Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 96 of 129
Found at i:17219624 original size:23 final size:22
Alignment explanation
Indices: 17219577--17219626 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
17219567 TACTATTAAC
*
17219577 AATAATAACAAATAATAATAAT
1 AATAATAACAAATAATAACAAT
* *
17219599 AATACTAACAAAATAATAACAGT
1 AATAATAAC-AAATAATAACAAT
17219622 AATAA
1 AATAA
17219627 AAATCGATTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.66, C:0.08, G:0.02, T:0.24
Consensus pattern (22 bp):
AATAATAACAAATAATAACAAT
Found at i:17221081 original size:26 final size:25
Alignment explanation
Indices: 17221033--17221089 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 25
17221023 TTTAGGGTTA
17221033 GTTTAAGGTCTAGGTTAGGGTTTT-G
1 GTTT-AGGTCTAGGTTAGGGTTTTAG
17221058 GTTTAGGATCTAGGGTTAGGGTTTTAG
1 GTTTAGG-TCTA-GGTTAGGGTTTTAG
17221085 GTTTA
1 GTTTA
17221090 AGTTTGGGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
24 3 0.10
25 8 0.28
26 12 0.41
27 6 0.21
ACGTcount: A:0.18, C:0.04, G:0.35, T:0.44
Consensus pattern (25 bp):
GTTTAGGTCTAGGTTAGGGTTTTAG
Found at i:17221135 original size:20 final size:20
Alignment explanation
Indices: 17221106--17221143 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17221096 GGGTTTGGAG
17221106 TTTAGAGTTTAAGGTTTGGC
1 TTTAGAGTTTAAGGTTTGGC
* *
17221126 TTTAGGGTTTAGGGTTTG
1 TTTAGAGTTTAAGGTTTG
17221144 AGGATTGAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.03, G:0.34, T:0.47
Consensus pattern (20 bp):
TTTAGAGTTTAAGGTTTGGC
Found at i:17221135 original size:27 final size:25
Alignment explanation
Indices: 17221023--17221170 Score: 101
Period size: 27 Copynumber: 5.7 Consensus size: 25
17221013 GTTTTAAGGC
*
17221023 TTTAGGG-TTA-GTTTAAGGTCTAGG
1 TTTAGGGTTTAGGTTTAAGGT-TTGG
* *
17221047 -TTAGGGTTTTGGTTT-AGGATCTAGG
1 TTTAGGGTTTAGGTTTAAGG-T-TTGG
*
17221072 GTTAGGGTTTTAGGTTTAA-GTTTGGGG
1 TTTAGGG-TTTAGGTTTAAGGTTT--GG
17221099 TTT-GGAGTTTAGAGTTTAAGGTTTGG
1 TTTAGG-GTTTAG-GTTTAAGGTTTGG
* *
17221125 CTTTAGGGTTTAGGGTTTGAGGATTGAG
1 -TTTAGGGTTTA-GGTTTAAGGTTTG-G
17221153 TTTAGGGTTTAGGTTTAA
1 TTTAGGGTTTAGGTTTAA
17221171 AGCTTCATAA
Statistics
Matches: 102, Mismatches: 7, Indels: 28
0.74 0.05 0.20
Matches are distributed among these distances:
23 6 0.06
24 5 0.05
25 11 0.11
26 22 0.22
27 49 0.48
28 9 0.09
ACGTcount: A:0.18, C:0.02, G:0.36, T:0.44
Consensus pattern (25 bp):
TTTAGGGTTTAGGTTTAAGGTTTGG
Found at i:17223377 original size:15 final size:17
Alignment explanation
Indices: 17223343--17223379 Score: 51
Period size: 15 Copynumber: 2.2 Consensus size: 17
17223333 CCAAGATGGC
17223343 TAAAGCCCATAACTAAAA
1 TAAAGCCCATAAC-AAAA
17223361 TAAAGCCC-TAA-AAAA
1 TAAAGCCCATAACAAAA
17223376 TAAA
1 TAAA
17223380 AATAAAGCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 8 0.42
17 3 0.16
18 8 0.42
ACGTcount: A:0.59, C:0.19, G:0.05, T:0.16
Consensus pattern (17 bp):
TAAAGCCCATAACAAAA
Found at i:17223383 original size:21 final size:22
Alignment explanation
Indices: 17223357--17223401 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
17223347 GCCCATAACT
*
17223357 AAAATAAAGCCCTAAA-AAATA
1 AAAATAAAGCCCAAAATAAATA
17223378 AAAATAAAGCCCAAAATAAATA
1 AAAATAAAGCCCAAAATAAATA
17223400 AA
1 AA
17223402 TAAATAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.69, C:0.13, G:0.04, T:0.13
Consensus pattern (22 bp):
AAAATAAAGCCCAAAATAAATA
Found at i:17223395 original size:18 final size:18
Alignment explanation
Indices: 17223343--17223397 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 18
17223333 CCAAGATGGC
*
17223343 TAAAGCCCATAACT-AAAA
1 TAAAGCCCA-AAATAAAAA
17223361 TAAAGCCCTAAAAAATAAAAA
1 TAAAGCCC---AAAATAAAAA
17223382 TAAAGCCCAAAATAAA
1 TAAAGCCCAAAATAAA
17223398 TAAATAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
18 16 0.50
20 3 0.09
21 13 0.41
ACGTcount: A:0.62, C:0.18, G:0.05, T:0.15
Consensus pattern (18 bp):
TAAAGCCCAAAATAAAAA
Found at i:17224296 original size:42 final size:38
Alignment explanation
Indices: 17224234--17224312 Score: 88
Period size: 41 Copynumber: 2.0 Consensus size: 38
17224224 AATTAGAAAA
*
17224234 AAAATAAAAAATAAACCTAGTAGCAAGAAGAAAAAATAAGC
1 AAAATAAAAAATAAAACTAGTA-CAA-AAG-AAAAATAAGC
*
17224275 AAAATAAAAAA-AGATAACTAGTACCAAAGAAAAATAAG
1 AAAATAAAAAATA-A-AACTAGTACAAAAGAAAAATAAG
17224313 TGAAAGAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
39 9 0.26
40 4 0.12
41 14 0.41
42 7 0.21
ACGTcount: A:0.67, C:0.09, G:0.11, T:0.13
Consensus pattern (38 bp):
AAAATAAAAAATAAAACTAGTACAAAAGAAAAATAAGC
Found at i:17224471 original size:17 final size:16
Alignment explanation
Indices: 17224449--17224485 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
17224439 TAGGAAAAAT
*
17224449 AAAACAAATATGAGTAA
1 AAAACAAAT-TGAGCAA
17224466 AAAACAAATTGAGCAA
1 AAAACAAATTGAGCAA
17224482 AAAA
1 AAAA
17224486 AAGCCAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.68, C:0.08, G:0.11, T:0.14
Consensus pattern (16 bp):
AAAACAAATTGAGCAA
Found at i:17224486 original size:17 final size:17
Alignment explanation
Indices: 17224449--17224486 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
17224439 TAGGAAAAAT
*
17224449 AAAACAAATATGAGTAA
1 AAAACAAATATGAGAAA
17224466 AAAACAAAT-TGAGCAAA
1 AAAACAAATATGAG-AAA
17224483 AAAA
1 AAAA
17224487 AGCCAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.68, C:0.08, G:0.11, T:0.13
Consensus pattern (17 bp):
AAAACAAATATGAGAAA
Found at i:17224920 original size:57 final size:57
Alignment explanation
Indices: 17224838--17224969 Score: 237
Period size: 57 Copynumber: 2.3 Consensus size: 57
17224828 GAATCTTGCA
* *
17224838 AAGCCTAGTTTTGTTTGTAATTGCTAGCTCTTTGTCCTTTTTATTCTTACAAAAGCTT
1 AAGCCTA-TGTTGTTTGTAATTGCTAGCTCTCTGTCCTTTTTATTCTTACAAAAGCTT
17224896 AAGCCTATGTTGTTTGTAATTGCTAGCTCTCTGTCCTTTTTATTCTTACAAAAGCTT
1 AAGCCTATGTTGTTTGTAATTGCTAGCTCTCTGTCCTTTTTATTCTTACAAAAGCTT
17224953 AAGCCTATGTTGTTTGT
1 AAGCCTATGTTGTTTGT
17224970 TATTCATATC
Statistics
Matches: 72, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
57 65 0.90
58 7 0.10
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.47
Consensus pattern (57 bp):
AAGCCTATGTTGTTTGTAATTGCTAGCTCTCTGTCCTTTTTATTCTTACAAAAGCTT
Found at i:17225304 original size:3 final size:3
Alignment explanation
Indices: 17225296--17225339 Score: 70
Period size: 3 Copynumber: 14.0 Consensus size: 3
17225286 TAAAAAGTAC
17225296 ATA ATA ATA TATA ATA ATAA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA -ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
17225340 GAATTTTAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
3 33 0.85
4 6 0.15
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:17230109 original size:22 final size:22
Alignment explanation
Indices: 17230084--17230230 Score: 93
Period size: 22 Copynumber: 6.7 Consensus size: 22
17230074 ACTGGTATGC
*
17230084 AAGCCTAAATTAGTTGGCATAT
1 AAGCCTAAATTAGCTGGCATAT
* *
17230106 AAG-CTCAATTTACCTGGCATAT
1 AAGCCT-AAATTAGCTGGCATAT
* * * **
17230128 AAG-CTCAGATTAGTTGACATGC
1 AAGCCT-AAATTAGCTGGCATAT
*
17230150 AAGCCTAAATT-GTTGGCATAT
1 AAGCCTAAATTAGCTGGCATAT
** * * **
17230171 AAGCCTAGTTTAACTAGCACGT
1 AAGCCTAAATTAGCTGGCATAT
*
17230193 AAGCCTAAATTAGCTGGCATGT
1 AAGCCTAAATTAGCTGGCATAT
* *
17230215 AAGCCCAGATTAGCTG
1 AAGCCTAAATTAGCTG
17230231 AAAAGTATAC
Statistics
Matches: 94, Mismatches: 28, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
21 18 0.19
22 74 0.79
23 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.29
Consensus pattern (22 bp):
AAGCCTAAATTAGCTGGCATAT
Found at i:17230205 original size:65 final size:66
Alignment explanation
Indices: 17230080--17230219 Score: 160
Period size: 65 Copynumber: 2.1 Consensus size: 66
17230070 TTTAACTGGT
* * * * *
17230080 ATGCAAGCCTAAATTAGTTGGCATATAAGCTCAATTTACCTGGCATATAAGCTCAGATTAGTTGA
1 ATGCAAGCCTAAATTAGTTGGCATATAAGCTCAATTTAACTAGCACATAAGCTCAAATTAGCTGA
17230145 C
66 C
* *
17230146 ATGCAAGCCTAAATT-GTTGGCATATAAGC-CTAGTTTAACTAGCACGTAAGC-CTAAATTAGCT
1 ATGCAAGCCTAAATTAGTTGGCATATAAGCTC-AATTTAACTAGCACATAAGCTC-AAATTAGCT
*
17230208 GGC
64 GAC
*
17230211 ATGTAAGCC
1 ATGCAAGCC
17230220 CAGATTAGCT
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
64 2 0.03
65 46 0.73
66 15 0.24
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (66 bp):
ATGCAAGCCTAAATTAGTTGGCATATAAGCTCAATTTAACTAGCACATAAGCTCAAATTAGCTGA
C
Found at i:17230424 original size:32 final size:32
Alignment explanation
Indices: 17230387--17230516 Score: 154
Period size: 32 Copynumber: 4.0 Consensus size: 32
17230377 TTAAGTCCAA
* *
17230387 CAATGAAAATTTAAGCCCAATTTAGCTAGCAC
1 CAATGAAAATTTAAGCCTAATTTAGCTGGCAC
17230419 CAATGAAAATTTAAGCCTAGA-TTAGCTGGCAAC
1 CAATGAAAATTTAAGCCTA-ATTTAGCTGGC-AC
* * * * *
17230452 CAATAAAAATTTAAGCCTAGTTTAGCGGGTAT
1 CAATGAAAATTTAAGCCTAATTTAGCTGGCAC
* *
17230484 CAATGAAAATTTAAGCTTAGTTTAGCTGGCAC
1 CAATGAAAATTTAAGCCTAATTTAGCTGGCAC
17230516 C
1 C
17230517 TAAATTTAAG
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
32 55 0.66
33 28 0.34
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.28
Consensus pattern (32 bp):
CAATGAAAATTTAAGCCTAATTTAGCTGGCAC
Found at i:17230496 original size:65 final size:65
Alignment explanation
Indices: 17230387--17230514 Score: 175
Period size: 65 Copynumber: 2.0 Consensus size: 65
17230377 TTAAGTCCAA
* *
17230387 CAATGAAAATTTAAGCCCAATTTAGCTAGCACCAATGAAAATTTAAGCCTAGATTAGCTGGCAAC
1 CAATAAAAATTTAAGCCCAATTTAGCGAGCACCAATGAAAATTTAAGCCTAGATTAGCTGGCAAC
* * * * * * *
17230452 CAATAAAAATTTAAGCCTAGTTTAGCGGGTATCAATGAAAATTTAAGCTTAGTTTAGCTGGCA
1 CAATAAAAATTTAAGCCCAATTTAGCGAGCACCAATGAAAATTTAAGCCTAGATTAGCTGGCA
17230515 CCTAAATTTA
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
65 54 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.28
Consensus pattern (65 bp):
CAATAAAAATTTAAGCCCAATTTAGCGAGCACCAATGAAAATTTAAGCCTAGATTAGCTGGCAAC
Found at i:17230814 original size:14 final size:14
Alignment explanation
Indices: 17230797--17230836 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
17230787 TAAAACATGT
17230797 AAAATAAAAAAGCA
1 AAAATAAAAAAGCA
**
17230811 AAAATAAAAAAATA
1 AAAATAAAAAAGCA
*
17230825 AAAGTAAAAAAG
1 AAAATAAAAAAG
17230837 AATGCAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.80, C:0.03, G:0.07, T:0.10
Consensus pattern (14 bp):
AAAATAAAAAAGCA
Found at i:17233311 original size:198 final size:197
Alignment explanation
Indices: 17232969--17233358 Score: 683
Period size: 198 Copynumber: 2.0 Consensus size: 197
17232959 AAAACAAAGA
*
17232969 ACAAATAAATAAGAATAAAAGTATAAATAAGAATAAAATTTTGATAAAAACAAACTATAAAAACT
1 ACAAATAAATAAGAATAAAAGTATAAATAAGAATAAAATTTTGATAAAAACAAAATATAAAAACT
17233034 ATAAAAATTCACATTTTTAGAGAAATAAAAAGGGTGCTTACTTTGAAAATCGACCTAGATATTAG
66 ATAAAAATTCACATTTTTAGAGAAATAAAAAGGGTGCTTACTTTGAAAATCGACCTAGATATTAG
* *
17233099 AGATTTTTCTATGTTTTCCTTTTTCTTGTTTGTTTCATGCATCATTCTTGACATAAAAGCATCAA
131 AGATTTTGCTATGTTTTCCTTTTTCTTGTTTATTTCATGCATCATTCTTGACATAAAAGCATCAA
17233164 AT
196 AT
* *
17233166 ACAAATAAATAATAATAAAAGTATAAATAAGAATAAAATTTTGATAAAAATAAAATATATAAAAC
1 ACAAATAAATAAGAATAAAAGTATAAATAAGAATAAAATTTTGATAAAAACAAAATATA-AAAAC
* * *
17233231 TATAAAAATTCA-TTTGTTTAGAGAAATAAAAAGGGTGCTTGCTTTGAAAATCTACCTAGATATT
65 TATAAAAATTCACATT-TTTAGAGAAATAAAAAGGGTGCTTACTTTGAAAATCGACCTAGATATT
17233295 AGAGATTTTGCTATGTTTTCCTTTTTCTTGTTTATTTCATGCATCATTCTTGACATAAAAGCAT
129 AGAGATTTTGCTATGTTTTCCTTTTTCTTGTTTATTTCATGCATCATTCTTGACATAAAAGCAT
17233359 TAAAGATATA
Statistics
Matches: 183, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
197 58 0.32
198 125 0.68
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (197 bp):
ACAAATAAATAAGAATAAAAGTATAAATAAGAATAAAATTTTGATAAAAACAAAATATAAAAACT
ATAAAAATTCACATTTTTAGAGAAATAAAAAGGGTGCTTACTTTGAAAATCGACCTAGATATTAG
AGATTTTGCTATGTTTTCCTTTTTCTTGTTTATTTCATGCATCATTCTTGACATAAAAGCATCAA
AT
Found at i:17235495 original size:20 final size:20
Alignment explanation
Indices: 17235470--17235508 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
17235460 AAATTCACAG
*
17235470 TTGCTTGTGTTCTTTGCTTC
1 TTGCTTGTGTTCTTAGCTTC
17235490 TTGCTTGTGTTCTTAGCTT
1 TTGCTTGTGTTCTTAGCTT
17235509 TAAATTCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.03, C:0.18, G:0.21, T:0.59
Consensus pattern (20 bp):
TTGCTTGTGTTCTTAGCTTC
Found at i:17236363 original size:14 final size:14
Alignment explanation
Indices: 17236344--17236377 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
17236334 CATTTTCCCA
17236344 TGAAACCCCAAATT
1 TGAAACCCCAAATT
*
17236358 TGAAACCCTAAATT
1 TGAAACCCCAAATT
17236372 TGAAAC
1 TGAAAC
17236378 TCTGAACCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.44, C:0.24, G:0.09, T:0.24
Consensus pattern (14 bp):
TGAAACCCCAAATT
Found at i:17239697 original size:12 final size:12
