Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 53 of 190
Found at i:8744103 original size:3 final size:3
Alignment explanation
Indices: 8744095--8744125 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
8744085 TAGGGTATAG
*
8744095 TAT TAT TAT TAT TAT TAT TAT TTT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
8744126 TTCCCTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:8745336 original size:31 final size:31
Alignment explanation
Indices: 8745295--8745358 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
8745285 AATTTTTAAA
*
8745295 TTTTGATGAATTTTTCAATGCCGATTGAATT
1 TTTTGATGAATTTTTCAACGCCGATTGAATT
* ** *
8745326 TTTTGGTGAATTTTTTGACGTCGATTGAATT
1 TTTTGATGAATTTTTCAACGCCGATTGAATT
8745357 TT
1 TT
8745359 CTAGCAAGCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.22, C:0.08, G:0.19, T:0.52
Consensus pattern (31 bp):
TTTTGATGAATTTTTCAACGCCGATTGAATT
Found at i:8750337 original size:22 final size:22
Alignment explanation
Indices: 8750312--8750353 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
8750302 ATCAATAATG
* *
8750312 GATGAAGATGAGAAAAAAAAAA
1 GATGAAAAAGAGAAAAAAAAAA
8750334 GATGAAAAAGAGAAAAAAAA
1 GATGAAAAAGAGAAAAAAAA
8750354 TAAAAAATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.07
Consensus pattern (22 bp):
GATGAAAAAGAGAAAAAAAAAA
Found at i:8750343 original size:9 final size:9
Alignment explanation
Indices: 8750328--8750424 Score: 84
Period size: 8 Copynumber: 11.4 Consensus size: 9
8750318 GATGAGAAAA
8750328 AAAAAAGATG
1 AAAAAA-ATG
*
8750338 AAAAAGA-G
1 AAAAAAATG
8750346 AAAAAAA--
1 AAAAAAATG
8750353 ATAAAAAATG
1 A-AAAAAATG
*
8750363 AAAAAAATA
1 AAAAAAATG
8750372 AAAAAAAT-
1 AAAAAAATG
8750380 AAAAAAAT-
1 AAAAAAATG
8750388 AAAAAAATG
1 AAAAAAATG
8750397 --AAAAATG
1 AAAAAAATG
*
8750404 -GAAAAATG
1 AAAAAAATG
*
8750412 GAAAAAATG
1 AAAAAAATG
8750421 AAAA
1 AAAA
8750425 GGAGAGAAAA
Statistics
Matches: 76, Mismatches: 5, Indels: 13
0.81 0.05 0.14
Matches are distributed among these distances:
7 8 0.11
8 36 0.47
9 26 0.34
10 6 0.08
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.10
Consensus pattern (9 bp):
AAAAAAATG
Found at i:8750344 original size:25 final size:25
Alignment explanation
Indices: 8750319--8750424 Score: 101
Period size: 25 Copynumber: 4.3 Consensus size: 25
8750309 ATGGATGAAG
* * *
8750319 ATGAGAAAAAAAAAAGATGAAAAAG
1 ATGAAAAAAAAAAAAAATGAAAAAA
8750344 A-GAAAAAAAATAAAAAATGAAAAAA
1 ATGAAAAAAAA-AAAAAATGAAAAAA
*
8750369 ATAAAAAAAATAAAAAAAT-AAAAAA
1 ATGAAAAAAA-AAAAAAATGAAAAAA
*** *
8750394 ATG-AAAAATGGAAAAATGGAAAAA
1 ATGAAAAAAAAAAAAAATGAAAAAA
8750418 ATGAAAA
1 ATGAAAA
8750425 GGAGAGAAAA
Statistics
Matches: 67, Mismatches: 9, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
23 6 0.09
24 21 0.31
25 25 0.37
26 14 0.21
27 1 0.01
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.10
Consensus pattern (25 bp):
ATGAAAAAAAAAAAAAATGAAAAAA
Found at i:8750394 original size:17 final size:17
Alignment explanation
Indices: 8750324--8750394 Score: 74
Period size: 17 Copynumber: 4.2 Consensus size: 17
8750314 TGAAGATGAG
* *
8750324 AAAAA-AAAAAGATGAA
1 AAAAATAAAAAAATAAA
* * *
8750340 AAAGAGAAAAAAA-ATA
1 AAAAATAAAAAAATAAA
8750356 AAAAATGAAAAAAATAAA
1 AAAAAT-AAAAAAATAAA
8750374 AAAAATAAAAAAATAAA
1 AAAAATAAAAAAATAAA
8750391 AAAA
1 AAAA
8750395 TGAAAAATGG
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
16 9 0.20
17 28 0.62
18 8 0.18
ACGTcount: A:0.85, C:0.00, G:0.07, T:0.08
Consensus pattern (17 bp):
AAAAATAAAAAAATAAA
Found at i:8751159 original size:79 final size:78
Alignment explanation
Indices: 8750983--8751200 Score: 220
Period size: 79 Copynumber: 2.8 Consensus size: 78
8750973 TGGTTGACAT
* * * * * * *
