAAATGGAAACCCATAAGGGTTAAACCGAAGC-TCAAAGA
* * * *
23479463 GCTGAATTGAAACCCAAAAGGGTTATACCGAAGCTCAAAGA
1 GCTAAATGGAAACCCATAAGGGTTAAACCGAAGCTCAAAGA
* * *
23479504 GCTAAATGGAAACCCATTAGGGTTAAACGGAAACTCA
1 GCTAAATGGAAACCCATAAGGGTTAAACCGAAGCTCA
23479541 TATAAGTTAA
Statistics
Matches: 93, Mismatches: 24, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
41 37 0.40
42 53 0.57
43 3 0.03
ACGTcount: A:0.43, C:0.17, G:0.22, T:0.19
Consensus pattern (41 bp):
GCTAAATGGAAACCCATAAGGGTTAAACCGAAGCTCAAAGA
Found at i:23481572 original size:34 final size:34
Alignment explanation
Indices: 23481529--23481598 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
23481519 TTACAAGAAG
23481529 TTGTGATTCAACATAACCTTTCTATGATAAATTT
1 TTGTGATTCAACATAACCTTTCTATGATAAATTT
23481563 TTGTGATTCAACATAACCTTTCTATGATAAATTT
1 TTGTGATTCAACATAACCTTTCTATGATAAATTT
23481597 TT
1 TT
23481599 CATGTATTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.46
Consensus pattern (34 bp):
TTGTGATTCAACATAACCTTTCTATGATAAATTT
Found at i:23482129 original size:8 final size:8
Alignment explanation
Indices: 23482112--23482141 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
23482102 TCTTAAAGGT
*
23482112 TAATTTAG
1 TAATTAAG
23482120 TAATTAAG
1 TAATTAAG
23482128 TAATTAAG
1 TAATTAAG
23482136 TAATTA
1 TAATTA
23482142 TAAACATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (8 bp):
TAATTAAG
Found at i:23487852 original size:36 final size:36
Alignment explanation
Indices: 23487805--23487882 Score: 138
Period size: 36 Copynumber: 2.2 Consensus size: 36
23487795 GTTCAGGGAC
*
23487805 TCCATCGCGACCACCACCTTCGAGGAGTTCGGGAAA
1 TCCATCGCGACCACCACCTTCAAGGAGTTCGGGAAA
*
23487841 TCCATCGCGACCACCACCTTCAAGGAGTTCGGGAAC
1 TCCATCGCGACCACCACCTTCAAGGAGTTCGGGAAA
23487877 TCCATC
1 TCCATC
23487883 TCGTCCGTCG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.24, C:0.36, G:0.22, T:0.18
Consensus pattern (36 bp):
TCCATCGCGACCACCACCTTCAAGGAGTTCGGGAAA
Found at i:23496031 original size:18 final size:18
Alignment explanation
Indices: 23496005--23496040 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
23495995 GGTACATCTG
* *
23496005 CATATATACATTTGCATA
1 CATACATACATATGCATA
23496023 CATACATACATATGCATA
1 CATACATACATATGCATA
23496041 AACTATTTTG
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:0.42, C:0.19, G:0.06, T:0.33
Consensus pattern (18 bp):
CATACATACATATGCATA
Found at i:23500281 original size:14 final size:14
Alignment explanation
Indices: 23500262--23500290 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
23500252 AATAATTAAG
23500262 AAAAAGGACTAAAT
1 AAAAAGGACTAAAT
23500276 AAAAAGGACTAAAT
1 AAAAAGGACTAAAT
23500290 A
1 A
23500291 GGAAATTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AAAAAGGACTAAAT
Done.