Alignment explanation
Indices: 17239680--17239706 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
17239670 AAAGGGAGGA
17239680 GAAATGTTTTAT
1 GAAATGTTTTAT
17239692 GAAATGTTTTAT
1 GAAATGTTTTAT
17239704 GAA
1 GAA
17239707 TATATTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.44
Consensus pattern (12 bp):
GAAATGTTTTAT
Found at i:17242050 original size:19 final size:19
Alignment explanation
Indices: 17242021--17242069 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
17242011 AACAAAATCC
17242021 CAAAAAA-AAAAA-AAAAA
1 CAAAAAACAAAAAGAAAAA
*
17242038 CAAATAAACAAAAAGAACAA
1 CAAA-AAACAAAAAGAAAAA
*
17242058 GAAAAAACAAAA
1 CAAAAAACAAAA
17242070 TTTTTCAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 4 0.15
18 3 0.11
19 13 0.48
20 7 0.26
ACGTcount: A:0.84, C:0.10, G:0.04, T:0.02
Consensus pattern (19 bp):
CAAAAAACAAAAAGAAAAA
Found at i:17242356 original size:37 final size:37
Alignment explanation
Indices: 17242312--17242382 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
17242302 AAATAATAAG
* * *
17242312 ATAGTGCATGCACTCCATTTCATGCATATTTTAATAT
1 ATAGTGCATGCACTCCATCTCAAGCATATCTTAATAT
*
17242349 ATAGTGCATGCATTCCATCTCAAGCATATCTTAA
1 ATAGTGCATGCACTCCATCTCAAGCATATCTTAA
17242383 GGTAGTGTCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (37 bp):
ATAGTGCATGCACTCCATCTCAAGCATATCTTAATAT
Found at i:17246020 original size:14 final size:14
Alignment explanation
Indices: 17245984--17246101 Score: 90
Period size: 14 Copynumber: 8.6 Consensus size: 14
17245974 GGGGGCATGC
17245984 AAAGAAAAAGAAAG
1 AAAGAAAAAGAAAG
*
17245998 AGAAAAAAAAGAAAG
1 A-AAGAAAAAGAAAG
17246013 AAAGAAAAAGAAAG
1 AAAGAAAAAGAAAG
17246027 -AA-AAAAAGAAA-
1 AAAGAAAAAGAAAG
* * *
17246038 AAGAAAAAAACAAAC
1 AA-AGAAAAAGAAAG
17246053 AAAGCAAAAATGAAA-
1 AAAG-AAAAA-GAAAG
*
17246068 AATGAAAAA-AAA-
1 AAAGAAAAAGAAAG
17246080 AATAG--AAAGAAAG
1 AA-AGAAAAAGAAAG
17246093 AAAGAAAAA
1 AAAGAAAAA
17246102 AATTTTGATT
Statistics
Matches: 85, Mismatches: 7, Indels: 24
0.73 0.06 0.21
Matches are distributed among these distances:
11 3 0.04
12 20 0.24
13 6 0.07
14 30 0.35
15 23 0.27
16 3 0.04
ACGTcount: A:0.80, C:0.03, G:0.15, T:0.03
Consensus pattern (14 bp):
AAAGAAAAAGAAAG
Found at i:17246026 original size:18 final size:18
Alignment explanation
Indices: 17245990--17246043 Score: 81
Period size: 18 Copynumber: 2.9 Consensus size: 18
17245980 ATGCAAAGAA
*
17245990 AAAGAAAGAGAAAAAAAAG
1 AAAGAAAGA-AAAAGAAAG
17246009 AAAGAAAGAAAAAGAAAG
1 AAAGAAAGAAAAAGAAAG
*
17246027 AAAAAAAGAAAAAGAAA
1 AAAGAAAGAAAAAGAAA
17246044 AAAACAAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
18 24 0.73
19 9 0.27
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (18 bp):
AAAGAAAGAAAAAGAAAG
Found at i:17246026 original size:29 final size:28
Alignment explanation
Indices: 17245984--17246095 Score: 104
Period size: 29 Copynumber: 3.9 Consensus size: 28
17245974 GGGGGCATGC
17245984 AAAGAAAAAGAAAGAGAAAAAA-AAGAAAG
1 AAAGAAAAAGAAAGA-AAAAAAGAA-AAAG
17246013 AAAGAAAAAGAAAGAAAAAAAGAAAAAG
1 AAAGAAAAAGAAAGAAAAAAAGAAAAAG
* * * *
17246041 AAAAAAACAAACAAAGCAAAAATGAAAAATG
1 -AAAGAA-AAAGAAAGAAAAAAAGAAAAA-G
*
17246072 AAA-AAAAA-AATAGAAAGAAAGAAA
1 AAAGAAAAAGAA-AGAAAAAAAGAAA
17246096 GAAAAAAATT
Statistics
Matches: 71, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
27 2 0.03
28 23 0.32
29 24 0.34
30 21 0.30
31 1 0.01
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (28 bp):
AAAGAAAAAGAAAGAAAAAAAGAAAAAG
Found at i:17246228 original size:19 final size:19
Alignment explanation
Indices: 17246206--17246249 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
17246196 CTAAAAAGTT
17246206 AAAAAAAATAAAAAAGAGA
1 AAAAAAAATAAAAAAGAGA
*** *
17246225 AAAAATCCTTAAAAAGAGA
1 AAAAAAAATAAAAAAGAGA
17246244 AAAAAA
1 AAAAAA
17246250 TTCCTTCAAG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.77, C:0.05, G:0.09, T:0.09
Consensus pattern (19 bp):
AAAAAAAATAAAAAAGAGA
Found at i:17246248 original size:21 final size:20
Alignment explanation
Indices: 17246214--17246255 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
17246204 TTAAAAAAAA
*
17246214 TAAAAAAGAGAAAAAATCCT
1 TAAAAAAGAAAAAAAATCCT
*
17246234 TAAAAAGAGAAAAAAATTCCT
1 TAAAAA-AGAAAAAAAATCCT
17246255 T
1 T
17246256 CAAGCCCTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.19
Consensus pattern (20 bp):
TAAAAAAGAAAAAAAATCCT
Found at i:17246591 original size:18 final size:16
Alignment explanation
Indices: 17246570--17246654 Score: 64
Period size: 17 Copynumber: 4.9 Consensus size: 16
17246560 AAAATGTGAA
17246570 AAAATGAAAAAGGAAAAG
1 AAAATGAAAAA--AAAAG
*
17246588 AAAATGAAAACAAAGAAC
1 AAAATGAAAA-AAA-AAG
* *
17246606 ATAATGAAAAAAAAGG
1 AAAATGAAAAAAAAAG
17246622 AAAA-GAAAAAAGAAAAG
1 AAAATG-AAAAA-AAAAG
*
17246639 AAAAGGAAAAATAAAA
1 AAAATGAAAAA-AAAA
17246655 TGAATGAATG
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
15 1 0.02
16 9 0.16
17 22 0.40
18 22 0.40
19 1 0.02
ACGTcount: A:0.75, C:0.02, G:0.16, T:0.06
Consensus pattern (16 bp):
AAAATGAAAAAAAAAG
Found at i:17246636 original size:12 final size:13
Alignment explanation
Indices: 17246614--17246642 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
17246604 ACATAATGAA
17246614 AAAAAAGGAAAAG
1 AAAAAAGGAAAAG
17246627 AAAAAA-GAAAAG
1 AAAAAAGGAAAAG
17246639 AAAA
1 AAAA
17246643 GGAAAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAAAAGGAAAAG
Found at i:17247838 original size:14 final size:14
Alignment explanation
Indices: 17247819--17247845 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17247809 GTCTAAAACA
17247819 CATATTGCATGTTG
1 CATATTGCATGTTG
17247833 CATATTGCATGTT
1 CATATTGCATGTT
17247846 CAAAAGGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (14 bp):
CATATTGCATGTTG
Found at i:17248636 original size:40 final size:41
Alignment explanation
Indices: 17248592--17248678 Score: 104
Period size: 41 Copynumber: 2.1 Consensus size: 41
17248582 ATTTTTAATT
* * *
17248592 TTTAAAGGATTT-TCAAGACCTCTTAGCAAAACCTTAAAAC
1 TTTAAAGGATTTCTAAAGACATCTGAGCAAAACCTTAAAAC
* * * *
17248632 TTTAAATGATTTCTAAAGACATCTGGGCAAAATCTTAAATC
1 TTTAAAGGATTTCTAAAGACATCTGAGCAAAACCTTAAAAC
17248673 TTTAAA
1 TTTAAA
17248679 TGATCTCCAA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 11 0.28
41 28 0.72
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.33
Consensus pattern (41 bp):
TTTAAAGGATTTCTAAAGACATCTGAGCAAAACCTTAAAAC
Found at i:17248663 original size:41 final size:40
Alignment explanation
Indices: 17248516--17248889 Score: 193
Period size: 40 Copynumber: 9.3 Consensus size: 40
17248506 GAATGAGTAC
* * * * * *
17248516 ATGATTTCCATGACCTATGGACAAAATATTAGATTTCTT-A
1 ATGATTTCCAAGACATCTGGGCAAAATCTTAAATTT-TTAA
* * * * *
17248556 ATGGTTTCCAAAGACCTAC-GAGCAAAATTTTTAATTTTTAA
1 ATGATTTCC-AAGACAT-CTGGGCAAAATCTTAAATTTTTAA
* * * ** * **
17248597 AGGATTTTCAAGACCTCTTAGCAAAACCTTAAAACTTTAA
1 ATGATTTCCAAGACATCTGGGCAAAATCTTAAATTTTTAA
* *
17248637 ATGATTTCTAAAGACATCTGGGCAAAATCTTAAATCTTTAA
1 ATGATTTC-CAAGACATCTGGGCAAAATCTTAAATTTTTAA
* * * * * *
17248678 ATGATCTCCAAGATCTTC-GAGCAAAATTTTAGATTTTTGA
1 ATGATTTCCAAGA-CATCTGGGCAAAATCTTAAATTTTTAA
* * *
17248718 ATGATTTCTAAGA-ACTTTGGGCAAAACCTTAAATTTTTAA
1 ATGATTTCCAAGACA-TCTGGGCAAAATCTTAAATTTTTAA
* * * * *
17248758 ATGATTTCCAATACCTCTGGGTAAAATCTTAAAATTTTGA
1 ATGATTTCCAAGACATCTGGGCAAAATCTTAAATTTTTAA
*** * * * *
17248798 ATGATTTCCAAGGTTTTTAGGTAAAATTTTAAATTTTTGAA
1 ATGATTTCCAAGACATCTGGGCAAAATCTTAAATTTTT-AA
* * ** *
17248839 A-GATTTTCAA-ATATCTTTGGGTGAAATTTTAAATTTTTAA
1 ATGATTTCCAAGACATC--TGGGCAAAATCTTAAATTTTTAA
*
17248879 AAGATTTCCAA
1 ATGATTTCCAA
17248890 TGACCTTCGT
Statistics
Matches: 255, Mismatches: 66, Indels: 25
0.74 0.19 0.07
Matches are distributed among these distances:
39 4 0.02
40 160 0.63
41 91 0.36
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (40 bp):
ATGATTTCCAAGACATCTGGGCAAAATCTTAAATTTTTAA
Found at i:17248784 original size:80 final size:79
Alignment explanation
Indices: 17248636--17248886 Score: 227
Period size: 80 Copynumber: 3.1 Consensus size: 79
17248626 TAAAACTTTA
* * * * * *
17248636 AATGATTTCTAA-AGACATCTGGGCAAAATCTTAAATCTTTAAATGATCTCCAAGATCTTCGAGC
1 AATGATTTCTAAGA-AC-TTTGGGCAAAATCTTAAATTTTTAAATGATTTCCAATATCTT-GGGT
*
17248700 AAAATTTTAGATTTTTG
63 AAAATTTTAAATTTTTG
* *
17248717 AATGATTTCTAAGAACTTTGGGCAAAACCTTAAATTTTTAAATGATTTCCAATACCTCTGGGTAA
1 AATGATTTCTAAGAACTTTGGGCAAAATCTTAAATTTTTAAATGATTTCCAATATCT-TGGGTAA
* *
17248782 AATCTTAAAATTTTG
65 AATTTTAAATTTTTG
* *** * * * *
17248797 AATGATTTCCAAGGTTTTTAGGTAAAATTTTAAATTTTTGAAA-GATTTTCAAATATCTTTGGGT
1 AATGATTTCTAAGAACTTTGGGCAAAATCTTAAATTTTT-AAATGA-TTTCCAATATC-TTGGGT
* *
17248861 GAAATTTTAAATTTTTA
63 AAAATTTTAAATTTTTG
*
17248878 AAAGATTTC
1 AATGATTTC
17248887 CAATGACCTT
Statistics
Matches: 139, Mismatches: 26, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
80 84 0.60
81 53 0.38
82 2 0.01
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (79 bp):
AATGATTTCTAAGAACTTTGGGCAAAATCTTAAATTTTTAAATGATTTCCAATATCTTGGGTAAA
ATTTTAAATTTTTG
Found at i:17249128 original size:22 final size:21
Alignment explanation
Indices: 17249091--17249559 Score: 264
Period size: 22 Copynumber: 21.4 Consensus size: 21
17249081 TTTGAACATT
* *
17249091 TTCAAAGTTCTTCAAGCACAA
1 TTCAAAGTCCTCCAAGCACAA
17249112 TTACAAAGTCCTCCAAGCACAA
1 TT-CAAAGTCCTCCAAGCACAA
* *
17249134 TTTCAAAGTCATCCAAGCATAA
1 -TTCAAAGTCCTCCAAGCACAA
* *
17249156 TCTCAAAGTCCTCCAGGCATAA
1 T-TCAAAGTCCTCCAAGCACAA
*** * *
17249178 TTTCAAAGTCCTATGAGTAAAA
1 -TTCAAAGTCCTCCAAGCACAA
*
17249200 TATCAAAGTCCTCCATGCACAA
1 T-TCAAAGTCCTCCAAGCACAA
* * *
17249222 TCTCAAAGTTCTTCAAACACAA
1 T-TCAAAGTCCTCCAAGCACAA
*
17249244 TCTCAAAGTCCTCTAAGCAC-A
1 T-TCAAAGTCCTCCAAGCACAA
17249265 TCCTCAAAGTCCTCCAAGCA-AA
1 T--TCAAAGTCCTCCAAGCACAA
* *
17249287 TTTTCAAAGTACTCTAAGCACAA
1 --TTCAAAGTCCTCCAAGCACAA
** *
17249310 TTTCAAAGTCCTTTAAGCATAACA
1 -TTCAAAGTCCTCCAAGCA-CA-A
*
17249334 TT-TAAGT-CTCCAAGCACAA
1 TTCAAAGTCCTCCAAGCACAA
*
17249353 TCTCAAAGTCCTTCAAGCACAA
1 T-TCAAAGTCCTCCAAGCACAA
*
17249375 TCTCAAAGTCCTCCAAACACAA
1 T-TCAAAGTCCTCCAAGCACAA
* * *
17249397 TCTCAAAGTTCTCTAGGCACAA
1 T-TCAAAGTCCTCCAAGCACAA
* ****
17249419 TTTCAAAGTCTTTTGGGCACAA
1 -TTCAAAGTCCTCCAAGCACAA
* ** *
17249441 TATGAAAGTTTTCCAAGCATAA
1 T-TCAAAGTCCTCCAAGCACAA
*
17249463 TCTCAAAGTCCT-CAAGGTACAA
1 T-TCAAAGTCCTCCAA-GCACAA
*
17249485 TTTCAAAGTCCTTCAAGCACAA
1 -TTCAAAGTCCTCCAAGCACAA
* * * **
17249507 TTTCAATGTCTTTCGGGCACAA
1 -TTCAAAGTCCTCCAAGCACAA
* * *
17249529 TATCAAAGTTCTCCAGGTACAA
1 T-TCAAAGTCCTCCAAGCACAA
17249551 TTTCAAAGT
1 -TTCAAAGT
17249560 ATTCAGAGCA
Statistics
Matches: 353, Mismatches: 73, Indels: 43
0.75 0.16 0.09
Matches are distributed among these distances:
19 2 0.01
20 2 0.01
21 22 0.06
22 311 0.88
23 14 0.04
24 2 0.01
ACGTcount: A:0.36, C:0.26, G:0.11, T:0.27
Consensus pattern (21 bp):
TTCAAAGTCCTCCAAGCACAA
Found at i:17249622 original size:22 final size:22
Alignment explanation
Indices: 17249090--17249644 Score: 248
Period size: 22 Copynumber: 25.3 Consensus size: 22
17249080 GTTTGAACAT
17249090 TTTCAAAGTTCTTC-AAGCACAA
1 TTTCAAAG-TCTTCTAAGCACAA
* * *
17249112 TTACAAAGTCCTCCAAGCACAA
1 TTTCAAAGTCTTCTAAGCACAA
* * *
17249134 TTTCAAAGTCATCCAAGCATAA
1 TTTCAAAGTCTTCTAAGCACAA
* * * * *
17249156 TCTCAAAGTCCTCCAGGCATAA
1 TTTCAAAGTCTTCTAAGCACAA
* * * * *
17249178 TTTCAAAGTCCTATGAGTAAAA
1 TTTCAAAGTCTTCTAAGCACAA
* * * *
17249200 TATCAAAGTCCTCCATGCACAA
1 TTTCAAAGTCTTCTAAGCACAA
* *
17249222 TCTCAAAGTTCTTC-AAACACAA
1 TTTCAAAG-TCTTCTAAGCACAA
* *
17249244 TCTCAAAGTCCTCTAAGCAC-A
1 TTTCAAAGTCTTCTAAGCACAA
* * *
17249265 TCCTCAAAGTCCTCCAAGCA-AA
1 T-TTCAAAGTCTTCTAAGCACAA
17249287 TTTTCAAAGTAC-TCTAAGCACAA
1 -TTTCAAAGT-CTTCTAAGCACAA
*
17249310 TTTCAAAGTCCTT-TAAGCATAACA
1 TTTCAAAGT-CTTCTAAGCA-CA-A
*
17249334 TTT--AAGTC-TCCAAGCACAA
1 TTTCAAAGTCTTCTAAGCACAA
*
17249353 TCTCAAAGTCCTTC-AAGCACAA
1 TTTCAAAGT-CTTCTAAGCACAA
* * * *
17249375 TCTCAAAGTCCTCCAAACACAA
1 TTTCAAAGTCTTCTAAGCACAA
* *
17249397 TCTCAAAGT-TCTCTAGGCACAA
1 TTTCAAAGTCT-TCTAAGCACAA
* **
17249419 TTTCAAAGTCTTTTGGGCACAA
1 TTTCAAAGTCTTCTAAGCACAA
* * * * *
17249441 TATGAAAGTTTTCCAAGCATAA
1 TTTCAAAGTCTTCTAAGCACAA
* * *
17249463 TCTCAAAGTCCTC-AAGGTACAA
1 TTTCAAAGTCTTCTAA-GCACAA
17249485 TTTCAAAGTCCTTC-AAGCACAA
1 TTTCAAAGT-CTTCTAAGCACAA
* **
17249507 TTTCAATGTCTT-TCGGGCACAA
1 TTTCAAAGTCTTCT-AAGCACAA
* * * *
17249529 TATCAAAGT-TCTCCAGGTACAA
1 TTTCAAAGTCT-TCTAAGCACAA
* *
17249551 TTTCAAAGTATTC-AGAGCATAA
1 TTTCAAAGTCTTCTA-AGCACAA
* * *
17249573 TTTGAAAGTC--CTATGGACATAA
1 TTTCAAAGTCTTCTA-AG-CACAA
* *
17249595 TCTCAAAGTCTTCTAAGCAAAA
1 TTTCAAAGTCTTCTAAGCACAA
* *
17249617 TTTCAAAGTCCTT-TGAGCATAA
1 TTTCAAAGT-CTTCTAAGCACAA
17249639 TTTCAA