8750983 AACTTGTGAGATATGATCAAATGATGAAAATAATATGGATCAGTGGATAAAATTCATTCTAAAAT
1 AACTTGTGAGTTATGATCAAATGATG-AAATAATGTAGATCAGTTGATAGAATTTATTTTAAAAT
*
8751048 GGCTAGTGCTGAAA
65 GACTAGTGCTGAAA
* * * * * * *
8751062 AACCTATGAATTGTGATCAAGTGATGAACATAATGTAGATCAATTGATAGAATTTATTTTAGAAT
1 AACTTGTGAGTTATGATCAAATGATGAA-ATAATGTAGATCAGTTGATAGAATTTATTTTAAAAT
8751127 GACTAGTGCTGAAA
65 GACTAGTGCTGAAA
* * * * * *
8751141 AGCTTGTGAGTTACGATCAAATGATGCAAATGATGTTGATCAGTTGGTAGAATCTATTTT
1 AACTTGTGAGTTATGATCAAATGATG-AAATAATGTAGATCAGTTGATAGAATTTATTTT
8751201 GGGATAGCTA
Statistics
Matches: 110, Mismatches: 27, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
78 2 0.02
79 106 0.96
80 2 0.02
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.33
Consensus pattern (78 bp):
AACTTGTGAGTTATGATCAAATGATGAAATAATGTAGATCAGTTGATAGAATTTATTTTAAAATG
ACTAGTGCTGAAA
Found at i:8751567 original size:23 final size:22
Alignment explanation
Indices: 8751518--8751578 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
8751508 GAATCTTTTG
8751518 ATGAGAATCTTTGA-ATTTCAA
1 ATGAGAATCTTTGAGATTTCAA
* *
8751539 ATGAGAAATCTTTGAGTTTTTAA
1 ATGAG-AATCTTTGAGATTTCAA
8751562 ATGAGAATCTTTGAGAT
1 ATGAGAATCTTTGAGAT
8751579 GTGAAACCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
21 5 0.14
22 20 0.57
23 10 0.29
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (22 bp):
ATGAGAATCTTTGAGATTTCAA
Found at i:8751771 original size:43 final size:43
Alignment explanation
Indices: 8751710--8751801 Score: 157
Period size: 43 Copynumber: 2.1 Consensus size: 43
8751700 CTTTGAACTT
* *
8751710 GAATGAGAAGCTTTGAACTTTTAGATGTGAATCTCCAAAATTC
1 GAATGAAAAGCTTTGAACTTTTAGATGTGAATCTACAAAATTC
*
8751753 GAATGAAAAGCTTTGAACTTTTGGATGTGAATCTACAAAATTC
1 GAATGAAAAGCTTTGAACTTTTAGATGTGAATCTACAAAATTC
8751796 GAATGA
1 GAATGA
8751802 GAATCTTTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.32
Consensus pattern (43 bp):
GAATGAAAAGCTTTGAACTTTTAGATGTGAATCTACAAAATTC
Found at i:8752035 original size:18 final size:19
Alignment explanation
Indices: 8751990--8752040 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
8751980 AATTTTGGTG
*
8751990 AATTCTTGCGAAGCTGAAA
1 AATTCTTGCGAATCTGAAA
*
8752009 AAGTTCTTGCGAATTTG-AA
1 AA-TTCTTGCGAATCTGAAA
*
8752028 AATTCTTGTGAAT
1 AATTCTTGCGAAT
8752041 ATTTGAATCG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 10 0.36
19 6 0.21
20 12 0.43
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (19 bp):
AATTCTTGCGAATCTGAAA
Found at i:8752245 original size:81 final size:81
Alignment explanation
Indices: 8752160--8752427 Score: 272
Period size: 81 Copynumber: 3.3 Consensus size: 81
8752150 TTATTTTTTA
* * ** * *
8752160 AAAGTTGTTGAGCCTCTAATTA-AATGAGCCTTTATTTTTCAAAAGTTGTTAAGCGTTTGTTTAG
1 AAAGTTGTTGAGCCTCTAATTAGAA-GAACATTTATTTTTCAAAAGTCATTAAGCCTTTGTTTAA
8752224 AGGAGCATTTATTTTCC
65 AGGAGCATTTATTTTCC
* * * *
8752241 AAAGTTGTTGAACCTCTATTTAGGAGAACATTTATTTTTCCAAAGTCATTAAGCCTTTGTTTAAA
1 AAAGTTGTTGAGCCTCTAATTAGAAGAACATTTATTTTTCAAAAGTCATTAAGCCTTTGTTTAAA
*
8752306 GGAGCATTTATTTTCT
66 GGAGCATTTATTTTCC
** * * * * * * **
8752322 AAAGTTGTTGAGCCT-TTGTCTAGAGGAGCATTTATTTTTCCAAAGTCTTTGAGCCTCTACTTAA
1 AAAGTTGTTGAGCCTCTAAT-TAGAAGAACATTTATTTTTCAAAAGTCATTAAGCCTTTGTTTAA
8752386 AGGAGCTTTATTTATTTTCC
65 AGGAGC---ATTTATTTTCC
*
8752406 AAAGTTG-TGAGCCTCTACTTAG
1 AAAGTTGTTGAGCCTCTAATTAG
8752428 GGGAATTTTG
Statistics
Matches: 156, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
80 2 0.01
81 124 0.79
82 1 0.01
83 10 0.06
84 19 0.12
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.41
Consensus pattern (81 bp):
AAAGTTGTTGAGCCTCTAATTAGAAGAACATTTATTTTTCAAAAGTCATTAAGCCTTTGTTTAAA
GGAGCATTTATTTTCC
Found at i:8752263 original size:40 final size:41
Alignment explanation