1 TTTCAA
17249645 GATCTTTTGG
Statistics
Matches: 416, Mismatches: 85, Indels: 64
0.74 0.15 0.11
Matches are distributed among these distances:
19 3 0.01
20 3 0.01
21 32 0.08
22 348 0.84
23 23 0.06
24 7 0.02
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (22 bp):
TTTCAAAGTCTTCTAAGCACAA
Found at i:17249639 original size:44 final size:44
Alignment explanation
Indices: 17249090--17249629 Score: 355
Period size: 44 Copynumber: 12.3 Consensus size: 44
17249080 GTTTGAACAT
*
17249090 TTTCAAAGTTCTTCAAGCACAAT-TACAAAGTCCTCCAAGCACAA
1 TTTCAAAGTCCTTCAAGCACAATCT-CAAAGTCCTCCAAGCACAA
* * * * *
17249134 TTTCAAAGTCATCCAAGCATAATCTCAAAGTCCTCCAGGCATAA
1 TTTCAAAGTCCTTCAAGCACAATCTCAAAGTCCTCCAAGCACAA
* * * * *
17249178 TTTCAAAGTCCTAT-GAGTAAAATATCAAAGTCCTCCATGCACAA
1 TTTCAAAGTCCT-TCAAGCACAATCTCAAAGTCCTCCAAGCACAA
* * * *
17249222 TCTCAAAGTTCTTCAAACACAATCTCAAAGTCCTCTAAGCAC-A
1 TTTCAAAGTCCTTCAAGCACAATCTCAAAGTCCTCCAAGCACAA
* * * * *
17249265 TCCTCAAAGTCCTCCAAGCA-AATTTTCAAAGTACTCTAAGCACAA
1 T-TTCAAAGTCCTTCAAGCACAA-TCTCAAAGTCCTCCAAGCACAA
* * **
17249310 TTTCAAAGTCCTTTAAGCATAA-CATTTAAGT-CTCCAAGCACAA
1 TTTCAAAGTCCTTCAAGCACAATC-TCAAAGTCCTCCAAGCACAA
* *
17249353 TCTCAAAGTCCTTCAAGCACAATCTCAAAGTCCTCCAAACACAA
1 TTTCAAAGTCCTTCAAGCACAATCTCAAAGTCCTCCAAGCACAA
* * * * * ****
17249397 TCTCAAAGTTC-TCTAGGCACAATTTCAAAGTCTTTTGGGCACAA
1 TTTCAAAGTCCTTC-AAGCACAATCTCAAAGTCCTCCAAGCACAA
* * * * *
17249441 TATGAAAGT-TTTCCAAGCATAATCTCAAAGTCCT-CAAGGTACAA
1 TTTCAAAGTCCTT-CAAGCACAATCTCAAAGTCCTCCAA-GCACAA
* * * * **
17249485 TTTCAAAGTCCTTCAAGCACAATTTCAATGTCTTTCGGGCACAA
1 TTTCAAAGTCCTTCAAGCACAATCTCAAAGTCCTCCAAGCACAA
* * * * * * * * *
17249529 TATCAAAGTTCTCCAGGTACAATTTCAAAGT-ATTCAGAGCATAA
1 TTTCAAAGTCCTTCAAGCACAATCTCAAAGTCCTCCA-AGCACAA
* ** * * * *
17249573 TTTGAAAGTCCTATGGA-CATAATCTCAAAGTCTTCTAAGCAAAA
1 TTTCAAAGTCCT-TCAAGCACAATCTCAAAGTCCTCCAAGCACAA
17249617 TTTCAAAGTCCTT
1 TTTCAAAGTCCTT
17249630 TGAGCATAAT
Statistics
Matches: 381, Mismatches: 96, Indels: 39
0.74 0.19 0.08
Matches are distributed among these distances:
43 46 0.12
44 324 0.85
45 11 0.03
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (44 bp):
TTTCAAAGTCCTTCAAGCACAATCTCAAAGTCCTCCAAGCACAA
Found at i:17251926 original size:28 final size:28
Alignment explanation
Indices: 17251840--17251936 Score: 104
Period size: 29 Copynumber: 3.4 Consensus size: 28
17251830 TGAATGGCCC
* * *
17251840 AAACCCTAAAATCCCAAATTCGAAATCAT
1 AAACCCTAAAA-CCCAAATTTGAAACCCT
* *
17251869 AAACCCCAAAACCCAAAATTTGAAATCCT
1 AAACCCTAAAACCC-AAATTTGAAACCCT
* *
17251898 AAACCCTAAAACCCTAATTTGAAGCCCT
1 AAACCCTAAAACCCAAATTTGAAACCCT
*
17251926 AAACCTTAAAA
1 AAACCCTAAAA
17251937 TCCTAGACTC
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
28 24 0.41
29 35 0.59
ACGTcount: A:0.47, C:0.29, G:0.04, T:0.20
Consensus pattern (28 bp):
AAACCCTAAAACCCAAATTTGAAACCCT
Found at i:17251941 original size:28 final size:28
Alignment explanation
Indices: 17251840--17251964 Score: 99
Period size: 29 Copynumber: 4.4 Consensus size: 28
17251830 TGAATGGCCC
* * * *
17251840 AAACCCTAAAATCCCAAATTCGAAATCAT
1 AAACCCTAAAA-CCCTAATTTGAAACCCT
* * *
17251869 AAACCCCAAAACCCAAAATTTGAAATCCT
1 AAACCCTAAAACCC-TAATTTGAAACCCT
*
17251898 AAACCCTAAAACCCTAATTTGAAGCCCT
1 AAACCCTAAAACCCTAATTTGAAACCCT
* * * *
17251926 AAACCTTAAAATCCTAGACTCT-AAATCCT
1 AAACCCTAAAACCCTA-A-TTTGAAACCCT
17251955 AAACCCTAAA
1 AAACCCTAAA
17251965 CTTTAAACCG
Statistics
Matches: 80, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
28 28 0.35
29 50 0.62
30 2 0.03
ACGTcount: A:0.46, C:0.30, G:0.04, T:0.21
Consensus pattern (28 bp):
AAACCCTAAAACCCTAATTTGAAACCCT
Found at i:17251971 original size:21 final size:21
Alignment explanation
Indices: 17251924--17251985 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
17251914 ATTTGAAGCC
* * *
17251924 CTAAACCTTAAAATCCTAGACT
1 CTAAACCGT-AAACCCTAAACT
17251946 CTAAATCC-TAAACCCTAAACT
1 CTAAA-CCGTAAACCCTAAACT
*
17251967 TTAAACCGTAAACCCTAAA
1 CTAAACCGTAAACCCTAAA
17251986 ACCAATTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 2 0.06
21 25 0.71
22 6 0.17
23 2 0.06
ACGTcount: A:0.44, C:0.29, G:0.03, T:0.24
Consensus pattern (21 bp):
CTAAACCGTAAACCCTAAACT
Found at i:17255480 original size:12 final size:12
Alignment explanation
Indices: 17255463--17255490 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
17255453 ATAACATAAT
17255463 ACAAGCATGTTA
1 ACAAGCATGTTA
17255475 ACAAGCATGTTA
1 ACAAGCATGTTA
17255487 ACAA
1 ACAA
17255491 TAAGAGCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.46, C:0.18, G:0.14, T:0.21
Consensus pattern (12 bp):
ACAAGCATGTTA
Found at i:17257253 original size:17 final size:17
Alignment explanation
Indices: 17257221--17257273 Score: 88
Period size: 17 Copynumber: 3.0 Consensus size: 17
17257211 ATGGAGTAAA
17257221 AATGCAAGCTTGTGCCATG
1 AATGCAAG--TGTGCCATG
17257240 AATGCAAGTGTGCCATG
1 AATGCAAGTGTGCCATG
17257257 AATGCAAGTGTGCCATG
1 AATGCAAGTGTGCCATG
17257274 TGAGGAAAGC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 26 0.76
19 8 0.24
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (17 bp):
AATGCAAGTGTGCCATG
Found at i:17262451 original size:25 final size:25
Alignment explanation
Indices: 17262384--17262452 Score: 60
Period size: 21 Copynumber: 2.9 Consensus size: 25
17262374 AAACTTCATT
*
17262384 AAGCTTGTAATGTAAGGATATGGTTA
1 AAGCTTGTAATGTAAGGATAT-GATA
17262410 AAG-TATGATAA---AA--ATATGATA
1 AAGCT-TG-TAATGTAAGGATATGATA
17262431 AAGCTTGTAATGTAAGGATATG
1 AAGCTTGTAATGTAAGGATATG
17262453 GTTAAATACA
Statistics
Matches: 34, Mismatches: 1, Indels: 17
0.65 0.02 0.33
Matches are distributed among these distances:
20 3 0.09
21 8 0.24
22 5 0.15
23 2 0.06
24 2 0.06
25 6 0.18
26 5 0.15
27 3 0.09
ACGTcount: A:0.42, C:0.03, G:0.23, T:0.32
Consensus pattern (25 bp):
AAGCTTGTAATGTAAGGATATGATA
Found at i:17269129 original size:10 final size:10
Alignment explanation
Indices: 17269114--17269138 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
17269104 TTCATCACAT
17269114 ATTCTCTTCC
1 ATTCTCTTCC
17269124 ATTCTCTTCC
1 ATTCTCTTCC
17269134 ATTCT
1 ATTCT
17269139 TTTATTCATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.12, C:0.36, G:0.00, T:0.52
Consensus pattern (10 bp):
ATTCTCTTCC
Found at i:17269160 original size:21 final size:21
Alignment explanation
Indices: 17269136--17269179 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
17269126 TCTCTTCCAT
17269136 TCTTTTATTCATG-CCAATATA
1 TCTTTTATTCATGCCCAA-ATA
* *
17269157 TCTTTTGTTCTTGCCCAAATA
1 TCTTTTATTCATGCCCAAATA
17269178 TC
1 TC
17269180 CACCTATATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.23, C:0.23, G:0.07, T:0.48
Consensus pattern (21 bp):
TCTTTTATTCATGCCCAAATA
Found at i:17271048 original size:117 final size:117
Alignment explanation
Indices: 17270870--17271107 Score: 329
Period size: 117 Copynumber: 2.0 Consensus size: 117
17270860 CTGAGCCACT
* * *
17270870 AATGATTATGAACATATGAAATTTGAATTCTTGAACAAAAATCTAATGGCTATTCTGTCAATAGA
1 AATGATTATGAACAGATGAAATTTGAATTCTTAAACAAAAATCTAATGGCTATTCTATCAATAG-
*
17270935 AAAAG-AAGAATCTAGGGTGGCTACATAGAAAATGTTATTTGA-AGGGGCATCA
65 AAAAGTAAGAATCAAGGGTGGCTACATAGAAAATGTTATTTGATA-GGGCATCA
* * * *
17270987 AATGATTAT-AAGCAGATGAGATTTGAATTTTTAAACAAAGATCTAATGGCTTTTCTATCAATAG
1 AATGATTATGAA-CAGATGAAATTTGAATTCTTAAACAAAAATCTAATGGCTATTCTATCAATAG
** *
17271051 CTAAGTAAGAATCAAGGGTGGCTACATGGAAAATGTTATTTGATAGGGCATCA
65 AAAAGTAAGAATCAAGGGTGGCTACATAGAAAATGTTATTTGATAGGGCATCA
17271104 AATG
1 AATG
17271108 CTTTAGGGCA
Statistics
Matches: 107, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
116 5 0.05
117 101 0.94
118 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.30
Consensus pattern (117 bp):
AATGATTATGAACAGATGAAATTTGAATTCTTAAACAAAAATCTAATGGCTATTCTATCAATAGA
AAAGTAAGAATCAAGGGTGGCTACATAGAAAATGTTATTTGATAGGGCATCA
Found at i:17271717 original size:21 final size:21
Alignment explanation
Indices: 17271691--17271733 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
17271681 TTCTCTTATT
17271691 TTTATTTCCTCTATTTGTTGG
1 TTTATTTCCTCTATTTGTTGG
*
17271712 TTTATTTCCTCTATTTTTTGG
1 TTTATTTCCTCTATTTGTTGG
17271733 T
1 T
17271734 CATACCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.09, C:0.14, G:0.12, T:0.65
Consensus pattern (21 bp):
TTTATTTCCTCTATTTGTTGG
Found at i:17274046 original size:909 final size:900
Alignment explanation
Indices: 17271763--17274215 Score: 3149
Period size: 905 Copynumber: 2.7 Consensus size: 900
17271753 GTCCAACTTA
* * * **
17271763 ATTTGTCCCAATTTTAGTCTCTC-ACAATTGTCCTATTATGTGTGACCTATTAGGTTCTTTAATA
1 ATTTGTCCTAATTTTAATCT-TCAACAATTATCCTA-TATGTGTGACCTATTAGGTTCTTTAGCA
** * * * *
17271827 CATTGGCAATAAAAACAAGCATTATAAGCCTTAATATTCAGCTATGAATGAAATAAACTTTTTGT
64 TGTTGGCAATAAAAACAAGCATTGTAAGACTTAGTATTCAGCTATGGATGAAA-AAACTTTTTGT
** * *
17271892 CTTCATCACCAATTCTCCAATTAGAAAATTTTATGTTTATAGATTATGATCAATGCTAGCTTTAT
128 CTTCATCACCAATTCTCCAATTAGCCAATTTTATATTTATAGATAATGATCAATGCTAGCTTTAT
* * * *
17271957 TGCCATGATCCCCAATTGCTAAAAAAAAGTCAATATGGCTTGACAACCTATCCATAAATGCTCTT
193 TTCCATGA-CCCCAATTGCT--AAAAAAGTCAATATGGCTTGACAACCTATCTATGAATGGTCTT
* * * * * *** * *
17272022 AGTGTATAATTAATATTCATTTACCATATAATATCTTGGTTTGAACATTAAGTATGGTTTAGTGT
255 AGTATATAATTAATATCCTTTTATCATATAGTATCTCAATTTGAACATTGAGTATGATTTAGTGT
* * * * * *
17272087 CTACTCACTCTTGTTCAACTATGTTAAGTCTTGTCCTTGACATTAACTTACAAATAAGTTTTAAA
320 CTATTCAATCTTGTTCAACCATGTTAAGTCTTATCCTTGACATTAACTCACAAATAAGTTTTAGA
*
17272152 AAAATTTTAAAATCTTATTTCACTTTGGCCAAAGATTTCTCAAGTTAATTCAATCACGACTAGTT
385 AAAATTTTAAAATCTTATTTCACTTTGGCCAAAGATTTCTCAAGTTAATTCAATCAAGACTAGTT
* * * *
17272217 AAGATATTCTCTTGATCACATAAGGTGATGAATCTTATCTTGATTACTTTATGTATCTTCATATG
450 AAGATACTCTCTTGATCACATAAGGTGATGAATC-CATCTTGATTACTTTATGCATCTTTATATG
* * *
17272282 CCTCATGTTATACCTAACAACACTTGACTAGAGCATTCTTGGTTAGAACCATAAGTAAAGTAAAG
514 CCTCATGTTACACCTAACAATACTCGACTA-AGCATTCTTGGTTAGAACCATAAGTAAAGTAAAG
* ** * * *
17272347 TCAAAGTATAACATTCATTATATCAGATCACAAGTAGTCTCAAGTTAAAAGATCACTTATATAAC
578 TCAAAGTATAACATTCATCATAT-AGATCATTAGTAATCTCAAGTTAAAAGATCAATTATACAAC
* * *
17272412 CATCACATGAGAATGTAGCTATAGATACTATGTGGACTACCATATAGCATTCTCATTTTAGGTCA
642 CATCACATGAGAATGTAGCTATAGATACTATATGAACTACCATATAGCATTCTCATATTAGGTCA
* *
17272477 TGTTTAATGAAGTTGTTCTTATAACAAGCACCCAAATGTTAACTAAAGTTTATCCAAACTTTAAC
707 TGTTTAATGAACTTGTTCTTATAACAAGCACCCAAATGTTAACTAAAGTTTATCCAAACTTCAAC
* * * * *
17272542 TATGAGATTAGTTACCTGCTTCACAAAGAATAGCATAATTATGTTAGTCTTAACAACTTTTATAA
772 TATGAGATTAGTTACCTGCTTCACAAAGAAGAGCATAAATATATTAGTCTCAACAACTTTAATAA
* ** *
17272607 ATGTCTTCTTATTGATAAAACGTCAACTAGGAACAATTTTGGAACATATAACTTTTATGCAATG
837 ATGTCTTCTTATTGATAAAACGTCAACTAGAAACAATTTTAAAACATATAACTTTTACGCAATG
* * * *
17272671 ACTTGT-CTCAATTTTAATCTTTAACAATTATCCTATGTGTGTAACCTATTAGGTTCTTTAGCAT
1 ATTTGTCCT-AATTTTAATCTTCAACAATTATCCTATATGTGTGACCTATTAGGTTCTTTAGCAT
* * * * *
17272735 GTTGGGAATAAACACAAGCATTGT-A-ACTTTAGTATTCAGCTATAGATGAAAATAATTTTTTAT
65 GTTGGCAATAAAAACAAGCATTGTAAGAC-TTAGTATTCAGCTATGGATGAAAA-AACTTTTTGT
* * * * *
17272798 CTTCATCACCAATTTTCTAATTAGCCAATCTCATATTTATAGATAATGATCAATGCTAGCTTCAT
128 CTTCATCACCAATTCTCCAATTAGCCAATTTTATATTTATAGATAATGATCAATGCTAGCTTTAT
* * * * * * *
17272863 TTTCATGACCCCCAA-TGCTAAAAGTATGGCAATATAGCTTGACAACCTATTTGTGAATGGTCTA
193 TTCCATGA-CCCCAATTGCTAAAA--AAGTCAATATGGCTTGACAACCTATCTATGAATGGTCTT
* * * *
17272927 AGTATATAATTAATATCATTTTATCACATAGTATCTCAATTTGAGCATTGATTATGATTTAGTGT
255 AGTATATAATTAATATCCTTTTATCATATAGTATCTCAATTTGAACATTGAGTATGATTTAGTGT
* * * *
17272992 CTACTT-AATCTTGTTCAACCATATTAAGTCTTATCATTAACATTAATTCACAAATAAGTTTTAG
320 CTA-TTCAATCTTGTTCAACCATGTTAAGTCTTATCCTTGACATTAACTCACAAATAAGTTTTAG
* *
17273056 AACAATTCTAAAATCTTATTTCACTTTGGCCAAAGATTTCTCAAGTTAATTCAATCAAGACTAGT
384 AAAAATTTTAAAATCTTATTTCACTTTGGCCAAAGATTTCTCAAGTTAATTCAATCAAGACTAGT
* * * * **
17273121 TAAGATACTTTCTTGATCACACAAGGTGATGAATCCATCTTGATTACTTCATACATCTTTATACA
449 TAAGATACTCTCTTGATCACATAAGGTGATGAATCCATCTTGATTACTTTATGCATCTTTATATG
* *
17273186 CCTTATGTTACACCTAACAATACTCGACTGAAGCATTCTTGGTTAAAACCATAAGTAAAGTAAAG
514 CCTCATGTTACACCTAACAATACTCGACT-AAGCATTCTTGGTTAGAACCATAAGTAAAGTAAAG
* *
17273251 TCAAAGTATAACATTCATCATATATGATCATTAGTAATCTCAAGTCAAAGGATCAATTATACAAC
578 TCAAAGTATAACATTCATCATATA-GATCATTAGTAATCTCAAGTTAAAAGATCAATTATACAAC
* * * * *
17273316 CATTATATGAGAATGTAGCTATAGATACTATATGAACTACCATATGGTATTCTCATATTGGGTCA
642 CATCACATGAGAATGTAGCTATAGATACTATATGAACTACCATATAGCATTCTCATATTAGGTCA
* * * * * *
17273381 TGTTTAATGAACTTGTTCTTGTAATAAGTACCCATATGTTAGCTCAAGTTTATCCAAACTTCAAG
707 TGTTTAATGAACTTGTTCTTATAACAAGCACCCAAATGTTAACTAAAGTTTATCCAAACTTCAA-
* ***
17273446 CTATGAGATTGGTTGTTTGCTTCACAAAGAAGAGCATAACCATATATTAGTCTCAACAACTTTAA
771 CTATGAGATTAGTTACCTGCTTCACAAAGAAGAGCATAA--ATATATTAGTCTCAACAACTTTAA