Indices: 8752148--8752427 Score: 239
Period size: 41 Copynumber: 6.9 Consensus size: 41
8752138 AAAGAGCCAT
** * * *
8752148 ATTTATTTTTTAAAAGTTGTTGAGCCTCTAATTAAATGAGC
1 ATTTATTTTTCCAAAGTTGTTGAGCCTCTATTTAGAGGAGC
* * * * * *
8752189 CTTTATTTTTCAAAAGTTGTTAAGCGTTTGTTTAGAGGAGC
1 ATTTATTTTTCCAAAGTTGTTGAGCCTCTATTTAGAGGAGC
* *
8752230 ATTTA-TTTTCCAAAGTTGTTGAACCTCTATTTAG-GAGAAC
1 ATTTATTTTTCCAAAGTTGTTGAGCCTCTATTTAGAG-GAGC
** * * * *
8752270 ATTTATTTTTCCAAAGTCATTAAGCCTTTGTTTAAAGGAGC
1 ATTTATTTTTCCAAAGTTGTTGAGCCTCTATTTAGAGGAGC
* * * *
8752311 ATTTA-TTTTCTAAAGTTGTTGAGCCTTTGTCTAGAGGAGC
1 ATTTATTTTTCCAAAGTTGTTGAGCCTCTATTTAGAGGAGC
* *
8752351 ATTTATTTTTCCAAAGTCT-TTGAGCCTCTACTTAAAGGAGC
1 ATTTATTTTTCCAAAGT-TGTTGAGCCTCTATTTAGAGGAGC
*
8752392 -TTTATTTATTTTCCAAAGTTG-TGAGCCTCTACTTAG
1 ATTTA--T-TTTTCCAAAGTTGTTGAGCCTCTATTTAG
8752428 GGGAATTTTG
Statistics
Matches: 192, Mismatches: 38, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
39 1 0.01
40 69 0.36
41 93 0.48
42 18 0.09
43 11 0.06
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (41 bp):
ATTTATTTTTCCAAAGTTGTTGAGCCTCTATTTAGAGGAGC
Found at i:8753058 original size:31 final size:31
Alignment explanation
Indices: 8753023--8753083 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
8753013 CAGATTTCGG
*
8753023 TGAATTTTTCGGCATCGATTGAATTTTTTGA
1 TGAATTTTTCAGCATCGATTGAATTTTTTGA
** *
8753054 TGAATTTTTCAGTTTCGGTTGAATTTTTTG
1 TGAATTTTTCAGCATCGATTGAATTTTTTG
8753084 GCAAGCATGC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.20, C:0.08, G:0.20, T:0.52
Consensus pattern (31 bp):
TGAATTTTTCAGCATCGATTGAATTTTTTGA
Found at i:8753694 original size:25 final size:24
Alignment explanation
Indices: 8753631--8753691 Score: 122
Period size: 24 Copynumber: 2.5 Consensus size: 24
8753621 TCCAATGATG
8753631 AAATTTTTTAAAATTTCAAATGGT
1 AAATTTTTTAAAATTTCAAATGGT
8753655 AAATTTTTTAAAATTTCAAATGGT
1 AAATTTTTTAAAATTTCAAATGGT
8753679 AAATTTTTTAAAA
1 AAATTTTTTAAAA
8753692 ATTCCTAGGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (24 bp):
AAATTTTTTAAAATTTCAAATGGT
Found at i:8754667 original size:14 final size:13
Alignment explanation
Indices: 8754643--8754687 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 13
8754633 CAAAAGAAAC
8754643 AAAGAATAAAAAAA
1 AAAG-ATAAAAAAA
8754657 AAATGATAAAAAATA
1 AAA-GATAAAAAA-A
8754672 AAAGATAAAAACAA
1 AAAGATAAAAA-AA
8754686 AA
1 AA
8754688 CAAAACAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 22 0.79
15 6 0.21
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.11
Consensus pattern (13 bp):
AAAGATAAAAAAA
Found at i:8754669 original size:37 final size:37
Alignment explanation
Indices: 8754628--8754711 Score: 93
Period size: 37 Copynumber: 2.3 Consensus size: 37
8754618 ATCTTTTTTG
*
8754628 AAAAACAAAAGA-AACAAAGAATAA-AAAA-AAAATGATA
1 AAAAACAAAAGATAA-AAACAA-AACAAAACAAAAT-ATA
*
8754665 AAAAATAAAAGATAAAAACAAAACAAAACAAAATATA
1 AAAAACAAAAGATAAAAACAAAACAAAACAAAATATA
*
8754702 AAAAAGAAAA
1 AAAAACAAAA
8754712 AAAATCTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
36 2 0.05
37 32 0.78
38 7 0.17
ACGTcount: A:0.80, C:0.06, G:0.06, T:0.08
Consensus pattern (37 bp):
AAAAACAAAAGATAAAAACAAAACAAAACAAAATATA
Found at i:8754715 original size:23 final size:23
Alignment explanation
Indices: 8754654--8754715 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
8754644 AAGAATAAAA
* *
8754654 AAAAAATGATAAAAAATAAAAGAT
1 AAAAAA-GAAAAAAAACAAAAGAT
* *
8754678 AAAAACA-AAACAAAACAAAATAT
1 AAAAA-AGAAAAAAAACAAAAGAT
8754701 AAAAAAGAAAAAAAA
1 AAAAAAGAAAAAAAA
8754716 TCTTTTTCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
22 1 0.03
23 24 0.77
24 5 0.16
25 1 0.03
ACGTcount: A:0.81, C:0.05, G:0.05, T:0.10
Consensus pattern (23 bp):
AAAAAAGAAAAAAAACAAAAGAT
Found at i:8754737 original size:16 final size:18
Alignment explanation
Indices: 8754711--8754747 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
8754701 AAAAAAGAAA
*
8754711 AAAAATCTTTTTC-AAAT
1 AAAAATCTTTTACAAAAT
8754728 AAAAAT-TTTTACAAAAT
1 AAAAATCTTTTACAAAAT
8754745 AAA
1 AAA
8754748 TTTATGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAAATCTTTTACAAAAT
Found at i:8758122 original size:5 final size:5
Alignment explanation
Indices: 8758112--8758153 Score: 68
Period size: 5 Copynumber: 8.6 Consensus size: 5
8758102 ATTTCCTTCA
*
8758112 TTTAC TTTAC TTTAC TTTAC TTTAC TTTAC TTTCC TTT-C TTT
1 TTTAC TTTAC TTTAC TTTAC TTTAC TTTAC TTTAC TTTAC TTT
8758154 TACTAATGTT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
4 4 0.11
5 32 0.89
ACGTcount: A:0.14, C:0.21, G:0.00, T:0.64
Consensus pattern (5 bp):
TTTAC
Found at i:8759523 original size:24 final size:24
Alignment explanation
Indices: 8759496--8759541 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
8759486 TTGATATCTA
* *
8759496 TATAGATTTTATACATTATCAATG
1 TATAAATTTTAAACATTATCAATG
*
8759520 TATAAATTTTAAATATTATCAA
1 TATAAATTTTAAACATTATCAA
8759542 CAAATCATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (24 bp):
TATAAATTTTAAACATTATCAATG
Found at i:8760103 original size:52 final size:52
Alignment explanation
Indices: 8760047--8760208 Score: 161
Period size: 54 Copynumber: 3.1 Consensus size: 52
8760037 TAGTTTTTGA
* *
8760047 TTGAAAAAAAGAATTTACAAAAACTACATTTATGAAAGTAGAAATATAGTCT
1 TTGAAAAAAAGAATTTACAAAAACTATATTTATGAAAGTAGAAACATAGTCT
* * *
8760099 TTGAATAAAAAAAAATTTACAAAGACTATGTATTT-T-AAAGTAGAAACATAGTTTT
1 TTG-A-AAAAAAGAATTTACAAAAACTA--TATTTATGAAAGTAGAAACATAG-TCT
* * * *
8760154 TATTAAAAAAAG-TTTTAC-AAAACTATGTTTATGAAAGTAGAAACATAATCT
1 T-TGAAAAAAAGAATTTACAAAAACTATATTTATGAAAGTAGAAACATAGTCT
8760205 TTGA
1 TTGA
8760209 TTAAAAAAAT
Statistics
Matches: 89, Mismatches: 13, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
50 6 0.07
51 4 0.04
52 23 0.26
53 6 0.07
54 40 0.45
55 5 0.06
56 5 0.06
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (52 bp):
TTGAAAAAAAGAATTTACAAAAACTATATTTATGAAAGTAGAAACATAGTCT
Found at i:8760215 original size:52 final size:53
Alignment explanation
Indices: 8760033--8760217 Score: 221
Period size: 53 Copynumber: 3.4 Consensus size: 53
8760023 CAAAATCGAG
* **
8760033 AACATAGTTTTTGATTGAAAAAAAGAATTTACAAAAACTACATTTATGAAAGTAGA
1 AACATAGTCTTTGATT-AAAAAAAG-ATTTAC-AAAACTATGTTTATGAAAGTAGA
* * * *
8760089 AATATAGTCTTTGAATAAAAAAAAATTTACAAAGACTATGTATT-TTAAAGTAGA
1 AACATAGTCTTTGATTAAAAAAAGATTTACAAA-ACTATGT-TTATGAAAGTAGA
* *
8760143 AACATAGT-TTTTATTAAAAAAAGTTTTACAAAACTATGTTTATGAAAGTAGA
1 AACATAGTCTTTGATTAAAAAAAGATTTACAAAACTATGTTTATGAAAGTAGA
*
8760195 AACATAATCTTTGATTAAAAAAA
1 AACATAGTCTTTGATTAAAAAAA
8760218 TTAAAAAAAA
Statistics
Matches: 110, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
51 2 0.02
52 23 0.21
53 36 0.33
54 27 0.25
55 9 0.08
56 13 0.12
ACGTcount: A:0.50, C:0.06, G:0.11, T:0.33
Consensus pattern (53 bp):
AACATAGTCTTTGATTAAAAAAAGATTTACAAAACTATGTTTATGAAAGTAGA
Found at i:8760352 original size:73 final size:73
Alignment explanation
Indices: 8760265--8760405 Score: 228
Period size: 73 Copynumber: 1.9 Consensus size: 73
8760255 AGTTTCTCTT
* *
8760265 TCCTACATTTCTATTATGACATGGCATTTAAAGACTACATTTCTTATCAAAGAAACGTGATCTTT
1 TCCTACATTTCTATTATAACATGGCATTTAAAGACTACATTTCTTATCAAAGAAACATGATCTTT
8760330 GTTGTCTC
66 GTTGTCTC
* * * *
8760338 TCCTACATTTCTATTGTAACATGGTATTTAAAGACTACATTTCTTATTAAAGAAGCATGATCTTT
1 TCCTACATTTCTATTATAACATGGCATTTAAAGACTACATTTCTTATCAAAGAAACATGATCTTT
8760403 GTT
66 GTT
8760406 AGAAAATACT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 62 1.00
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (73 bp):