* * * * * *
17273511 TCAATGTCTTCTTATTGATAAAGCGTCGATTAGAAACAATTTTAAAACATATAGCTTTTACGCAG
834 TAAATGTCTTCTTATTGATAAAACGTCAACTAGAAACAATTTTAAAACATATAACTTTTACGCAA
17273576 TG
899 TG
* *
17273578 ATTTGTCCTAATTTTAATCTTCAATAATTATCCTATATGTGTGACCCATTAGGTTCTTTAGCATG
1 ATTTGTCCTAATTTTAATCTTCAACAATTATCCTATATGTGTGACCTATTAGGTTCTTTAGCATG
* * *
17273643 TTGGCAATGAATACAAGCATTGTAAGACTTAGTATT-TGACTATGGATGAAACAAACTTTTTGTC
66 TTGGCAATAAAAACAAGCATTGTAAGACTTAGTATTCAG-CTATGGATGAAA-AAACTTTTTGTC
* * * * * * *
17273707 ATCCTCAACAATTCTCCAATTAGCCAATTTTATATTTATGGATCATGATCAATGATACCTTTATT
129 TTCATCACCAATTCTCCAATTAGCCAATTTTATATTTATAGATAATGATCAATGCTAGCTTTATT
* *
17273772 TCCATGACCCATAATTACTGAAGAAAAGTCAATATGGCTTGACAACCTATCTATGAATGGTCTTA
194 TCCATGACCC-CAATTGCT-AA-AAAAGTCAATATGGCTTGACAACCTATCTATGAATGGTCTTA
* * * * * *
17273837 GTATGTAATTAATATCCTTTTATCATATAGTATCTCAATTTAAACATTGAGGATGCTTTAATGTT
256 GTATATAATTAATATCCTTTTATCATATAGTATCTCAATTTGAACATTGAGTATGATTTAGTGTC
* * * **
17273902 TATTCAATCTTGTTAAACCATGTTAAGTCTTTTCCTTGATATTAACTCACAAATAAGTTCGAGAA
321 TATTCAATCTTGTTCAACCATGTTAAGTCTTATCCTTGACATTAACTCACAAATAAGTTTTAGAA
* * * * *
17273967 TAATTTTAAAATCTTATTTCACTTTGGCCAAAAATTTCTCAAGTTAATTCAATCAAAAGTAGTTG
386 AAATTTTAAAATCTTATTTCACTTTGGCCAAAGATTTCTCAAGTTAATTCAATCAAGACTAGTTA
17274032 AGATACTCTCTTGATCACATAAGGTGATGAATCCGATCTTGATTACTTTATGCAT-TTTCATATG
451 AGATACTCTCTTGATCACATAAGGTGATGAATCC-ATCTTGATTACTTTATGCATCTTT-ATATG
* * * *
17274096 CCTCATGTTACACCTAACAATCCTCAACTAAAGCATTCTTGGTTAGAACTATAAGTAAAGTAAAA
514 CCTCATGTTACACCTAACAATACTCGACT-AAGCATTCTTGGTTAGAACCATAAGTAAAGTAAAG
17274161 TCAAAGTATAACATTCATCATATAAGATCATTAGTAATCTCAAGTTAAAAGATCA
578 TCAAAGTATAACATTCATCATAT-AGATCATTAGTAATCTCAAGTTAAAAGATCA
17274216 TTAGTAATCT
Statistics
Matches: 1320, Mismatches: 200, Indels: 48
0.84 0.13 0.03
Matches are distributed among these distances:
903 5 0.00
904 249 0.19
905 268 0.20
906 98 0.07
907 203 0.15
908 120 0.09
909 242 0.18
910 132 0.10
911 3 0.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (900 bp):
ATTTGTCCTAATTTTAATCTTCAACAATTATCCTATATGTGTGACCTATTAGGTTCTTTAGCATG
TTGGCAATAAAAACAAGCATTGTAAGACTTAGTATTCAGCTATGGATGAAAAAACTTTTTGTCTT
CATCACCAATTCTCCAATTAGCCAATTTTATATTTATAGATAATGATCAATGCTAGCTTTATTTC
CATGACCCCAATTGCTAAAAAAGTCAATATGGCTTGACAACCTATCTATGAATGGTCTTAGTATA
TAATTAATATCCTTTTATCATATAGTATCTCAATTTGAACATTGAGTATGATTTAGTGTCTATTC
AATCTTGTTCAACCATGTTAAGTCTTATCCTTGACATTAACTCACAAATAAGTTTTAGAAAAATT
TTAAAATCTTATTTCACTTTGGCCAAAGATTTCTCAAGTTAATTCAATCAAGACTAGTTAAGATA
CTCTCTTGATCACATAAGGTGATGAATCCATCTTGATTACTTTATGCATCTTTATATGCCTCATG
TTACACCTAACAATACTCGACTAAGCATTCTTGGTTAGAACCATAAGTAAAGTAAAGTCAAAGTA
TAACATTCATCATATAGATCATTAGTAATCTCAAGTTAAAAGATCAATTATACAACCATCACATG
AGAATGTAGCTATAGATACTATATGAACTACCATATAGCATTCTCATATTAGGTCATGTTTAATG
AACTTGTTCTTATAACAAGCACCCAAATGTTAACTAAAGTTTATCCAAACTTCAACTATGAGATT
AGTTACCTGCTTCACAAAGAAGAGCATAAATATATTAGTCTCAACAACTTTAATAAATGTCTTCT
TATTGATAAAACGTCAACTAGAAACAATTTTAAAACATATAACTTTTACGCAATG
Found at i:17274212 original size:25 final size:25
Alignment explanation
Indices: 17274184--17274240 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
17274174 TTCATCATAT
17274184 AAGATCATTAGTAATCTCAAGTTAA
1 AAGATCATTAGTAATCTCAAGTTAA
17274209 AAGATCATTAGTAATCTCAAGTTAA
1 AAGATCATTAGTAATCTCAAGTTAA
17274234 AAGATCA
1 AAGATCA
17274241 CTTATACAAC
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:0.46, C:0.12, G:0.12, T:0.30
Consensus pattern (25 bp):
AAGATCATTAGTAATCTCAAGTTAA
Found at i:17276381 original size:35 final size:33
Alignment explanation
Indices: 17276341--17276424 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 33
17276331 TTTGCTTGAA
17276341 AGAAAAAAAAAAAAGAAAAACCAAAGAA-AAAATAG
1 AGAAAAAAAAAAAAGAAAAA-CAAA-AACAAAAT-G
* * *
17276376 AGAAAAAATAAAAATAAAAACAAAAACAAGATG
1 AGAAAAAAAAAAAAGAAAAACAAAAACAAAATG
17276409 A-AAAAAAAAAAGAAGA
1 AGAAAAAAAAAA-AAGA
17276425 TCTAGGTTGA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
32 9 0.21
33 7 0.17
34 8 0.19
35 18 0.43
ACGTcount: A:0.80, C:0.05, G:0.11, T:0.05
Consensus pattern (33 bp):
AGAAAAAAAAAAAAGAAAAACAAAAACAAAATG
Found at i:17276412 original size:18 final size:18
Alignment explanation
Indices: 17276391--17276425 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
17276381 AAATAAAAAT
*
17276391 AAAAACAAAAACAAGATG
1 AAAAAAAAAAACAAGATG
*
17276409 AAAAAAAAAAAGAAGAT
1 AAAAAAAAAAACAAGAT
17276426 CTAGGTTGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.77, C:0.06, G:0.11, T:0.06
Consensus pattern (18 bp):
AAAAAAAAAAACAAGATG
Found at i:17277092 original size:21 final size:19
Alignment explanation
Indices: 17277051--17277098 Score: 53
Period size: 21 Copynumber: 2.5 Consensus size: 19
17277041 AAATGAAAAA
17277051 AATGAATGATGAAAAAATG
1 AATGAATGATGAAAAAATG
* *
17277070 AATGAAATGGATGATAAATTG
1 AATG-AAT-GATGAAAAAATG
17277091 AAT-AATGA
1 AATGAATGA
17277099 AAAATTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 2 0.08
19 7 0.28
20 3 0.12
21 13 0.52
ACGTcount: A:0.54, C:0.00, G:0.21, T:0.25
Consensus pattern (19 bp):
AATGAATGATGAAAAAATG
Found at i:17277545 original size:19 final size:18
Alignment explanation
Indices: 17277523--17277568 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
17277513 GGAAAAGCAA
17277523 AACACATTATCAAAAAAAG
1 AACACATT-TCAAAAAAAG
* *
17277542 AACACATTTTAAAAAAAA
1 AACACATTTCAAAAAAAG
*
17277560 AAAACATTT
1 AACACATTT
17277569 TTAAAGTCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 16 0.67
19 8 0.33
ACGTcount: A:0.63, C:0.13, G:0.02, T:0.22
Consensus pattern (18 bp):
AACACATTTCAAAAAAAG
Found at i:17277687 original size:50 final size:49
Alignment explanation
Indices: 17277594--17278609 Score: 706
Period size: 49 Copynumber: 20.4 Consensus size: 49
17277584 CATAACCTAA
* * * *
17277594 CCTTTTTCAAATTGATATTTTTAAAGTTCCATA-CCAATATTTATAGGAG
1 CCTTTTTCAAAATGAGATTTTTAAAGTTCC-TAGCCTATGTTTATAGGAG
* * *
17277643 CACTTTCTCAAAATGAGATTTTTAAAGTTTCTAGCCTATGTTTATAGAAG
1 C-CTTTTTCAAAATGAGATTTTTAAAGTTCCTAGCCTATGTTTATAGGAG
* * * * * * *
17277693 CTTTTTTCAAATTGAGATTTTTAAAATTCCCTA-CCCAAGTTTGTAAGAG
1 CCTTTTTCAAAATGAGATTTTTAAAGTT-CCTAGCCTATGTTTATAGGAG
* * ** * **
17277742 TCATTTTTTCAAAATAAGATTTTTAAAGTTTTTAACCTATGTTTATAAAAG
1 -C-CTTTTTCAAAATGAGATTTTTAAAGTTCCTAGCCTATGTTTATAGGAG
* *
17277793 CC-TTTTCTAGATGAGATTTTTAAAGTTCCCTA-CCTATGTTTATAGGAG
1 CCTTTTTCAAAATGAGATTTTTAAAGTT-CCTAGCCTATGTTTATAGGAG
* *
17277841 CCCTTTTTCAAAATAAGAGATTTTTAAAGTTCCTA-CCTATGTTTATAGAAA
1 -CCTTTTTCAAAAT--GAGATTTTTAAAGTTCCTAGCCTATGTTTATAGGAG
* * * * * *
17277892 CGTTTTTTCTAAATAAGATTTTTAAAGTTTCTAGCCTATGTTTATAGAAA
1 C-CTTTTTCAAAATGAGATTTTTAAAGTTCCTAGCCTATGTTTATAGGAG
* * * *
17277942 CCTTTTTCAAATTGAAATTTTTAAAGTTCCTTGCCTTTGTTTATAGGAGG
1 CCTTTTTCAAAATGAGATTTTTAAAGTTCCTAGCCTATGTTTATAGGA-G
* ** * *
17277992 CCTTTTTCAAAATGAGATTTTTAAAATTTTTAGCCCAT-TTTATAAGAG
1 CCTTTTTCAAAATGAGATTTTTAAAGTTCCTAGCCTATGTTTATAGGAG
* * * * *
17278040 CC-TTTTCTAGATGAGATTTTTAAAATTCCCTA-CCTATATTTATAAGAG
1 CCTTTTTCAAAATGAGATTTTTAAAGTT-CCTAGCCTATGTTTATAGGAG
* *
17278088 CC-ATTTCAAAAATAGAGATTCTTAAAGTTCCCTA-CCTATGTTTATAGGAG
1 CCTTTTTC-AAAAT-GAGATTTTTAAAGTT-CCTAGCCTATGTTTATAGGAG
** * ** * *
17278138 TTTTTTTTAAAACAAGATTTTAAAAGTTCCCTA-CCTATGTTTATAGCAG
1 CCTTTTTCAAAATGAGATTTTTAAAGTT-CCTAGCCTATGTTTATAGGAG
* * *
17278187 CCTATTTC-AAATCAAGATTTTTAAAGTTCCCT-G-CAATGTTTATAGGAG
1 CCTTTTTCAAAAT-GAGATTTTTAAAGTT-CCTAGCCTATGTTTATAGGAG
*** * * *
17278235 CCTTTTTCAAAGCAAGATTTTT-AATTTCCCT-GCCTATGTTTATAAGAC
1 CCTTTTTCAAAATGAGATTTTTAAAGTT-CCTAGCCTATGTTTATAGGAG
* * * * *
17278283 CCATTTTCAAAGTGAAATTTTTAAAGTTCCCTA-CCTATATTTATAAGAG
1 CCTTTTTCAAAATGAGATTTTTAAAGTT-CCTAGCCTATGTTTATAGGAG
* * * *
17278332 CTTTTTTC-AAATCAAGATTTTTAAAGTTCCTTGCCTATGTTTATAGAAG
1 CCTTTTTCAAAAT-GAGATTTTTAAAGTTCCTAGCCTATGTTTATAGGAG
* * * *
17278381 CCTTTTTTTAAGATGAGATTTTTAAAGTTTCCTA-CTTATGTTTATAAGAG
1 CC-TTTTTCAAAATGAGATTTTTAAAG-TTCCTAGCCTATGTTTATAGGAG
** * * * * **
17278431 CCCTTTTTCAAAAAAAAAAACTTTTAAAATTCCCT-GTCTATGTTTATAAAAG
1 -CCTTTTTC--AAAATGAGATTTTTAAAGTT-CCTAGCCTATGTTTATAGGAG
* * * * *
17278483 CATTTTTCAACACTTGAGATTTTTTAAAGTTCCTTGCCTATGTTTGTAAGAG
1 CCTTTTTCAA-A-ATGAGA-TTTTTAAAGTTCCTAGCCTATGTTTATAGGAG
* * *
17278535 CTATTTTTTTTCCAAATGAGATTTTTAAAATTTCCTAGCCT-TGTTTATAGGAG
1 C----CTTTTTCAAAATGAGATTTTT-AAAGTTCCTAGCCTATGTTTATAGGAG
* * *
17278588 ACTTTTTTAAAAATAAGATTTT
1 -CCTTTTTCAAAATGAGATTTT
17278610 AAAATTTCTT
Statistics
Matches: 771, Mismatches: 151, Indels: 89
0.76 0.15 0.09
Matches are distributed among these distances:
47 36 0.05
48 125 0.16
49 220 0.29
50 191 0.25
51 91 0.12
52 67 0.09
53 15 0.02
54 18 0.02
55 1 0.00
56 7 0.01
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.42
Consensus pattern (49 bp):
CCTTTTTCAAAATGAGATTTTTAAAGTTCCTAGCCTATGTTTATAGGAG
Found at i:17277879 original size:99 final size:96
Alignment explanation
Indices: 17277597--17278535 Score: 691
Period size: 99 Copynumber: 9.5 Consensus size: 96
17277587 AACCTAACCT
* * * * * * *
17277597 TTTTC-AAATTGATATTTTTAAAGTTCCATACCAATATTTATAGGAGCACTTTCTCAAAATGAGA
1 TTTTCTAAA-TGAGATTTTTAAAGTTCCCTACCTATGTTTATAAGAGC-CTTTTTCAAAATAAGA
* *
17277661 TTTTTAAAGTTTCTAGCCTATGTTTATAGAAG-C
64 TTTTTAAAGTTCCTA-CCTATGTTTATAAAAGCC
* * * * * *
17277694 TTTTTTCAAATTGAGATTTTTAAAATTCCCTACCCAAGTTTGTAAGAGTCATTTTTTCAAAATAA
1 TTTTCT-AAA-TGAGATTTTTAAAGTTCCCTACCTATGTTTATAAGAG-C-CTTTTTCAAAATAA
**
17277759 GATTTTTAAAGTTTTTAACCTATGTTTATAAAAGCC
62 GATTTTTAAAGTTCCT-ACCTATGTTTATAAAAGCC
* *
17277795 TTTTCTAGATGAGATTTTTAAAGTTCCCTACCTATGTTTATAGGAGCCCTTTTTCAAAATAAGAG
1 TTTTCTAAATGAGATTTTTAAAGTTCCCTACCTATGTTTATAAGAG-CCTTTTTCAAAAT-A-AG
**
17277860 ATTTTTAAAGTTCCTACCTATGTTTATAGAAACGTT
63 ATTTTTAAAGTTCCTACCTATGTTTATA-AAA-GCC
* * * *
17277896 TTTTCTAAATAAGATTTTTAAAGTT-TCTAGCCTATGTTTAT-AGAAACCTTTTTCAAATTGAA-
1 TTTTCTAAATGAGATTTTTAAAGTTCCCTA-CCTATGTTTATAAG-AGCCTTTTTCAAAAT-AAG
* * * *
17277958 ATTTTTAAAGTTCCTTGCCTTTGTTTATAGGAGGCC
63 ATTTTTAAAGTTCC-TACCTATGTTTATA-AAAGCC
* * ** * * * *
17277994 TTTTTCAAAATGAGATTTTTAAAATT-TTTAGCCCAT-TTTATAAGAGCC-TTTTCTAGATGAGA
1 -TTTTCTAAATGAGATTTTTAAAGTTCCCTA-CCTATGTTTATAAGAGCCTTTTTCAAAATAAGA
* * *
17278056 TTTTTAAAATTCCCTACCTATATTTATAAGAGCC
64 TTTTTAAAGTT-CCTACCTATGTTTATAAAAGCC
* * * * ** * *
17278090 ATTTCAAAAATAGAGATTCTTAAAGTTCCCTACCTATGTTTATAGGAGTTTTTTTTAAAACAAGA
1 TTTTC-TAAAT-GAGATTTTTAAAGTTCCCTACCTATGTTTATAAGAGCCTTTTTCAAAATAAGA
* **
17278155 TTTTAAAAGTTCCCTACCTATGTTTATAGCAGCC
64 TTTTTAAAGTT-CCTACCTATGTTTATAAAAGCC
* * * * **
17278189 TATTTC-AAATCAAGATTTTTAAAGTTCCCT-GCAATGTTTATAGGAGCCTTTTTCAAAGCAAGA
1 T-TTTCTAAAT-GAGATTTTTAAAGTTCCCTACCTATGTTTATAAGAGCCTTTTTCAAAATAAGA
* * * *
17278252 TTTTT-AATTTCCCTGCCTATGTTTATAAGACCC
64 TTTTTAAAGTT-CCTACCTATGTTTATAAAAGCC
* * *
17278285 ATTTTC-AAAGTGAAATTTTTAAAGTTCCCTACCTATATTTATAAGAGCTTTTTTC-AAATCAAG
1 -TTTTCTAAA-TGAGATTTTTAAAGTTCCCTACCTATGTTTATAAGAGCCTTTTTCAAAAT-AAG
* *
17278348 ATTTTTAAAGTTCCTTGCCTATGTTTATAGAAGCC
63 ATTTTTAAAGTTCC-TACCTATGTTTATAAAAGCC
* * * *
17278383 TTTTTTTAAGATGAGATTTTTAAAGTTTCCTACTTATGTTTATAAGAGCCCTTTTTCAAAAAAAA
1 -TTTTCTAA-ATGAGATTTTTAAAGTTCCCTACCTATGTTTATAAGAG-CCTTTTTC--AAAATA
* * * ** *
17278448 AAACTTTTAAAATTCCCTGTCTATGTTTATAAAAGCA
61 AGATTTTTAAAGTT-CCTACCTATGTTTATAAAAGCC
* * *
17278485 TTTT-TCAACACTTGAGATTTTTTAAAGTTCCTTGCCTATGTTTGTAAGAGC
1 TTTTCT-AA-A--TGAGA-TTTTTAAAGTTCCCTACCTATGTTTATAAGAGC
17278536 TATTTTTTTT
Statistics
Matches: 678, Mismatches: 125, Indels: 72
0.77 0.14 0.08
Matches are distributed among these distances:
95 4 0.01
96 58 0.09
97 113 0.17
98 93 0.14
99 200 0.29
100 93 0.14
101 50 0.07
102 29 0.04
103 11 0.02
104 27 0.04
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (96 bp):
TTTTCTAAATGAGATTTTTAAAGTTCCCTACCTATGTTTATAAGAGCCTTTTTCAAAATAAGATT
TTTAAAGTTCCTACCTATGTTTATAAAAGCC
Found at i:17278303 original size:145 final size:148
Alignment explanation
Indices: 17277610--17278442 Score: 529
Period size: 145 Copynumber: 5.6 Consensus size: 148
17277600 TCAAATTGAT
* * * * *
17277610 ATTTTTAAAGTTCCATACCAATATTTATAGGAGCACTTTCTCAAA-ATGAGATTTTTAAAGTTT-
1 ATTTTTAAAGTTCCCTGCCAATGTTTATAGAAGC-CTTTTTCAAAGA-GAGATTTTTAAAGTTTC
** * * *
17277673 CTAGCCTATGTTTAT-AGAAG-CTTTTTTCAAATTGAGATTTTTAAAA-TTCCCTACCCA-AGTT
64 CTA-CCTATGTTTATAAG-AGCCCATTTTCAAAGTGA-AATTTTAAAAGTTCCCTACCTATA-TT
* * *
17277734 TGTAAGAGTCATTTTTTCAAAAT-AAG
125 TATAAGAG-C-CTATTTC-AAATCAAG
** * * * * *
17277760 ATTTTTAAAGTT-TTTAACCTATGTTTATAAAAGCC-TTTTC-TAGATGAGATTTTTAAAGTTCC
1 ATTTTTAAAGTTCCCT-GCCAATGTTTATAGAAGCCTTTTTCAAAGA-GAGATTTTTAAAGTTTC
* * * * * *
17277822 CTACCTATGTTTATAGGAGCCCTTTTTCAAAATAAGAGATTTTTAAAGTT-CCTACCTATGTTTA
64 CTACCTATGTTTATAAGAGCCCATTTTCAAAGT--GAAATTTTAAAAGTTCCCTACCTATATTTA
* * *
17277886 T-AGAAACGTTTTTTCTAAAT-AAG
127 TAAG-AGC-CTATTTC-AAATCAAG