TCCTACATTTCTATTATAACATGGCATTTAAAGACTACATTTCTTATCAAAGAAACATGATCTTT
GTTGTCTC
Found at i:8761009 original size:14 final size:14
Alignment explanation
Indices: 8760987--8761025 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
8760977 CCCAAACATG
*
8760987 AAAATTAAATTTCA
1 AAAAATAAATTTCA
8761001 AAAAATAAAATTTCA
1 AAAAAT-AAATTTCA
8761016 AAAAA-AAATT
1 AAAAATAAATT
8761026 AATTTTCTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 5 0.22
14 5 0.22
15 13 0.57
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAAATAAATTTCA
Found at i:8761011 original size:15 final size:15
Alignment explanation
Indices: 8760987--8761020 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
8760977 CCCAAACATG
*
8760987 AAAATTAAATTTCAA
1 AAAATAAAATTTCAA
8761002 AAAATAAAATTTCAA
1 AAAATAAAATTTCAA
8761017 AAAA
1 AAAA
8761021 AAATTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
AAAATAAAATTTCAA
Found at i:8761795 original size:18 final size:17
Alignment explanation
Indices: 8761768--8761801 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
8761758 AGTCTCGAAT
8761768 TTTAAATTAAGTTTAAA
1 TTTAAATTAAGTTTAAA
8761785 TTTAAATTTAAGTTTAA
1 TTTAAA-TTAAGTTTAA
8761802 TATTATATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (17 bp):
TTTAAATTAAGTTTAAA
Found at i:8763615 original size:39 final size:40
Alignment explanation
Indices: 8763572--8763651 Score: 126
Period size: 39 Copynumber: 2.0 Consensus size: 40
8763562 TTATGGTTTC
* *
8763572 TAATGATATTACTATTGTGCCATTGAATG-AGTGTTTTTT
1 TAATGATATTACTATTGTGCCAATGAATGCAGTATTTTTT
*
8763611 TAATGATATTCCTATTGTGCCAATGAATGCAGTATTTTTT
1 TAATGATATTACTATTGTGCCAATGAATGCAGTATTTTTT
8763651 T
1 T
8763652 TTTATGGCAC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
39 27 0.73
40 10 0.27
ACGTcount: A:0.26, C:0.10, G:0.16, T:0.47
Consensus pattern (40 bp):
TAATGATATTACTATTGTGCCAATGAATGCAGTATTTTTT
Found at i:8767173 original size:24 final size:24
Alignment explanation
Indices: 8767143--8767189 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
8767133 TGATAGAGAT
8767143 AGTTTTATATGATTTTATGATCAC
1 AGTTTTATATGATTTTATGATCAC
8767167 AGTTTTATATGATTTTATGATCA
1 AGTTTTATATGATTTTATGATCA
8767190 AACCATTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.30, C:0.06, G:0.13, T:0.51
Consensus pattern (24 bp):
AGTTTTATATGATTTTATGATCAC
Found at i:8771724 original size:63 final size:62
Alignment explanation
Indices: 8771631--8771772 Score: 171
Period size: 63 Copynumber: 2.3 Consensus size: 62
8771621 GTTTTCGGGC
* *
8771631 AAAAATGCCTTGAATAATCCCTAATAAAAAATT-AGAGGGGATTATTCAAGGTATTTTTAGTAA
1 AAAAATGCCTTGAATAATCCCTAATAAAAAATTGA-AGGAGATTATTCAAGATATTTTTAGT-A
* * * * *
8771694 AAAAATGCCTTGAATAATCACTTCAT-AAAAATTGAAGGAGATTATTGAAGATATTTTTTGTC
1 AAAAATGCCTTGAATAATC-CCTAATAAAAAATTGAAGGAGATTATTCAAGATATTTTTAGTA
*
8771756 AGAAATGCCTTGAATAA
1 AAAAATGCCTTGAATAA
8771773 CCTTATTCAA
Statistics
Matches: 69, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
62 16 0.23
63 48 0.70
64 5 0.07
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.32
Consensus pattern (62 bp):
AAAAATGCCTTGAATAATCCCTAATAAAAAATTGAAGGAGATTATTCAAGATATTTTTAGTA
Found at i:8782971 original size:15 final size:15
Alignment explanation
Indices: 8782959--8782989 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
8782949 AACAAAAAGG
8782959 AAAAGAAATAAAATGA
1 AAAAGAAA-AAAATGA
8782975 AAAAGAAAAAAATGA
1 AAAAGAAAAAAATGA
8782990 TTCAGTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (15 bp):
AAAAGAAAAAAATGA
Found at i:8783177 original size:58 final size:58
Alignment explanation
Indices: 8783041--8783498 Score: 614
Period size: 58 Copynumber: 7.8 Consensus size: 58
8783031 TGCTTTTGTA
* *