* * * ** *
17277909 ATTTTTAAAGTT-TCTAGCCTATGTTTATAGAAACCTTTTTCAAATTGAAATTTTTAAAG-TTCC
1 ATTTTTAAAGTTCCCT-GCCAATGTTTATAGAAGCCTTTTTCAAAGAGAGATTTTTAAAGTTTCC
* * * * * * * ** *
17277972 TTGCCTTTGTTTATAGGAGGCCTTTTTCAAAATGAGATTTTTAAAA-TT-TTTAGCCCAT-TTTA
65 -TACCTATGTTTATAAGAGCCCATTTTCAAAGTGA-AATTTTAAAAGTTCCCTA-CCTATATTTA
* *
17278034 TAAGAGCCT-TTTCTAGAT-GAG
127 TAAGAGCCTATTTC-AAATCAAG
* * * * * * * *
17278055 ATTTTTAAAATTCCCTACCTATATTTATA-AGAGCC-ATTTCAAAAATAGAGATTCTTAAAGTTC
1 ATTTTTAAAGTTCCCTGCCAATGTTTATAGA-AGCCTTTTTC--AAAGAGAGATTTTTAAAGTTT
* *** * ** *
17278118 CCTACCTATGTTTATAGGAG-TTTTTTTTAAA-ACAAGATTTTAAAAGTTCCCTACCTATGTTTA
63 CCTACCTATGTTTATAAGAGCCCATTTTCAAAGTGAA-ATTTTAAAAGTTCCCTACCTATATTTA
17278181 T-AGCAGCCTATTTCAAATCAAG
127 TAAG-AGCCTATTTCAAATCAAG
*
17278203 ATTTTTAAAGTTCCCTG-CAATGTTTATAGGAGCCTTTTTCAAAGCA-AGATTTTT-AA-TTTCC
1 ATTTTTAAAGTTCCCTGCCAATGTTTATAGAAGCCTTTTTCAAAG-AGAGATTTTTAAAGTTT-C
* *
17278264 CTGCCTATGTTTATAAGA-CCCATTTTCAAAGTGAAATTTTTAAAGTTCCCTACCTATATTTATA
64 CTACCTATGTTTATAAGAGCCCATTTTCAAAGTGAAATTTTAAAAGTTCCCTACCTATATTTATA
* *
17278328 AGAGCTTTTTTCAAATCAAG
129 AGAGCCTATTTCAAATCAAG
* * **
17278348 ATTTTTAAAGTTCCTTGCCTATGTTTATAGAAGCCTTTTTTTAAGATGAGATTTTTAAAGTTTCC
1 ATTTTTAAAGTTCCCTGCCAATGTTTATAGAAGCCTTTTTCAAAGA-GAGATTTTTAAAGTTTCC
* *
17278413 TACTTATGTTTATAAGAGCCCTTTTTCAAA
65 TACCTATGTTTATAAGAGCCCATTTTCAAA
17278443 AAAAAAAACT
Statistics
Matches: 547, Mismatches: 95, Indels: 83
0.75 0.13 0.11
Matches are distributed among these distances:
144 3 0.01
145 99 0.18
146 88 0.16
147 72 0.13
148 94 0.17
149 95 0.17
150 91 0.17
151 5 0.01
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (148 bp):
ATTTTTAAAGTTCCCTGCCAATGTTTATAGAAGCCTTTTTCAAAGAGAGATTTTTAAAGTTTCCT
ACCTATGTTTATAAGAGCCCATTTTCAAAGTGAAATTTTAAAAGTTCCCTACCTATATTTATAAG
AGCCTATTTCAAATCAAG
Found at i:17280849 original size:18 final size:20
Alignment explanation
Indices: 17280820--17280913 Score: 63
Period size: 19 Copynumber: 5.0 Consensus size: 20
17280810 ACATTCATTT
*
17280820 CCCATGAAAA-CCTAAATCA
1 CCCATGAAAACCCTAAACCA
17280839 CCCAT-AAAACCCTAAACCA
1 CCCATGAAAACCCTAAACCA
* ** ** *
17280858 -CCTTCTAAATACTCAACCA
1 CCCATGAAAACCCTAAACCA
* *
17280877 CCCA-CAGAACCCTAAACCA
1 CCCATGAAAACCCTAAACCA
*
17280896 CCCATG-AAACCTTAAACC
1 CCCATGAAAACCCTAAACC
17280914 TAAAACCCAA
Statistics
Matches: 56, Mismatches: 15, Indels: 8
0.71 0.19 0.10
Matches are distributed among these distances:
18 7 0.12
19 47 0.84
20 2 0.04
ACGTcount: A:0.43, C:0.39, G:0.03, T:0.15
Consensus pattern (20 bp):
CCCATGAAAACCCTAAACCA
Found at i:17280935 original size:6 final size:6
Alignment explanation
Indices: 17280926--17280975 Score: 55
Period size: 7 Copynumber: 7.5 Consensus size: 6
17280916 AAACCCAAAA
17280926 AAACCT AAACCTT AAACTCT AAACCT CAAACCTT AAACCT AAACCCT AAA
1 AAACCT AAACC-T AAAC-CT AAACCT -AAACC-T AAACCT AAA-CCT AAA
17280976 TTCCAAATCC
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
6 11 0.28
7 26 0.67
8 2 0.05
ACGTcount: A:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (6 bp):
AAACCT
Found at i:17281007 original size:26 final size:27
Alignment explanation
Indices: 17280932--17281017 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 27
17280922 AAAAAAACCT
* * **
17280932 AAACCTTAAACTCTAAACCTCAAACCTT
1 AAACC-TAAACCCTAAACCCCAAACCCC
** *
17280960 AAACCTAAACCCTAAATTCCAAA-TCC
1 AAACCTAAACCCTAAACCCCAAACCCC
*
17280986 AAACCTCAACCCTAAACCCCAAACCCC
1 AAACCTAAACCCTAAACCCCAAACCCC
17281013 AAACC
1 AAACC
17281018 CATAGACCTT
Statistics
Matches: 46, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
26 20 0.43
27 21 0.46
28 5 0.11
ACGTcount: A:0.44, C:0.40, G:0.00, T:0.16
Consensus pattern (27 bp):
AAACCTAAACCCTAAACCCCAAACCCC
Found at i:17281015 original size:33 final size:33
Alignment explanation
Indices: 17280952--17281015 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
17280942 CTCTAAACCT
* * **
17280952 CAAACCTTAAACCTAAACCCTAAATTCCAAATC
1 CAAACCTCAAACCTAAACCCCAAACCCCAAATC
*
17280985 CAAACCTCAACCCTAAACCCCAAACCCCAAA
1 CAAACCTCAAACCTAAACCCCAAACCCCAAA
17281016 CCCATAGACC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.45, C:0.41, G:0.00, T:0.14
Consensus pattern (33 bp):
CAAACCTCAAACCTAAACCCCAAACCCCAAATC
Found at i:17284568 original size:53 final size:53
Alignment explanation
Indices: 17284488--17284588 Score: 157
Period size: 53 Copynumber: 1.9 Consensus size: 53
17284478 AATCATATAT
* ** * *
17284488 TTAATTTTATATGGATAGAAAGTCTCTTAAGTTTAGTTTTTAAATCTTCAAAA
1 TTAATTTTATATGGATAAAAAACCTCTTAAGTCTAGTTTCTAAATCTTCAAAA
17284541 TTAATTTTATATGGATAAAAAACCTCTTAAGTCTAGTTTCTAAATCTT
1 TTAATTTTATATGGATAAAAAACCTCTTAAGTCTAGTTTCTAAATCTT
17284589 TAAATGGATT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 43 1.00
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.45
Consensus pattern (53 bp):
TTAATTTTATATGGATAAAAAACCTCTTAAGTCTAGTTTCTAAATCTTCAAAA
Found at i:17290109 original size:14 final size:13
Alignment explanation
Indices: 17290076--17290100 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17290066 CTAGAGGGGG
17290076 AATAAAAGAAAAA
1 AATAAAAGAAAAA
17290089 AATAAAAGAAAA
1 AATAAAAGAAAA
17290101 TAGATAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (13 bp):
AATAAAAGAAAAA
Found at i:17290256 original size:16 final size:17
Alignment explanation
Indices: 17290237--17290273 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
17290227 AACACATATT
*
17290237 AAAAAGAAAGAA-AATG
1 AAAAAGAAAAAATAATG
17290253 -AAAAGAAAAAATAATG
1 AAAAAGAAAAAATAATG
17290269 AAAAA
1 AAAAA
17290274 TATTTTTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 10 0.56
16 4 0.22
17 4 0.22
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.08
Consensus pattern (17 bp):
AAAAAGAAAAAATAATG
Found at i:17290522 original size:24 final size:24
Alignment explanation
Indices: 17290483--17290532 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
17290473 TAAAAAAGTT
17290483 ATTCTATCATACTATTAATTTTAC
1 ATTCTATCATACTATTAATTTTAC
* *
17290507 ATTCTATTATATTATTAATTTTAC
1 ATTCTATCATACTATTAATTTTAC
17290531 AT
1 AT
17290533 GTAATAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.34, C:0.12, G:0.00, T:0.54
Consensus pattern (24 bp):
ATTCTATCATACTATTAATTTTAC
Found at i:17290819 original size:11 final size:11
Alignment explanation
Indices: 17290803--17290833 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
17290793 AAGTGATTCA
17290803 TAAAATTAATT
1 TAAAATTAATT
17290814 TAAAA-TAATT
1 TAAAATTAATT
17290824 TAAAATTAAT
1 TAAAATTAAT
17290834 CTAATTGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TAAAATTAATT
Found at i:17290844 original size:21 final size:22
Alignment explanation
Indices: 17290803--17290852 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
17290793 AAGTGATTCA
*
17290803 TAAAATTAATTTAAAATAA-TT
1 TAAAATTAATCTAAAATAATTT
*
17290824 TAAAATTAATCT-AATTGAATTT
1 TAAAATTAATCTAAAAT-AATTT
17290846 TAAAATT
1 TAAAATT
17290853 TAATAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 3 0.12
21 13 0.52
22 9 0.36
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
TAAAATTAATCTAAAATAATTT
Found at i:17293991 original size:13 final size:13
Alignment explanation
Indices: 17293973--17293997 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17293963 TTCTTAGTTT
17293973 TTTTTTTTTTTTC
1 TTTTTTTTTTTTC
17293986 TTTTTTTTTTTT
1 TTTTTTTTTTTT
17293998 TGGTTGAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.04, G:0.00, T:0.96
Consensus pattern (13 bp):
TTTTTTTTTTTTC
Found at i:17293991 original size:14 final size:14
Alignment explanation
Indices: 17293972--17293998 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
17293962 CTTCTTAGTT
17293972 TTTTTTTTTTTTTC
1 TTTTTTTTTTTTTC
17293986 TTTTTTTTTTTTT
1 TTTTTTTTTTTTT
17293999 GGTTGAAGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.04, G:0.00, T:0.96
Consensus pattern (14 bp):
TTTTTTTTTTTTTC
Found at i:17295150 original size:260 final size:261
Alignment explanation
Indices: 17294548--17296111 Score: 3053
Period size: 261 Copynumber: 6.0 Consensus size: 261
17294538 TCTTCTTAAA
17294548 TCTGTTTACAGTGGTTGTTCTAATTTTTTATTAAACACTCCTGCCGCCCCATAAAGAGAGTTTCA
1 TCTGTTTACAGTGGTTGTTCTAATTTTTTATTAAACACTCCTGCCGCCCCATAAAGAGAGTTTCA
*
17294613 GTTTGATTTTGGGGACTGTTAAGAAAATGTTTTGAACTTTT-TTGAGTGCTCAACTTTGCATACA
66 GTTTGATTTTGGGGACTGTTAAGAAAATGTTTTGAACTTTTATCGAGTGCTCAACTTTGCATACA
17294677 TTTATTGATTTTGACCTGGAAAAGGTATAAAACTAGTGAAGGTTAATTTGGAAACTTTTGTGGAA
131 TTTATTGATTTTGACCTGGAAAAGGTATAAAACTAGTGAAGGTTAATTTGGAAACTTTTGTGGAA
17294742 CAATCTTACTCACTTTTCAAATGTGACTAATTGGGTAGGATATAGCTATGGAAACAAGACAGTGT
196 CAATCTTACTCACTTTTCAAATGTGACTAATTGGGTAGGATATAGCTATGGAAACAAGACAGTGT
17294807 T
261 T
17294808 TCTGTTTACAGTGGTTGTTCTAATTTTTTATTAAACACTCCTGCCGCCCCATAAAGAGAGTTTCA
1 TCTGTTTACAGTGGTTGTTCTAATTTTTTATTAAACACTCCTGCCGCCCCATAAAGAGAGTTTCA
*
17294873 GTTTGATTTTGGGGACTGTTAAGAAAATGTTTTGAACTTTTATTGAGTGCTCAACTTTGCATACA
66 GTTTGATTTTGGGGACTGTTAAGAAAATGTTTTGAACTTTTATCGAGTGCTCAACTTTGCATACA
*
17294938 TTTATTGATTTTGACCTGGAAAAGGTATAAAACTAGTGACGGTTAATTTGGAAACTTTTGTGGAA
131 TTTATTGATTTTGACCTGGAAAAGGTATAAAACTAGTGAAGGTTAATTTGGAAACTTTTGTGGAA
17295003 CAATCTTACTCACTTTTCAAATGTGACTAATTGGGTAGGATATAGCTATGGAAACAAGACAGTGT
196 CAATCTTACTCACTTTTCAAATGTGACTAATTGGGTAGGATATAGCTATGGAAACAAGACAGTGT
17295068 T
261 T
17295069 TCTGTTTACAGTGGTTGTTCTAATTTTTTATTAAACACTCCTGCCGCCCCATAAAGAGAGTTTCA
1 TCTGTTTACAGTGGTTGTTCTAATTTTTTATTAAACACTCCTGCCGCCCCATAAAGAGAGTTTCA
17295134 GTTTGATTTT-GGGACTGTTAAGAAAATGTTTTGAACTTTTATCGAGTGCTCAACTTTGCATACA
66 GTTTGATTTTGGGGACTGTTAAGAAAATGTTTTGAACTTTTATCGAGTGCTCAACTTTGCATACA
17295198 TTTATTGATTTTGACCTGGAAAAGGTATAAAACTAGTGAAGGTTAATTTGGAAACTTTTGTGGAA
131 TTTATTGATTTTGACCTGGAAAAGGTATAAAACTAGTGAAGGTTAATTTGGAAACTTTTGTGGAA
17295263 CAATCTTACTCACTTTTCAAATGTGACTAATTGGGTAGGATATAGCTATGGAAACAAGACAGTGT
196 CAATCTTACTCACTTTTCAAATGTGACTAATTGGGTAGGATATAGCTATGGAAACAAGACAGTGT
17295328 T
261 T
*
17295329 TCTGTTTACAGTGGTTGTTCTAATTTTTTATTAAACACTCCTGCCACCCCATAAAGAGAGTTTCA
1 TCTGTTTACAGTGGTTGTTCTAATTTTTTATTAAACACTCCTGCCGCCCCATAAAGAGAGTTTCA
*
17295394 GTTTGATTTTGGGGACTGTTAAGAAAATGTTTTGAAC-TTTATTGAGTGCTCAACTTTGCATACA
66 GTTTGATTTTGGGGACTGTTAAGAAAATGTTTTGAACTTTTATCGAGTGCTCAACTTTGCATACA
*
17295458 TTTATTGATTTTGACCTGGAAAAGGTATAAAACTAGTGACGGTTAATTTGGAAACTTTTGTGGAA
131 TTTATTGATTTTGACCTGGAAAAGGTATAAAACTAGTGAAGGTTAATTTGGAAACTTTTGTGGAA
17295523 CAATCTTACTCACTTTTCAAATGTGACTAATTGGGTAGGATATAGCTATGGAAACAAGACAGTGT
196 CAATCTTACTCACTTTTCAAATGTGACTAATTGGGTAGGATATAGCTATGGAAACAAGACAGTGT
17295588 T
261 T
17295589 TCTGTTTACAGTGGTTGTTCTAATTTTTTATTAAACACTCCTGCCGCCCCATAAAGAGAGTTTCA
1 TCTGTTTACAGTGGTTGTTCTAATTTTTTATTAAACACTCCTGCCGCCCCATAAAGAGAGTTTCA
17295654 GTTTGATTTTGGGGACTGTTAAGAAAATGTTTTGAACTTTTATCGAGTGCTCAACTTTGCATACA
66 GTTTGATTTTGGGGACTGTTAAGAAAATGTTTTGAACTTTTATCGAGTGCTCAACTTTGCATACA
17295719 TTTATTGATTTTGACCTGGAAAAGGTATAAAACTAGTGAAGGTTAATTTGGAAACTTTTGTGGAA
131 TTTATTGATTTTGACCTGGAAAAGGTATAAAACTAGTGAAGGTTAATTTGGAAACTTTTGTGGAA
17295784 CAATCTTACTCACTTTTCAAATGTGACTAATTGGGTAGGATATAGCTATGGAAACAAGACAGTGT
196 CAATCTTACTCACTTTTCAAATGTGACTAATTGGGTAGGATATAGCTATGGAAACAAGACAGTGT
17295849 T
261 T
17295850 TCTGTTTACAGTGGTTGTTCTAATTTTTTATTAAACACTCCTGCCGCCCCATAAAGAGAGTTTCA
1 TCTGTTTACAGTGGTTGTTCTAATTTTTTATTAAACACTCCTGCCGCCCCATAAAGAGAGTTTCA
17295915 GTTTGATTTTGGGGACTGTTAAGAAAATGTTTTGAACTTTTATCGAGTGCTCAACTTTGCATACA
66 GTTTGATTTTGGGGACTGTTAAGAAAATGTTTTGAACTTTTATCGAGTGCTCAACTTTGCATACA
17295980 TTTATTGATTTTGACCTGGAAAAGGTATAAAACTAGTGAAGGTTAATTTGGAAACTTTTGTGGAA
131 TTTATTGATTTTGACCTGGAAAAGGTATAAAACTAGTGAAGGTTAATTTGGAAACTTTTGTGGAA
17296045 CAATCTTACTCACTTTTCAAATGTGACTAATTGGGTAGGATATAGCTATGGAAACAAGACAGTGT
196 CAATCTTACTCACTTTTCAAATGTGACTAATTGGGTAGGATATAGCTATGGAAACAAGACAGTGT
17296110 T
261 T
17296111 T
1 T
17296112 ATAGGAAAAG
Statistics
Matches: 1292, Mismatches: 9, Indels: 5
0.99 0.01 0.00
Matches are distributed among these distances:
260 620 0.48
261 672 0.52
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (261 bp):
TCTGTTTACAGTGGTTGTTCTAATTTTTTATTAAACACTCCTGCCGCCCCATAAAGAGAGTTTCA
GTTTGATTTTGGGGACTGTTAAGAAAATGTTTTGAACTTTTATCGAGTGCTCAACTTTGCATACA
TTTATTGATTTTGACCTGGAAAAGGTATAAAACTAGTGAAGGTTAATTTGGAAACTTTTGTGGAA
CAATCTTACTCACTTTTCAAATGTGACTAATTGGGTAGGATATAGCTATGGAAACAAGACAGTGT
T
Found at i:17295671 original size:521 final size:522
Alignment explanation
Indices: 17294548--17296111 Score: 3071
Period size: 521 Copynumber: 3.0 Consensus size: 522
17294538 TCTTCTTAAA
17294548 TCTGTTTACAGTGGTTGTTCTAATTTTTTATTAAACACTCCTGCCGCCCCATAAAGAGAGTTTCA
1 TCTGTTTACAGTGGTTGTTCTAATTTTTTATTAAACACTCCTGCCGCCCCATAAAGAGAGTTTCA
*
17294613 GTTTGATTTTGGGGACTGTTAAGAAAATGTTTTGAACTTTT-TTGAGTGCTCAACTTTGCATACA