8783041 CAAGAAAAATTGATACTTTCAACTTTTCCTCGAAAATATTTTTTTAGAAAAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATA-TTTTTTAG-AAAACTTATTTT
* * *
8783101 CAAGGAAAATTGACACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTGTTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
* * *
8783159 TAAAGAAAATTAATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
* * * * * *
8783217 CAAAGAAAATTGATATTTTCAATTTTTCCTCAAAAATATTTTTTCGGAAGCTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
* * *
8783275 GAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAA-ACCCTTTTTTAAAAAAATTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATA---TTTTTTAGAAAACTTATTTT
* * *
8783335 TAAAGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
* * *
8783393 CAAGGAAAATTGATATTTTTAACTTTTCCTCAAAAATATTTTTTAAAAAACTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
* * * *
8783451 CAAGGAAAATTGATAATTTCAACTTTTCCT-TAAAATATCTTTTGGAAA
1 CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAA
8783499 CATTTTTCTT
Statistics
Matches: 350, Mismatches: 44, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
57 15 0.04
58 244 0.70
59 8 0.02
60 82 0.23
61 1 0.00
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (58 bp):
CAAGGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTT
Found at i:8783334 original size:16 final size:16
Alignment explanation
Indices: 8783316--8783345 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8783306 AAAAAACCCT
8783316 TTTTTAAA-AAAATTA
1 TTTTTAAAGAAAATTA
8783331 TTTTTAAAGAAAATT
1 TTTTTAAAGAAAATT
8783346 GATACTTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
TTTTTAAAGAAAATTA
Found at i:8783340 original size:176 final size:174
Alignment explanation
Indices: 8783046--8783493 Score: 657
Period size: 176 Copynumber: 2.6 Consensus size: 174
8783036 TTGTACAAGA
* *
8783046 AAAATTGATACTTTCAACTTTTCCTCGAAAATATTTTTTTAGAAAAACTTATTTTCAAGGAAAAT
1 AAAATTGATATTTTCAACTTTTCCTCAAAAATA-TTTTTTAG-AAAACTTATTTTCAAGGAAAAT
* * * * *
8783111 TGACACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTGTTTTTAAAGAAAATTAATACT
64 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAAAAATTATTTTTAAAGAAAATTAATACT
8783176 TTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAAAG
129 TTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAAAG
* * * * *
8783222 AAAATTGATATTTTCAATTTTTCCTCAAAAATATTTTTTCGGAAGCTTATTTTGAAGGAAAATTG
1 AAAATTGATATTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAAGGAAAATTG
*
8783287 ATACTTTCAACTTTTCCTCAAAAA-ACCCTTTTTTAAAAAAATTATTTTTAAAGAAAATTGATAC
66 ATACTTTCAACTTTTCCTCAAAAATA---TTTTTTAAAAAAATTATTTTTAAAGAAAATTAATAC
* *
8783351 TTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTTCAAGG
128 TTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAAAG
* *
8783398 AAAATTGATATTTTTAACTTTTCCTCAAAAATATTTTTTAAAAAACTTATTTTCAAGGAAAATTG
1 AAAATTGATATTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAAGGAAAATTG
* * *
8783463 ATAATTTCAACTTTTCCT-TAAAATATCTTTT
66 ATACTTTCAACTTTTCCTCAAAAATATTTTTT
8783494 GGAAACATTT
Statistics
Matches: 243, Mismatches: 25, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
173 6 0.02
174 43 0.18
175 11 0.05
176 183 0.75
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.43
Consensus pattern (174 bp):
AAAATTGATATTTTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAAGGAAAATTG
ATACTTTCAACTTTTCCTCAAAAATATTTTTTAAAAAAATTATTTTTAAAGAAAATTAATACTTT
CAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAAAG
Found at i:8783355 original size:234 final size:232
Alignment explanation
Indices: 8783046--8783497 Score: 692
Period size: 234 Copynumber: 1.9 Consensus size: 232
8783036 TTGTACAAGA
* * * *
8783046 AAAATTGATACTTTCAACTTTTCCTCGAAAATATTTTTTTAGAAAAACTTATTTTCAAGGAAAAT
1 AAAATTGATACTTTCAACTTTTCCTCGAAAAAACTTTTTTAGAAAAAATTATTTTCAAAGAAAAT
* *
8783111 TGACACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTGTTTTTAAAGAAAATTAATACT
66 TGACACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTTCAAAGAAAATTAATACT
* * *
8783176 TTCAACTTTTCCTCAAAAATATTTTTTAGAAAACTTATTTTCAAAGAAAATTGATATTTTCAATT
131 TTCAACTTTTCCTCAAAAATATTTTTTAAAAAACTTATTTTCAAAGAAAATTGATAATTTCAACT
*
8783241 TTTCCTCAAAAATATTTTTTCGGAAGCTTATTTTGAAGG
196 TTTCCT-AAAAATATCTTTT-GGAAGCTTATTTTGAAGG
*
8783280 AAAATTGATACTTTCAACTTTTCCTC-AAAAAACCCTTTTTTA-AAAAAATTATTTTTAAAGAAA
1 AAAATTGATACTTTCAACTTTTCCTCGAAAAAA--CTTTTTTAGAAAAAATTATTTTCAAAGAAA
* * *
8783343 ATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTTCAAGGAAAATTGATA
64 ATTGACACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTTCAAAGAAAATTAATA
* * *
8783408 TTTTTAACTTTTCCTCAAAAATATTTTTTAAAAAACTTATTTTCAAGGAAAATTGATAATTTCAA
129 CTTTCAACTTTTCCTCAAAAATATTTTTTAAAAAACTTATTTTCAAAGAAAATTGATAATTTCAA
*
8783473 CTTTTCCTTAAAATATCTTTTGGAA
194 CTTTTCCTAAAAATATCTTTTGGAA
8783498 ACATTTTTCT
Statistics
Matches: 198, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
232 4 0.02
233 16 0.08
234 171 0.86
235 7 0.04
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (232 bp):
AAAATTGATACTTTCAACTTTTCCTCGAAAAAACTTTTTTAGAAAAAATTATTTTCAAAGAAAAT
TGACACTTTCAACTTTTTCTCAAAAATATTTTTTAGAAAACTTATTTTCAAAGAAAATTAATACT
TTCAACTTTTCCTCAAAAATATTTTTTAAAAAACTTATTTTCAAAGAAAATTGATAATTTCAACT
TTTCCTAAAAATATCTTTTGGAAGCTTATTTTGAAGG
Found at i:8785783 original size:27 final size:27
Alignment explanation
Indices: 8785737--8785788 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
8785727 TATAAGCTCA
*
8785737 AAAAAATATTAATTACTAATTTTTTTT
1 AAAAAATATTAATTACTAATATTTTTT
8785764 AAAAAATATTAATT-CATAATATTTT
1 AAAAAATATTAATTAC-TAATATTTT
8785789 CTTCTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (27 bp):
AAAAAATATTAATTACTAATATTTTTT
Found at i:8785841 original size:16 final size:17
Alignment explanation
Indices: 8785807--8785855 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
8785797 AAAAAATTCC
*
8785807 AAAAACTATAATTTCTT
1 AAAAACTATAATTTATT
8785824 AAAAACTATAA-TTATT
1 AAAAACTATAATTTATT
*
8785840 AATAAA-TAAAATTTAT
1 AA-AAACTATAATTTAT
8785856 AACTTAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 10 0.36
17 18 0.64
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAAACTATAATTTATT
Found at i:8785942 original size:13 final size:13
Alignment explanation
Indices: 8785919--8785977 Score: 52
Period size: 12 Copynumber: 4.6 Consensus size: 13
8785909 TATGAATTAA
8785919 TAAAT-TTATAAT
1 TAAATATTATAAT
8785931 TAAATATTATAA-
1 TAAATATTATAAT
* *
8785943 TAAAAATTTTAAATT
1 TAAATATTAT-AA-T
*
8785958 TAAATGTTAT-AT
1 TAAATATTATAAT
8785970 TAAATATT
1 TAAATATT
8785978 TTATAATATT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
12 21 0.57
13 9 0.24
15 7 0.19
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (13 bp):
TAAATATTATAAT
Found at i:8803051 original size:3 final size:3
Alignment explanation
Indices: 8803037--8803066 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
8803027 TTTCTCTTTC
*
8803037 ATT ATT AGT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8803067 TATTTTTAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:8803234 original size:15 final size:15
Alignment explanation
Indices: 8803216--8803258 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
8803206 ACTTTTGAAG
*
8803216 ATTTTTATTTTTATT
1 ATTTTTATTTTTATC
8803231 ATTTTT-TTTATTATC
1 ATTTTTATTT-TTATC
8803246 ATTTTATATTTTT
1 ATTTT-TATTTTT
8803259 TATACATATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 3 0.12
15 15 0.62
16 3 0.12
17 3 0.12
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (15 bp):