66 GTTTGATTTTGGGGACTGTTAAGAAAATGTTTTGAACTTTTATCGAGTGCTCAACTTTGCATACA
17294677 TTTATTGATTTTGACCTGGAAAAGGTATAAAACTAGTGAAGGTTAATTTGGAAACTTTTGTGGAA
131 TTTATTGATTTTGACCTGGAAAAGGTATAAAACTAGTGAAGGTTAATTTGGAAACTTTTGTGGAA
17294742 CAATCTTACTCACTTTTCAAATGTGACTAATTGGGTAGGATATAGCTATGGAAACAAGACAGTGT
196 CAATCTTACTCACTTTTCAAATGTGACTAATTGGGTAGGATATAGCTATGGAAACAAGACAGTGT
17294807 TTCTGTTTACAGTGGTTGTTCTAATTTTTTATTAAACACTCCTGCCGCCCCATAAAGAGAGTTTC
261 TTCTGTTTACAGTGGTTGTTCTAATTTTTTATTAAACACTCCTGCCGCCCCATAAAGAGAGTTTC
17294872 AGTTTGATTTTGGGGACTGTTAAGAAAATGTTTTGAACTTTTATTGAGTGCTCAACTTTGCATAC
326 AGTTTGATTTTGGGGACTGTTAAGAAAATGTTTTGAACTTTTATTGAGTGCTCAACTTTGCATAC
17294937 ATTTATTGATTTTGACCTGGAAAAGGTATAAAACTAGTGACGGTTAATTTGGAAACTTTTGTGGA
391 ATTTATTGATTTTGACCTGGAAAAGGTATAAAACTAGTGACGGTTAATTTGGAAACTTTTGTGGA
17295002 ACAATCTTACTCACTTTTCAAATGTGACTAATTGGGTAGGATATAGCTATGGAAACAAGACAGTG
456 ACAATCTTACTCACTTTTCAAATGTGACTAATTGGGTAGGATATAGCTATGGAAACAAGACAGTG
17295067 TT
521 TT
17295069 TCTGTTTACAGTGGTTGTTCTAATTTTTTATTAAACACTCCTGCCGCCCCATAAAGAGAGTTTCA
1 TCTGTTTACAGTGGTTGTTCTAATTTTTTATTAAACACTCCTGCCGCCCCATAAAGAGAGTTTCA
17295134 GTTTGATTTT-GGGACTGTTAAGAAAATGTTTTGAACTTTTATCGAGTGCTCAACTTTGCATACA
66 GTTTGATTTTGGGGACTGTTAAGAAAATGTTTTGAACTTTTATCGAGTGCTCAACTTTGCATACA
17295198 TTTATTGATTTTGACCTGGAAAAGGTATAAAACTAGTGAAGGTTAATTTGGAAACTTTTGTGGAA
131 TTTATTGATTTTGACCTGGAAAAGGTATAAAACTAGTGAAGGTTAATTTGGAAACTTTTGTGGAA
17295263 CAATCTTACTCACTTTTCAAATGTGACTAATTGGGTAGGATATAGCTATGGAAACAAGACAGTGT
196 CAATCTTACTCACTTTTCAAATGTGACTAATTGGGTAGGATATAGCTATGGAAACAAGACAGTGT
*
17295328 TTCTGTTTACAGTGGTTGTTCTAATTTTTTATTAAACACTCCTGCCACCCCATAAAGAGAGTTTC
261 TTCTGTTTACAGTGGTTGTTCTAATTTTTTATTAAACACTCCTGCCGCCCCATAAAGAGAGTTTC
17295393 AGTTTGATTTTGGGGACTGTTAAGAAAATGTTTTGAAC-TTTATTGAGTGCTCAACTTTGCATAC
326 AGTTTGATTTTGGGGACTGTTAAGAAAATGTTTTGAACTTTTATTGAGTGCTCAACTTTGCATAC
17295457 ATTTATTGATTTTGACCTGGAAAAGGTATAAAACTAGTGACGGTTAATTTGGAAACTTTTGTGGA
391 ATTTATTGATTTTGACCTGGAAAAGGTATAAAACTAGTGACGGTTAATTTGGAAACTTTTGTGGA
17295522 ACAATCTTACTCACTTTTCAAATGTGACTAATTGGGTAGGATATAGCTATGGAAACAAGACAGTG
456 ACAATCTTACTCACTTTTCAAATGTGACTAATTGGGTAGGATATAGCTATGGAAACAAGACAGTG
17295587 TT
521 TT
17295589 TCTGTTTACAGTGGTTGTTCTAATTTTTTATTAAACACTCCTGCCGCCCCATAAAGAGAGTTTCA
1 TCTGTTTACAGTGGTTGTTCTAATTTTTTATTAAACACTCCTGCCGCCCCATAAAGAGAGTTTCA
17295654 GTTTGATTTTGGGGACTGTTAAGAAAATGTTTTGAACTTTTATCGAGTGCTCAACTTTGCATACA
66 GTTTGATTTTGGGGACTGTTAAGAAAATGTTTTGAACTTTTATCGAGTGCTCAACTTTGCATACA
17295719 TTTATTGATTTTGACCTGGAAAAGGTATAAAACTAGTGAAGGTTAATTTGGAAACTTTTGTGGAA
131 TTTATTGATTTTGACCTGGAAAAGGTATAAAACTAGTGAAGGTTAATTTGGAAACTTTTGTGGAA
17295784 CAATCTTACTCACTTTTCAAATGTGACTAATTGGGTAGGATATAGCTATGGAAACAAGACAGTGT
196 CAATCTTACTCACTTTTCAAATGTGACTAATTGGGTAGGATATAGCTATGGAAACAAGACAGTGT
17295849 TTCTGTTTACAGTGGTTGTTCTAATTTTTTATTAAACACTCCTGCCGCCCCATAAAGAGAGTTTC
261 TTCTGTTTACAGTGGTTGTTCTAATTTTTTATTAAACACTCCTGCCGCCCCATAAAGAGAGTTTC
*
17295914 AGTTTGATTTTGGGGACTGTTAAGAAAATGTTTTGAACTTTTATCGAGTGCTCAACTTTGCATAC
326 AGTTTGATTTTGGGGACTGTTAAGAAAATGTTTTGAACTTTTATTGAGTGCTCAACTTTGCATAC
*
17295979 ATTTATTGATTTTGACCTGGAAAAGGTATAAAACTAGTGAAGGTTAATTTGGAAACTTTTGTGGA
391 ATTTATTGATTTTGACCTGGAAAAGGTATAAAACTAGTGACGGTTAATTTGGAAACTTTTGTGGA
17296044 ACAATCTTACTCACTTTTCAAATGTGACTAATTGGGTAGGATATAGCTATGGAAACAAGACAGTG
456 ACAATCTTACTCACTTTTCAAATGTGACTAATTGGGTAGGATATAGCTATGGAAACAAGACAGTG
17296109 TT
521 TT
17296111 T
1 T
17296112 ATAGGAAAAG
Statistics
Matches: 1035, Mismatches: 5, Indels: 5
0.99 0.00 0.00
Matches are distributed among these distances:
520 263 0.25
521 615 0.59
522 157 0.15
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (522 bp):
TCTGTTTACAGTGGTTGTTCTAATTTTTTATTAAACACTCCTGCCGCCCCATAAAGAGAGTTTCA
GTTTGATTTTGGGGACTGTTAAGAAAATGTTTTGAACTTTTATCGAGTGCTCAACTTTGCATACA
TTTATTGATTTTGACCTGGAAAAGGTATAAAACTAGTGAAGGTTAATTTGGAAACTTTTGTGGAA
CAATCTTACTCACTTTTCAAATGTGACTAATTGGGTAGGATATAGCTATGGAAACAAGACAGTGT
TTCTGTTTACAGTGGTTGTTCTAATTTTTTATTAAACACTCCTGCCGCCCCATAAAGAGAGTTTC
AGTTTGATTTTGGGGACTGTTAAGAAAATGTTTTGAACTTTTATTGAGTGCTCAACTTTGCATAC
ATTTATTGATTTTGACCTGGAAAAGGTATAAAACTAGTGACGGTTAATTTGGAAACTTTTGTGGA
ACAATCTTACTCACTTTTCAAATGTGACTAATTGGGTAGGATATAGCTATGGAAACAAGACAGTG
TT
Found at i:17298915 original size:16 final size:16
Alignment explanation
Indices: 17298894--17298941 Score: 71
Period size: 16 Copynumber: 3.0 Consensus size: 16
17298884 TGACTCTTAA
17298894 AACTAGGTTCAT-AGAT
1 AACTAGGTTCATGA-AT
*
17298910 AACTAGATTCATGAAT
1 AACTAGGTTCATGAAT
17298926 AACTAGGTTCATGAAT
1 AACTAGGTTCATGAAT
17298942 GGCTAGAGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 28 0.97
17 1 0.03
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (16 bp):
AACTAGGTTCATGAAT
Found at i:17300025 original size:31 final size:31
Alignment explanation
Indices: 17299990--17300052 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
17299980 TTTTATAGAC
*
17299990 ATAAAATGTAAAATATGCACTTTAAATTTTT
1 ATAAAATATAAAATATGCACTTTAAATTTTT
* * * *
17300021 ATAAAATATACAATTTGCATTTTGAATTTTT
1 ATAAAATATAAAATATGCACTTTAAATTTTT
17300052 A
1 A
17300053 AATTATTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.44
Consensus pattern (31 bp):
ATAAAATATAAAATATGCACTTTAAATTTTT
Found at i:17304303 original size:143 final size:143
Alignment explanation
Indices: 17304030--17304310 Score: 474
Period size: 143 Copynumber: 2.0 Consensus size: 143
17304020 CTTAAGTTAA
* *
17304030 TTCAATCAAGACTAGTTGAGATACTCTCTTGATCACACAAGGTGATGAATCCCATCTTAATTATG
1 TTCAATCAAGACTAGTTGAAATACTCTCTCGATCACACAAGGTGATGAATCCCATCTTAATTATG
17304095 CATCGTCATATGCCCATGTTATACCCAACAATACTCAACTAGAGCATTCTTGGTTATCATGATAT
66 CATCGTCATATGCCCATGTTATACCCAACAATACTCAACTAGAGCATTCTTGGTTATCATGATAT
17304160 CTCGAGACTCGAG
131 CTCGAGACTCGAG
* *
17304173 TTCAATCAAGA-TAGTTGAAATACTCTCTCGATCACACATGGTGATGAATCTCATCTTAATTATG
1 TTCAATCAAGACTAGTTGAAATACTCTCTCGATCACACAAGGTGATGAATCCCATCTTAATTATG
* * * *
17304237 CATTGTCATATGCCTCATGTTATATCCAACAATACTCGACTAGAGCATTCTTGGTTGTCATGATA
66 CATCGTCATATGCC-CATGTTATACCCAACAATACTCAACTAGAGCATTCTTGGTTATCATGATA
17304302 TCTCGAGAC
130 TCTCGAGAC
17304311 CCAGGTGTGA
Statistics
Matches: 129, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
142 62 0.48
143 67 0.52
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.32
Consensus pattern (143 bp):
TTCAATCAAGACTAGTTGAAATACTCTCTCGATCACACAAGGTGATGAATCCCATCTTAATTATG
CATCGTCATATGCCCATGTTATACCCAACAATACTCAACTAGAGCATTCTTGGTTATCATGATAT
CTCGAGACTCGAG
Found at i:17304684 original size:22 final size:23
Alignment explanation
Indices: 17304659--17304706 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
17304649 AATGTTTAAA
17304659 ATTA-ATTCCTTTTC-TTCTTTTT
1 ATTATATTCCTTTTCATT-TTTTT
* *
17304681 ATTATTTTCTTTTTCATTTTTTT
1 ATTATATTCCTTTTCATTTTTTT
17304704 ATT
1 ATT
17304707 TTTTTTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 4 0.18
23 16 0.73
24 2 0.09
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (23 bp):
ATTATATTCCTTTTCATTTTTTT
Found at i:17304702 original size:23 final size:23
Alignment explanation
Indices: 17304668--17304711 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
17304658 AATTAATTCC
17304668 TTTTCTTCTTTTTATTATTTTCT
1 TTTTCTTCTTTTTATTATTTTCT
*
17304691 TTTTCATT-TTTTTATTTTTTT
1 TTTTC-TTCTTTTTATTATTTT
17304712 TGAAACAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTTCTTCTTTTTATTATTTTCT
Found at i:17305221 original size:13 final size:13
Alignment explanation
Indices: 17305200--17305311 Score: 74
Period size: 13 Copynumber: 8.6 Consensus size: 13
17305190 GGGTTTAGGC
*
17305200 TAGGGTTAGGGTT
1 TAGGTTTAGGGTT
17305213 TAGGTTTA-GGTT
1 TAGGTTTAGGGTT
*
17305225 TAGATTTTAGGG-T
1 TAG-GTTTAGGGTT
17305238 TAGGGTTTAGGG-T
1 TA-GGTTTAGGGTT
17305251 TAGGTTTTAGGGTT
1 TAGG-TTTAGGGTT
*
17305265 T-GGCTTTAAGGTT
1 TAGG-TTTAGGGTT
*
17305278 TAAGG-TTAGTGTT
1 T-AGGTTTAGGGTT
* *
17305291 T-GATTTAAGGTT
1 TAGGTTTAGGGTT
17305303 TAGGGTTTA
1 TA-GGTTTA
17305312 AATTTGGGGT
Statistics
Matches: 78, Mismatches: 11, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
11 1 0.01
12 16 0.21
13 49 0.63
14 10 0.13
15 2 0.03
ACGTcount: A:0.19, C:0.01, G:0.35, T:0.46
Consensus pattern (13 bp):
TAGGTTTAGGGTT
Found at i:17305238 original size:26 final size:26
Alignment explanation
Indices: 17305205--17305279 Score: 91
Period size: 26 Copynumber: 2.8 Consensus size: 26
17305195 TAGGCTAGGG
17305205 TTAGGGTTTAGGTTTAGGTTTAGATT
1 TTAGGGTTTAGGTTTAGGTTTAGATT
* *
17305231 TTAGGG-TTAGGGTTTAGGGTTAGGTT
1 TTAGGGTTTA-GGTTTAGGTTTAGATT
17305257 TTAGGGTTT-GGCTTTAAGGTTTA
1 TTAGGGTTTAGG-TTT-AGGTTTA
17305280 AGGTTAGTGT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
25 5 0.12
26 29 0.69
27 8 0.19
ACGTcount: A:0.17, C:0.01, G:0.35, T:0.47
Consensus pattern (26 bp):
TTAGGGTTTAGGTTTAGGTTTAGATT
Found at i:17305247 original size:7 final size:7
Alignment explanation
Indices: 17305200--17305330 Score: 84
Period size: 7 Copynumber: 20.1 Consensus size: 7
17305190 GGGTTTAGGC
17305200 TAGGG-T
1 TAGGGTT
17305206 TAGGGTT
1 TAGGGTT
17305213 TA-GGTT
1 TAGGGTT
17305219 TA-GGTT
1 TAGGGTT
**
17305225 TAGATTT
1 TAGGGTT
17305232 TAGGG-T
1 TAGGGTT
17305238 TAGGGTT
1 TAGGGTT
17305245 TAGGG-T
1 TAGGGTT
*
17305251 TAGGTTT
1 TAGGGTT
17305258 TAGGGTT
1 TAGGGTT
*
17305265 T-GGCTT
1 TAGGGTT
*
17305271 TAAGGTT
1 TAGGGTT
*
17305278 TAAGG-T
1 TAGGGTT
*
17305284 TAGTGTT
1 TAGGGTT
*
17305291 T--GATT
1 TAGGGTT
*
17305296 TAAGGTT
1 TAGGGTT
17305303 TAGGGTT
1 TAGGGTT
**
17305310 TA-AATT
1 TAGGGTT
*
17305316 TGGGGTT
1 TAGGGTT
17305323 TAGGGTT
1 TAGGGTT
17305330 T
1 T
17305331 GGATTTAAGG
Statistics
Matches: 95, Mismatches: 21, Indels: 17
0.71 0.16 0.13
Matches are distributed among these distances:
5 3 0.03
6 40 0.42
7 52 0.55
ACGTcount: A:0.18, C:0.01, G:0.35, T:0.46
Consensus pattern (7 bp):
TAGGGTT
Found at i:17305296 original size:65 final size:65
Alignment explanation
Indices: 17305209--17305341 Score: 162
Period size: 65 Copynumber: 2.0 Consensus size: 65
17305199 CTAGGGTTAG
* ** * *
17305209 GGTTTAGGTTTAGGTTTAGATTTTAGGGTTAGGGTTTAGGGTTAGGTTTTAGGGTTTGGCTTTAA
1 GGTTTAGGTTTAGGTTTAGATTTAAGGGTTAGGGTTTAAAGTTAGGGTTTAGGGTTTGGATTTAA
* * *
17305274 GGTTTAAGG-TTAGTGTTT-GATTTAAGGTTTAGGGTTTAAATTTGGGGTTTAGGGTTTGGATTT
1 GGTTT-AGGTTTAG-GTTTAGATTTAAGGGTTAGGGTTTAAAGTTAGGGTTTAGGGTTTGGATTT
17305337 AA
64 AA
17305339 GGT
1 GGT
17305342 CTCACAAAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
65 51 0.88
66 7 0.12
ACGTcount: A:0.19, C:0.01, G:0.35, T:0.46
Consensus pattern (65 bp):
GGTTTAGGTTTAGGTTTAGATTTAAGGGTTAGGGTTTAAAGTTAGGGTTTAGGGTTTGGATTTAA
Found at i:17307667 original size:21 final size:20
Alignment explanation
Indices: 17307639--17307694 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
17307629 GAATTTGATC
17307639 AATTTTGACCAAGTTTGACT
1 AATTTTGACCAAGTTTGACT
*** *
17307659 AATTTTTGACTTTGTTTGATT
1 AA-TTTTGACCAAGTTTGACT
17307680 AATTTTGACCTAAGT
1 AATTTTGACC-AAGT
17307695 CGACCACAAT
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
20 9 0.33
21 18 0.67
ACGTcount: A:0.27, C:0.11, G:0.14, T:0.48
Consensus pattern (20 bp):
AATTTTGACCAAGTTTGACT
Found at i:17308099 original size:49 final size:50
Alignment explanation
Indices: 17308041--17308143 Score: 145
Period size: 49 Copynumber: 2.1 Consensus size: 50
17308031 AATCAATTTG
* * * *
17308041 AAAAGGCTCCTATGAACATAGGCAATG-ACTTTAAAAAAATTTGTTTGAA
1 AAAAGGCTCCTATGAAAATAGGCAACGAACTTGAAAAAAATTTGTCTGAA
* *
17308090 AAAAGGCTCCTATGAAAATAGGTAACGAACTTGAAAAAAATTTGTCTGGA
1 AAAAGGCTCCTATGAAAATAGGCAACGAACTTGAAAAAAATTTGTCTGAA
17308140 AAAA
1 AAAA
17308144 CTCTTGGCTT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
49 24 0.51
50 23 0.49
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (50 bp):
AAAAGGCTCCTATGAAAATAGGCAACGAACTTGAAAAAAATTTGTCTGAA
Found at i:17312129 original size:174 final size:174
Alignment explanation
Indices: 17311826--17312150 Score: 438
Period size: 174 Copynumber: 1.9 Consensus size: 174
17311816 ATTACTACAA
* * ** *
17311826 CTTGACTTTGGATGTTGGCATTTTTATCTTGCATCTATTGGGTTAACATATCATCAAAACTTTGT
1 CTTGACTTTGGATGTTGGCATTGTTAGCTTGCATCTACAGGGTCAACATATCATCAAAACTTTGT
* *** *
17311891 TTCTTTTCCTAGGGTGGGTTGTAAGTTGCTAAATTTGGGTGATAGTTATTATTTTAGTTGTTGGT
66 TTCTTTTCCTAGGGTGGGTTGTAAGTTGCTAAATTAGGCCAATAGTTATTATTTTAGCTGTTGGT
*
17311956 GGGTTGGCAGTTTGTTTGGTTTTTAAGGTTTTTAATTATTTTAG
131 GGGTTGGCAGTTTGATTGGTTTTTAAGGTTTTTAATTATTTTAG
* *
17312000 CTTGATTTTGGATGTTGGCATTGTTAGCTTGCATC-AGCAGGGTCAACATATCTTCAAAACTTTG
1 CTTGACTTTGGATGTTGGCATTGTTAGCTTGCATCTA-CAGGGTCAACATATCATCAAAACTTTG
* * * **
17312064 TTTCTTTTCTTGGGGTGGGTTGTAAGTTGTTGGATTAGGCCAATAGTTATTATTTT-GACTGTTG
65 TTTCTTTTCCTAGGGTGGGTTGTAAGTTGCTAAATTAGGCCAATAGTTATTATTTTAG-CTGTTG
**
17312128 GTGGGTTGGTGGTTTGATTGGTT
129 GTGGGTTGGCAGTTTGATTGGTT
17312151 CTAAGAAAAT
Statistics
Matches: 129, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
173 2 0.02
174 127 0.98
ACGTcount: A:0.18, C:0.10, G:0.26, T:0.46
Consensus pattern (174 bp):
CTTGACTTTGGATGTTGGCATTGTTAGCTTGCATCTACAGGGTCAACATATCATCAAAACTTTGT
TTCTTTTCCTAGGGTGGGTTGTAAGTTGCTAAATTAGGCCAATAGTTATTATTTTAGCTGTTGGT
GGGTTGGCAGTTTGATTGGTTTTTAAGGTTTTTAATTATTTTAG
Found at i:17315598 original size:17 final size:17
Alignment explanation
Indices: 17315564--17315603 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
17315554 GGAACTATAC
*
17315564 ATGTCAGGTTAGCCTAA
1 ATGTCAGGTTAACCTAA
*
17315581 ATGTCAGGTTAACTTAA
1 ATGTCAGGTTAACCTAA
*
17315598 AAGTCA
1 ATGTCA
17315604 AAAATGCCCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (17 bp):
ATGTCAGGTTAACCTAA
Found at i:17316992 original size:22 final size:21
Alignment explanation
Indices: 17316967--17317110 Score: 78
Period size: 20 Copynumber: 6.8 Consensus size: 21
17316957 TAAACATTAA
17316967 CAACTTGCAATTCAAAGATTCC
1 CAACTTG-AATTCAAAGATTCC
* *
17316989 CAACTTGAATTTGAAA-AGTCC
1 CAACTTGAA-TTCAAAGATTCC
* * * *
17317010 TCAATTTGAAATTAAAAAATTCT
1 -CAACTTG-AATTCAAAGATTCC
* *
17317033 CAACTTGAAATCAAAGATTCT
1 CAACTTGAATTCAAAGATTCC
* * *
17317054 CAA-TTAAATTCAAATATTCA
1 CAACTTGAATTCAAAGATTCC
* * * *
17317074 CAA-ATAAATTCAATGATTCT
1 CAACTTGAATTCAAAGATTCC
* *
17317094 CAATTTGAATTTAAAGA
1 CAACTTGAATTCAAAGA
17317111 CTCATGAAAT
Statistics
Matches: 95, Mismatches: 22, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
20 32 0.34
21 29 0.31
22 29 0.31
23 5 0.05
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.33
Consensus pattern (21 bp):
CAACTTGAATTCAAAGATTCC
Found at i:17317163 original size:37 final size:38
Alignment explanation
Indices: 17317122--17317205 Score: 104
Period size: 37 Copynumber: 2.3 Consensus size: 38
17317112 TCATGAAATG
*
17317122 TTCAAAGATTCG-AAAACATT-TAAAGATTC-TCAAAAGA
1 TTCAAAGATTCGTAAAACATTCAAAAG-TTCAT-AAAAGA
*
17317159 TTC-AAGATTCGTAAAAGATTCAAAAGTTCATAAAAGA
1 TTCAAAGATTCGTAAAACATTCAAAAGTTCATAAAAGA
17317196 TTCAAAGATT
1 TTCAAAGATT
17317206 TGCATAGATT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
36 8 0.20
37 22 0.54
38 11 0.27
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.29
Consensus pattern (38 bp):
TTCAAAGATTCGTAAAACATTCAAAAGTTCATAAAAGA
Found at i:17317165 original size:18 final size:18
Alignment explanation
Indices: 17317144--17317205 Score: 72
Period size: 18 Copynumber: 3.3 Consensus size: 18
17317134 AAAACATTTA
17317144 AAGATTC-TCAAAAGATTC
1 AAGATTCAT-AAAAGATTC
*
17317162 AAGATTCGTAAAAGATTC
1 AAGATTCATAAAAGATTC
*
17317180 AAAAGTTCATAAAAGATTC
1 AAGA-TTCATAAAAGATTC
17317199 AAAGATT
1 -AAGATT
17317206 TGCATAGATT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
18 19 0.50
19 16 0.42
20 3 0.08
ACGTcount: A:0.48, C:0.11, G:0.13, T:0.27
Consensus pattern (18 bp):
AAGATTCATAAAAGATTC
Found at i:17317176 original size:11 final size:10
Alignment explanation
Indices: 17317125--17317198 Score: 54
Period size: 11 Copynumber: 7.8 Consensus size: 10
17317115 TGAAATGTTC
*
17317125 AAAGATTCGA
1 AAAGATTCTA
*
17317135 AAACATT-T-
1 AAAGATTCTA
17317143 AAAGATTCTCA
1 AAAGATTCT-A
17317154 AAAGATTC--
1 AAAGATTCTA
17317162 -AAGATTCGTA
1 AAAGATTC-TA
17317172 AAAGATTC-A
1 AAAGATTCTA
17317181 AAAG-TTCATA
1 AAAGATTC-TA
17317191 AAAGATTC
1 AAAGATTC
17317199 AAAGATTTGC
Statistics
Matches: 51, Mismatches: 3, Indels: 19
0.70 0.04 0.26
Matches are distributed among these distances:
7 7 0.14
8 9 0.18
9 6 0.12
10 11 0.22
11 18 0.35
ACGTcount: A:0.49, C:0.12, G:0.12, T:0.27
Consensus pattern (10 bp):
AAAGATTCTA
Found at i:17317194 original size:19 final size:18
Alignment explanation
Indices: 17317153--17317201 Score: 71
Period size: 19 Copynumber: 2.7 Consensus size: 18
17317143 AAAGATTCTC
* *
17317153 AAAAGATTCAAGATTCGT
1 AAAAGATTCAAAATTCAT
17317171 AAAAGATTCAAAAGTTCAT
1 AAAAGATTCAAAA-TTCAT
17317190 AAAAGATTCAAA
1 AAAAGATTCAAA
17317202 GATTTGCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
18 12 0.43
19 16 0.57
ACGTcount: A:0.53, C:0.10, G:0.12, T:0.24
Consensus pattern (18 bp):
AAAAGATTCAAAATTCAT
Found at i:17318767 original size:18 final size:19
Alignment explanation
Indices: 17318744--17318779 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
17318734 CTTAGTCTTA
17318744 AAGTTTC-TTTAGTTTTTT
1 AAGTTTCTTTTAGTTTTTT
17318762 AAGTTTCTTTTAGTTTTT
1 AAGTTTCTTTTAGTTTTT
17318780 GTTAAATTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.17, C:0.06, G:0.11, T:0.67
Consensus pattern (19 bp):
AAGTTTCTTTTAGTTTTTT
Found at i:17318868 original size:15 final size:15
Alignment explanation
Indices: 17318845--17318877 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
17318835 TGATTCTATG
17318845 TTTTCAATTTAGTTC
1 TTTTCAATTTAGTTC
*
17318860 TTTTTAATTTAGTTC
1 TTTTCAATTTAGTTC
17318875 TTT
1 TTT
17318878 CTATTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.09, G:0.06, T:0.67
Consensus pattern (15 bp):
TTTTCAATTTAGTTC
Found at i:17324256 original size:130 final size:129
Alignment explanation
Indices: 17324087--17324665 Score: 581
Period size: 130 Copynumber: 4.5 Consensus size: 129
17324077 TTTATTGTTC
* *
17324087 TATAAAATATCAACAAAAATAAATTAAGCAACGATATTGAAAAATCATTGCTAATAAAACAAGTT
1 TATAAAATAT-AA-AAAAATAAATTAAGCAACGACATTGAAAAATCATTGCAAATAAAACAAGTT
* * *
17324152 TTTGCAACAATAATTTTTTATTATTACAAATATAATAAAAATTTTTGTAATAAATTTTTTGTCAT
64 TTTGCAACAATAATTTTGTATCATTACAAATATAATAAAAATTTTT-TAATAATTTTTTTGTCAT
17324217 TG
128 TG
* * *
17324219 TATAAAATATAAAAAAATAAATTAAGCAATGACATTGAAAAAT-AGTTGTAAATAAAACAAATTT
1 TATAAAATATAAAAAAATAAATTAAGCAACGACATTGAAAAATCA-TTGCAAATAAAACAAGTTT
* * * *
17324283 TTGCAACAATAATTTTGTGTCGTTACAAATATGAA-AAAAATTTTCGTAATAATTTTTTTATCAT
65 TTGCAACAATAATTTTGTATCATTACAAATAT-AATAAAAATTTT-TTAATAATTTTTTTGTCAT
17324347 TG
128 TG
* * * *
17324349 TATAAAATAT--CAAAA-AAATTAAGCATCGA-ATTTGAAAAATCATTACAAATAAAAAAAGTTT
1 TATAAAATATAAAAAAATAAATTAAGCAACGACA-TTGAAAAATCATTGCAAATAAAACAAGTTT
* * * *
17324410 TTGCAACAATAATTTTGTATCAATACAAATATGATAAAAA--ATTTCATAATTTTTATTG-CA--
65 TTGCAACAATAATTTTGTATCATTACAAATATAATAAAAATTTTTTAATAATTTTT-TTGTCATT
17324470 -
129 G
* ** * ** *
17324470 CATAAAATATTTAAAAATAAATTAAGCAACGACATTGAAAATTTGTTGCAAATAAAATAAGTTTT
1 TATAAAATATAAAAAAATAAATTAAGCAACGACATTGAAAAATCATTGCAAATAAAACAAGTTTT
** * * * * * ** **
17324535 TGCATTAATAATTTT-TAACTTTACAAATATAATAAAACTTTTCTCAACAACGTTTTTGTTGTTG
66 TGCAACAATAATTTTGTATCATTACAAATATAATAAAAATTTT-TTAATAATTTTTTTGTCATTG
* * ** * *
17324599 TATAAAATATTAAAAAAATAAATTAAGCAACAACATTAAAAAATTGTTGCAAATAAAATAATTTT
1 TATAAAATA-TAAAAAAATAAATTAAGCAACGACATTGAAAAATCATTGCAAATAAAACAAGTTT
17324664 TT
65 TT
17324666 AAAACAACTT
Statistics
Matches: 371, Mismatches: 57, Indels: 40
0.79 0.12 0.09
Matches are distributed among these distances:
121 9 0.02
123 22 0.06
124 64 0.17
125 8 0.02
126 9 0.02
127 70 0.19
128 5 0.01
129 9 0.02
130 161 0.43
131 4 0.01
132 10 0.03
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.36
Consensus pattern (129 bp):
TATAAAATATAAAAAAATAAATTAAGCAACGACATTGAAAAATCATTGCAAATAAAACAAGTTTT
TGCAACAATAATTTTGTATCATTACAAATATAATAAAAATTTTTTAATAATTTTTTTGTCATTG
Found at i:17329621 original size:113 final size:112
Alignment explanation
Indices: 17329464--17329686 Score: 329
Period size: 113 Copynumber: 2.0 Consensus size: 112
17329454 TTTGAGATAA
* * *
17329464 TATTGTCACTAATATTCTAAGATTTTAATAATATCATAAACTTAGTTTAAATTTGCTAACAATCA
1 TATTGTCACTAACATTCTAAGATTTTAATAATATAATAAACTTAGCTTAAATTTGCTAACAATCA
* **
17329529 CAATCTATAAAACATTAAGTGCACACATCATGGAAAAGGAACAAGAT
66 CAATCTATAAAACATTAAGTGCAAACATCAAAGAAAAGGAACAAGAT
* * * *
17329576 TATTGTCACTAACATTCTACGTTTTTTAATACTATAATAAACTTAGCTTAAATTTGTTAACAATC
1 TATTGTCACTAACATTCTAAG-ATTTTAATAATATAATAAACTTAGCTTAAATTTGCTAACAATC
* *
17329641 ACAATCTATATAACATTAAGTGGAAACATCAAAGAAAAGGAACAAG
65 ACAATCTATAAAACATTAAGTGCAAACATCAAAGAAAAGGAACAAG
17329687 GTCAAAAATC
Statistics
Matches: 98, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
112 19 0.19
113 79 0.81
ACGTcount: A:0.43, C:0.14, G:0.10, T:0.32
Consensus pattern (112 bp):
TATTGTCACTAACATTCTAAGATTTTAATAATATAATAAACTTAGCTTAAATTTGCTAACAATCA
CAATCTATAAAACATTAAGTGCAAACATCAAAGAAAAGGAACAAGAT
Found at i:17336279 original size:30 final size:28
Alignment explanation
Indices: 17336215--17336279 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 28
17336205 GTAATGAGCG
* *
17336215 AGCAACTAACTGAGCAACTAATTGCTCT
1 AGCAACTAACTGAGCAACTAATTACCCT
* *
17336243 AACAACTACCACTGAGCAACTGATTACCCT
1 AGCAACTA--ACTGAGCAACTAATTACCCT
17336273 AGCAACT
1 AGCAACT
17336280 TCGCATGAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
28 7 0.23
30 23 0.77
ACGTcount: A:0.37, C:0.29, G:0.12, T:0.22
Consensus pattern (28 bp):
AGCAACTAACTGAGCAACTAATTACCCT
Found at i:17337298 original size:69 final size:70
Alignment explanation
Indices: 17337198--17337331 Score: 218
Period size: 69 Copynumber: 1.9 Consensus size: 70
17337188 AAGTATCAAT
* *
17337198 ATATAGGAATGGTGGACTCTTGTTTTGATGCACATACTTTTCTCACCAACA-GGATAAAATTGTT
1 ATATAGGAATGGAGGACACTTGTTTTGATGCACATACTTTTCTCACCAACAGGGATAAAATTGTT
17337262 TAAAA
66 TAAAA
*
17337267 ATATAGGAATGGAGGACACTTGCTTTT-ATGCACATACTTTTCTCACCAATAGGGATAAAATTGT
1 ATATAGGAATGGAGGACACTTG-TTTTGATGCACATACTTTTCTCACCAACAGGGATAAAATTGT
17337331 T
65 T
17337332 AATGACACAA
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
69 43 0.72
70 17 0.28
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (70 bp):
ATATAGGAATGGAGGACACTTGTTTTGATGCACATACTTTTCTCACCAACAGGGATAAAATTGTT
TAAAA
Found at i:17338824 original size:22 final size:21
Alignment explanation
Indices: 17338781--17338824 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
17338771 AAATCATTTT
*
17338781 AGGGTTTTGAAAGGGCTTTCA
1 AGGGTTTTGAAAGGACTTTCA
*
17338802 AGGGTTTTGAAAATGACTTTCA
1 AGGGTTTTG-AAAGGACTTTCA
17338824 A
1 A
17338825 AAATCTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.30, C:0.09, G:0.27, T:0.34
Consensus pattern (21 bp):
AGGGTTTTGAAAGGACTTTCA
Found at i:17344687 original size:21 final size:21
Alignment explanation
Indices: 17344662--17344706 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
17344652 CACCCAATCG
17344662 ATCTTATAAGCAAGGTGATCA
1 ATCTTATAAGCAAGGTGATCA
* * **
17344683 ATCTTTTAGGCTCGGTGATCA
1 ATCTTATAAGCAAGGTGATCA
17344704 ATC
1 ATC
17344707 CTTTTTTATG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (21 bp):
ATCTTATAAGCAAGGTGATCA
Found at i:17347256 original size:72 final size:70
Alignment explanation
Indices: 17347129--17347263 Score: 189
Period size: 72 Copynumber: 1.9 Consensus size: 70
17347119 TTTTCAAGTA
* * * * * *
17347129 TTTTTAAAATAAGAAATGTAGTGGATTTGAAACTTTATTTTGAAATTTTGGAATTTTAACAAAGA
1 TTTTTAAAATAAGAAATATAATAGATTTAAAACTTTATTTTGAAATTCTAGAATTTTAACAAAGA
17347194 TTGTG
66 TTGTG
*
17347199 TTTTTAAGATAAGAAATATAATAGATGTTAAAACTTTATTTTTGAAATTCTAGAATTTTAACAAA
1 TTTTTAAAATAAGAAATATAATAGAT-TTAAAACTTTA-TTTTGAAATTCTAGAATTTTAACAAA
17347264 AAATTTCATT
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
70 22 0.39
71 10 0.18
72 24 0.43
ACGTcount: A:0.41, C:0.04, G:0.13, T:0.42
Consensus pattern (70 bp):
TTTTTAAAATAAGAAATATAATAGATTTAAAACTTTATTTTGAAATTCTAGAATTTTAACAAAGA
TTGTG
Found at i:17347276 original size:72 final size:70
Alignment explanation
Indices: 17347130--17347278 Score: 174
Period size: 72 Copynumber: 2.1 Consensus size: 70
17347120 TTTCAAGTAT
* * * * * * * *
17347130 TTTTAAAATAAGAAATGTAGTGGATTTGAAACTTTATTTTGAAATTTTGGAATTTTAACAAAGAT
1 TTTTAAGATAAGAAATATAATAGATTTAAAACTTTATTTTGAAATTCTAGAATTTTAACAAAAAT
**
17347195 TGTGT
66 TGTCA
17347200 TTTTAAGATAAGAAATATAATAGATGTTAAAACTTTATTTTTGAAATTCTAGAATTTTAACAAAA
1 TTTTAAGATAAGAAATATAATAGAT-TTAAAACTTTA-TTTTGAAATTCTAGAATTTTAAC-AAA
17347265 AATT-TCA
63 AATTGTCA
17347272 TTTTAAG
1 TTTTAAG
17347279 TTAAAAAAAC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
70 21 0.32
71 10 0.15
72 29 0.44
73 6 0.09
ACGTcount: A:0.41, C:0.04, G:0.13, T:0.42
Consensus pattern (70 bp):
TTTTAAGATAAGAAATATAATAGATTTAAAACTTTATTTTGAAATTCTAGAATTTTAACAAAAAT
TGTCA
Found at i:17347675 original size:21 final size:20
Alignment explanation
Indices: 17347639--17347678 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
17347629 AATCTTAAAG
17347639 AATCTTGATAATTCTTGATC
1 AATCTTGATAATTCTTGATC
*
17347659 AATCTTGGATGATTCTTGAT
1 AATCTT-GATAATTCTTGAT
17347679 GCATTAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (20 bp):
AATCTTGATAATTCTTGATC
Found at i:17351452 original size:2 final size:2
Alignment explanation
Indices: 17351447--17351482 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
17351437 ATGTGTGCTC
17351447 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17351483 TGCAGTCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17357999 original size:17 final size:17
Alignment explanation
Indices: 17357958--17357999 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
17357948 CACATTACCC
*
17357958 AAATAAAGTAAAAAAAT
1 AAATAAAATAAAAAAAT
*
17357975 ATATAAAATAAAAAAA-
1 AAATAAAATAAAAAAAT
17357991 AAATGAAAA
1 AAAT-AAAA
17358000 CCTAGAAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.17
Consensus pattern (17 bp):
AAATAAAATAAAAAAAT
Found at i:17358597 original size:15 final size:16
Alignment explanation
Indices: 17358557--17358601 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 16
17358547 AAAAAATGAT
17358557 GAATTAAA-TTAGAATC
1 GAATTAAACTTA-AATC
*
17358573 GAATTTAACTTAAATC
1 GAATTAAACTTAAATC
17358589 -AATTAAACTTAAA
1 GAATTAAACTTAAA
17358602 ATCATGCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 12 0.46
16 11 0.42
17 3 0.12
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (16 bp):
GAATTAAACTTAAATC
Found at i:17358603 original size:16 final size:16
Alignment explanation
Indices: 17358558--17358605 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
17358548 AAAAATGATG
*
17358558 AATTAAA-TTAGAATC
1 AATTAAACTTAAAATC
*
17358573 GAATTTAACTT-AAATC
1 -AATTAAACTTAAAATC
17358589 AATTAAACTTAAAATC
1 AATTAAACTTAAAATC
17358605 A
1 A
17358606 TGCAATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 9 0.33
16 16 0.59
17 2 0.07
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.33
Consensus pattern (16 bp):
AATTAAACTTAAAATC
Found at i:17362228 original size:3 final size:3
Alignment explanation
Indices: 17362220--17362246 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
17362210 TATTAGCGCC
17362220 CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA
17362247 TAAATAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:17365739 original size:25 final size:24
Alignment explanation
Indices: 17365711--17365787 Score: 64
Period size: 28 Copynumber: 3.0 Consensus size: 24
17365701 ACTTTTTTAT
17365711 CTTTTTTTATTTTTTTAATTTTTTGC
1 CTTTTTTT-TTTTTTTAATTTTTT-C
* *
17365737 TTTTGTCTTTTTTTTTGTTATTTTCTTC
1 CTTT-T-TTTTTTTTT-TAATTTT-TTC
* *
17365765 CTTTCTTTTTTTTTCAATTTTTT
1 CTTTTTTTTTTTTTTAATTTTTT
17365788 AAATTAAATC
Statistics
Matches: 41, Mismatches: 6, Indels: 10
0.72 0.11 0.18
Matches are distributed among these distances:
24 2 0.05
25 5 0.12
26 12 0.29
27 7 0.17
28 13 0.32
29 2 0.05
ACGTcount: A:0.08, C:0.10, G:0.04, T:0.78
Consensus pattern (24 bp):
CTTTTTTTTTTTTTTAATTTTTTC
Found at i:17367231 original size:21 final size:20
Alignment explanation
Indices: 17367207--17367249 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
17367197 TATTTTAATT
* *
17367207 TTATATTTATATATATATGTA
1 TTATATTAATAAATATAT-TA
17367228 TTATATTAATAAATATATTA
1 TTATATTAATAAATATATTA
17367248 TT
1 TT
17367250 TGATATTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TTATATTAATAAATATATTA
Found at i:17371303 original size:15 final size:15
Alignment explanation
Indices: 17371279--17371308 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
17371269 TTTATTCCTC
*
17371279 TTACCTTAAAAAAAA
1 TTACCCTAAAAAAAA
17371294 TTACCCTAAAAAAAA
1 TTACCCTAAAAAAAA
17371309 GATCCAACTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.17, G:0.00, T:0.23
Consensus pattern (15 bp):
TTACCCTAAAAAAAA
Found at i:17377530 original size:109 final size:109
Alignment explanation
Indices: 17377339--17377568 Score: 460
Period size: 109 Copynumber: 2.1 Consensus size: 109
17377329 AAATGAATTT
17377339 GGGCTTTTGGGTAAGTTTACATTTTGGGCTTTATTTAGGGTTTAGGATTTTAGGGGTTTTAATTT
1 GGGCTTTTGGGTAAGTTTACATTTTGGGCTTTATTTAGGGTTTAGGATTTTAGGGGTTTTAATTT
17377404 TGCTTAGGGTTTGGAATTCACCTTGGGTTTAGGGTTTTCACCTA
66 TGCTTAGGGTTTGGAATTCACCTTGGGTTTAGGGTTTTCACCTA
17377448 GGGCTTTTGGGTAAGTTTACATTTTGGGCTTTATTTAGGGTTTAGGATTTTAGGGGTTTTAATTT
1 GGGCTTTTGGGTAAGTTTACATTTTGGGCTTTATTTAGGGTTTAGGATTTTAGGGGTTTTAATTT
17377513 TGCTTAGGGTTTGGAATTCACCTTGGGTTTAGGGTTTTCACCTA
66 TGCTTAGGGTTTGGAATTCACCTTGGGTTTAGGGTTTTCACCTA
17377557 GGGCTTTTGGGT
1 GGGCTTTTGGGT
17377569 TTCACCTAGG
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 121 1.00
ACGTcount: A:0.16, C:0.09, G:0.30, T:0.46
Consensus pattern (109 bp):
GGGCTTTTGGGTAAGTTTACATTTTGGGCTTTATTTAGGGTTTAGGATTTTAGGGGTTTTAATTT
TGCTTAGGGTTTGGAATTCACCTTGGGTTTAGGGTTTTCACCTA
Found at i:17377541 original size:52 final size:52
Alignment explanation
Indices: 17377376--17377550 Score: 145
Period size: 52 Copynumber: 3.3 Consensus size: 52
17377366 GCTTTATTTA
17377376 GGGTTTAGGATTTTAGGGGTTTTAATTTTGCTTAGGGTTTGGAATTCACCTT
1 GGGTTTAGGATTTTAGGGGTTTTAATTTTGCTTAGGGTTTGGAATTCACCTT
* * *** ** * *** ** * *
17377428 GGGTTTAGGGTTTTCACCTAGGGCTTTTGGGTAAGTTTACATTTTGGGCTTTA-TTT
1 GGGTTTA-GGATTT----TAGGGGTTTTAATTTTGCTTAGGGTTTGGAATTCACCTT
17377484 AGGGTTTAGGATTTTAGGGGTTTTAATTTTGCTTAGGGTTTGGAATTCACCTT
1 -GGGTTTAGGATTTTAGGGGTTTTAATTTTGCTTAGGGTTTGGAATTCACCTT
*
17377537 GGGTTTAGGGTTTT
1 GGGTTTAGGATTTT
17377551 CACCTAGGGC
Statistics
Matches: 85, Mismatches: 31, Indels: 14
0.65 0.24 0.11
Matches are distributed among these distances:
52 42 0.49
53 7 0.08
56 7 0.08
57 29 0.34
ACGTcount: A:0.16, C:0.08, G:0.30, T:0.46
Consensus pattern (52 bp):
GGGTTTAGGATTTTAGGGGTTTTAATTTTGCTTAGGGTTTGGAATTCACCTT
Found at i:17377554 original size:20 final size:20
Alignment explanation
Indices: 17377529--17377578 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
17377519 GGGTTTGGAA
*
17377529 TTCACCTTGGG-TTTAGGGTT
1 TTCACCTAGGGCTTTAGGG-T
*
17377549 TTCACCTAGGGCTTTTGGGT
1 TTCACCTAGGGCTTTAGGGT
17377569 TTCACCTAGG
1 TTCACCTAGG
17377579 TTTTTGAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 21 0.78
21 6 0.22
ACGTcount: A:0.12, C:0.20, G:0.28, T:0.40
Consensus pattern (20 bp):
TTCACCTAGGGCTTTAGGGT
Found at i:17377601 original size:20 final size:19
Alignment explanation
Indices: 17377548--17377601 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 19
17377538 GGTTTAGGGT
* *
17377548 TTTCACCTAGGGCTTTTGGG
1 TTTCACCTA-GGTTTTTGAG
17377568 TTTCACCTAGGTTTTTGAG
1 TTTCACCTAGGTTTTTGAG
17377587 TTTCACCTCAGGTTT
1 TTTCACCT-AGGTTT
17377602 CATTTAGGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.13, C:0.20, G:0.22, T:0.44
Consensus pattern (19 bp):
TTTCACCTAGGTTTTTGAG
Found at i:17377660 original size:21 final size:22
Alignment explanation
Indices: 17377620--17377663 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
17377610 GCTTTAATTC
*
17377620 TAGGTTTTAGGTTCTCACAAAT
1 TAGGGTTTAGGTTCTCACAAAT
*
17377642 TAGGGTTTCGGTT-TCACAAAT
1 TAGGGTTTAGGTTCTCACAAAT
17377663 T
1 T
17377664 TACTAGCCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (22 bp):
TAGGGTTTAGGTTCTCACAAAT
Found at i:17377852 original size:22 final size:23
Alignment explanation
Indices: 17377809--17377852 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
17377799 TTTTATTATA
* **
17377809 ATTTATTAATATTTTATTATTTT
1 ATTTATTAATATTTAACAATTTT
17377832 ATTT-TTAATATTTAACAATTT
1 ATTTATTAATATTTAACAATTT
17377853 CTCAACATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (23 bp):
ATTTATTAATATTTAACAATTTT
Found at i:17379937 original size:27 final size:27
Alignment explanation
Indices: 17379907--17379966 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
17379897 TTCTTTCAAT
17379907 TTTTTTTTATTT-TTTTGGTTTC-TTTAG
1 TTTTTTTTATTTATTTT--TTTCTTTTAG
*
17379934 TTTTTTTTCTTTAGTTTTTTTCTTTTAG
1 TTTTTTTTATTTA-TTTTTTTCTTTTAG
17379962 TTTTT
1 TTTTT
17379967 GTTGTGTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
27 15 0.52
28 10 0.34
29 4 0.14
ACGTcount: A:0.07, C:0.05, G:0.08, T:0.80
Consensus pattern (27 bp):
TTTTTTTTATTTATTTTTTTCTTTTAG
Found at i:17379944 original size:14 final size:14
Alignment explanation
Indices: 17379925--17379966 Score: 68
Period size: 14 Copynumber: 3.0 Consensus size: 14
17379915 ATTTTTTTGG
17379925 TTTCTTTAGTTTTT
1 TTTCTTTAGTTTTT
17379939 TTTCTTTAG-TTTT
1 TTTCTTTAGTTTTT
17379952 TTTCTTTTAGTTTTT
1 TTTC-TTTAGTTTTT
17379967 GTTGTGTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.31
14 14 0.54
15 4 0.15
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.79
Consensus pattern (14 bp):
TTTCTTTAGTTTTT
Found at i:17379980 original size:28 final size:25
Alignment explanation
Indices: 17379949--17380021 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 25
17379939 TTTCTTTAGT
17379949 TTTTTTCTTTTAGTTTTTGTTGTGTTTC
1 TTTTTT-TTTT-GTTTTTGTTGTG-TTC
*
17379977 TTTTTTTTTTGCTATTTTGTTGTGTTG
1 TTTTTTTTTTG-T-TTTTGTTGTGTTC
17380004 TTTTTTTTTT-TTTTTGTT
1 TTTTTTTTTTGTTTTTGTT
17380022 AGTAAAAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
24 7 0.17
25 1 0.02
26 1 0.02
27 17 0.40
28 16 0.38
ACGTcount: A:0.03, C:0.04, G:0.14, T:0.79
Consensus pattern (25 bp):
TTTTTTTTTTGTTTTTGTTGTGTTC
Found at i:17379985 original size:33 final size:32
Alignment explanation
Indices: 17379938--17380018 Score: 85
Period size: 33 Copynumber: 2.5 Consensus size: 32
17379928 CTTTAGTTTT
* *
17379938 TTTTCTTTAGTTTTTTTCT-TTTAGTTTTTGTTG
1 TTTTCTTT-TTTTTTTTCTATTTAG-TTGTGTTG
* *
17379971 TGTTTCTTTTTTTTTTGCTATTTTGTTGTGTTG
1 T-TTTCTTTTTTTTTTTCTATTTAGTTGTGTTG
17380004 TTTT-TTTTTTTTTTT
1 TTTTCTTTTTTTTTTT
17380019 GTTAGTAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
31 10 0.24
32 3 0.07
33 17 0.41
34 11 0.27
ACGTcount: A:0.04, C:0.05, G:0.12, T:0.79
Consensus pattern (32 bp):
TTTTCTTTTTTTTTTTCTATTTAGTTGTGTTG
Found at i:17380322 original size:9 final size:9
Alignment explanation
Indices: 17380310--17380340 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
17380300 TTGCCTTTGT
*
17380310 GCCTTAAAA
1 GCCTTTAAA
17380319 GCCTTTAAA
1 GCCTTTAAA
17380328 GCCTTTAAA
1 GCCTTTAAA
17380337 GCCT
1 GCCT
17380341 CTATACTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (9 bp):
GCCTTTAAA
Found at i:17381723 original size:12 final size:12
Alignment explanation
Indices: 17381693--17381726 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
17381683 AATTACCAAT
*
17381693 GATTTACTGATG
1 GATTTATTGATG
17381705 GATTTATTGATG
1 GATTTATTGATG
17381717 GATTTATTGA
1 GATTTATTGA
17381727 CCAATTTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.26, C:0.03, G:0.24, T:0.47
Consensus pattern (12 bp):
GATTTATTGATG
Found at i:17382364 original size:145 final size:144
Alignment explanation
Indices: 17382139--17382844 Score: 773
Period size: 143 Copynumber: 4.9 Consensus size: 144
17382129 TGCACTAAGG
* * * * * *
17382139 AAGTATAAAATTATCAAATTACCCTTATAAGGGATATTTTTGTAAATTGACCTTTTTGAGCTAGG
1 AAGTGTAAAATTACCAAAATACCCTTATAAGGG-TATTTTTGTAATTTGA-CTTTTCGAGCTCGG
* *
17382204 ATTTTTATGAAACTTTTTAGATCTTAATTTTATAATATTTCATGATTTTTGGTGCATTTGAAATC
64 ATTTTCATGAAACTTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATC
* *
17382269 ATAGTC-GTACCTCGAG
129 ATAG-CAATACCTCGAA
** * *
17382285 AAGTGTAAAATTACCAAAATACCCCAAT-AGAGGTATTTTCGTAATTTGACTTTCTCGAGCTTGG
1 AAGTGTAAAATTACCAAAATACCCTTATAAG-GGTATTTTTGTAATTTGACTTT-TCGAGCTCGG
*
17382349 ATTTTCATGAAACTTTTTAGATATTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATC
64 ATTTTCATGAAACTTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATC
* * * *
17382414 AAAGCAGTATC-CAAA
129 ATAGCAATACCTCGAA
* * ** * *
17382429 AAATGTATAATTACCAAAATACCCAAATAAGGGATATTTTAGTAAATTGACCTTTTCGAGCTC--
1 AAGTGTAAAATTACCAAAATACCCTTATAAGGG-TATTTTTGTAATTTGA-CTTTTCGAGCTCGG
*
17382492 ATATTTCATGAAACTTTTTAGATCTCAATTTCATAATA-TTCATGATTTTTGGTGCATTTGAAAT
64 AT-TTTCATGAAACTTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAAT
* * * * *
17382556 TACAACCATACCCCGAA
128 CATAGCAATACCTCGAA
* * * * * **
17382573 AAGTGTGAAATTACCAAAAAACCCTTATAAGGGCATTTTTATAATTTGACTTTTTCGAACTCAAA
1 AAGTGTAAAATTACCAAAATACCCTTATAAGGGTATTTTTGTAATTTGAC-TTTTCGAGCTCGGA
* * *
17382638 ATTTCATGAAACTTTTCAGATATTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCA
65 TTTTCATGAAACTTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCA
17382703 TAGCAATACCT--AA
130 TAGCAATACCTCGAA
* * * * * *
17382716 AAATATGAAATTACCAAAATACCCTTATAAGGGTATTTTTTTAATTTGATATTTTTGAGCTCGGA
1 AAGTGTAAAATTACCAAAATACCCTTATAAGGGTATTTTTGTAATTTGA-CTTTTCGAGCTCGGA
* * * * * * *
17382781 TTTTCATGAAACCTTTCATATCTCAATTTTATAATATTTCATGATTTTTTGTG-TTTTGAAATCA
65 TTTTCATGAAACTTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCA
17382845 CAACAATGAG
Statistics
Matches: 478, Mismatches: 69, Indels: 30
0.83 0.12 0.05
Matches are distributed among these distances:
142 11 0.02
143 158 0.33
144 129 0.27
145 151 0.32
146 29 0.06
ACGTcount: A:0.34, C:0.13, G:0.12, T:0.40
Consensus pattern (144 bp):
AAGTGTAAAATTACCAAAATACCCTTATAAGGGTATTTTTGTAATTTGACTTTTCGAGCTCGGAT
TTTCATGAAACTTTTTAGATCTTAATTTCATAATATTTCATGATTTTTGGTGCATTTGAAATCAT
AGCAATACCTCGAA
Done.