ATTTTTATTTTTATC
Found at i:8803272 original size:23 final size:23
Alignment explanation
Indices: 8803224--8803273 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
8803214 AGATTTTTAT
* * *
8803224 TTTTATTATTTTTTTTATTATCA
1 TTTTATTATTTTTTATAATATAA
8803247 TTTTA-TATTTTTTATACATATAA
1 TTTTATTATTTTTTATA-ATATAA
8803270 TTTT
1 TTTT
8803274 TTTAATTTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (23 bp):
TTTTATTATTTTTTATAATATAA
Found at i:8807072 original size:59 final size:56
Alignment explanation
Indices: 8807009--8807633 Score: 297
Period size: 57 Copynumber: 10.8 Consensus size: 56
8806999 AACATCTTTC
*
8807009 AAAATTTTTATTTTTAAGAAATATTGATACTCTCAACTTTTCATCGACAAATATTTTTG
1 AAAATTTTTATTTTTAAGAAA-ATTGATACTTTCAACTTTTC-TC-ACAAATATTTTTG
* * *
8807068 AAAA--TTTATCTTTAAGGAAAATTAATACTTTCAACTTTTC-CTA-AAACTGTTTTTTTTG
1 AAAATTTTTATTTTTAA-GAAAATTGATACTTTCAACTTTTCTC-ACAAA----TATTTTTG
*
8807126 -AAATTTTTATTTTTAAAGAAAATTGATACTTTCAACTTTTTCTCA-AAA-ATATTT-
1 AAAATTTTTATTTTT-AAGAAAATTGATACTTTCAAC-TTTTCTCACAAATATTTTTG
* * * * *
8807180 ----TTTTGATTTTTAAGGAAAATCGATACTTTCAATTTTTCCTTA-AAATGTTTTTTTTCTTG
1 AAAATTTTTATTTTTAA-GAAAATTGATACTTTCAACTTTT-CTCACAAA-----TATTT-TTG
* * * * *
8807239 -AATTTTTTTTTTTTAGGAAAATTGATA-TCTTCAACTTTTCCTTA-AAACATTTTATTG
1 AAAATTTTTATTTTTAAGAAAATTGATACT-TTCAACTTTT-CTCACAAATA-TTT-TTG
* *
8807296 AAAA-TTTTA-TTTTAAGAAAAATTGATATTTTCAACTTTTCCTCAAAAATACCTTTTTG
1 AAAATTTTTATTTTTAAG-AAAATTGATACTTTCAACTTTT-CTCACAAATA--TTTTTG
* * * *
8807354 -AAATTTTTATTTTCTAGGAAAATTGATACTTTCAACTTTTTCTTAAAAATATATATTTT
1 AAAATTTTTATTTT-TAAGAAAATTGATACTTTCAAC-TTTTCTCACAAATAT-T-TTTG
** ** * * *
8807413 TTAATTTTTACTTTCAAAGAAAATCGATACTTTTAACTTTTCCTTA-AAATATTTTTCTTTTG
1 AAAATTTTTA-TTTTTAAGAAAATTGATACTTTCAACTTTT-CTCACAAATA----T-TTTTG
* * * * * *
8807475 -AAATCTTTATTTTCAAGAAAATTTGATACTTTTAATTTTTCTTCAAAAATACCTTTTTT
1 AAAATTTTTATTTTTAAGAAAA-TTGATACTTTCAACTTTTC-TCACAAATA--TTTTTG
* * * *
8807534 AAAATTTTTATTTTCAAGAAAAATTGATACTTCCAACTTTTTCTTA-AAATATTTTTTT
1 AAAATTTTTATTTTTAAG-AAAATTGATACTTTCAAC-TTTTCTCACAAATA-TTTTTG
** * *
8807592 AAAA-TTGAATCTTCAAGGAAAATTGATACTTTCAACTTTTCT
1 AAAATTTTTATTTTTAA-GAAAATTGATACTTTCAACTTTTCT
8807634 TTAAAGTATT
Statistics
Matches: 455, Mismatches: 61, Indels: 103
0.74 0.10 0.17
Matches are distributed among these distances:
50 6 0.01
51 33 0.07
54 3 0.01
55 6 0.01
56 12 0.03
57 97 0.21
58 40 0.09
59 83 0.18
60 90 0.20
61 65 0.14
62 18 0.04
63 2 0.00
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (56 bp):
AAAATTTTTATTTTTAAGAAAATTGATACTTTCAACTTTTCTCACAAATATTTTTG
Found at i:8807419 original size:60 final size:58
Alignment explanation
Indices: 8807179--8807724 Score: 417
Period size: 57 Copynumber: 9.2 Consensus size: 58
8807169 CAAAAATATT
* * * * *
8807179 TTTTTGATTTTTAAGGAAAATCGATACTTTCAA-TTTTTCCTTAAAATGTTTTTTTTCTTGAA
1 TTTTT-ATTTTCAAGGAAAATTGATACTTTCAACTTTTT-CTTAAAA--ATATTTTT-TTAAA
* ** * * *
8807241 TTTTTTTTTTTTAGGAAAATTGATA-TCTTCAACTTTTCCTTAAAACAT-TTTATTGAAA
1 TTTTTATTTTCAAGGAAAATTGATACT-TTCAACTTTTTCTTAAAA-ATATTTTTTTAAA
* * * * * * *
8807299 ATTTTATTTT-AAGAAAAATTGATATTTTCAACTTTTCCTCAAAAATACCTTTTTGAAA
1 TTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTTCTTAAAAATA-TTTTTTTAAA
* *
8807357 TTTTTATTTTCTAGGAAAATTGATACTTTCAACTTTTTCTTAAAAATATATATTTTTTAA
1 TTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTTCTTAAAAATAT-T-TTTTTAAA
* * * * * *
8807417 TTTTTACTTTCAAAGAAAATCGATACTTTTAACTTTTCCTTAAAATATTTTTCTTTTGAAA
1 TTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTTCTTAAAA-ATATTT-TTTT-AAA
* * *
8807478 TCTTTATTTTCAA-GAAAATTTGATACTTTTAA-TTTTTCTTCAAAAATACCTTTTTTAAAA
1 TTTTTATTTTCAAGGAAAA-TTGATACTTTCAACTTTTTCTT-AAAAATA--TTTTTTTAAA
* *
8807538 TTTTTATTTTCAAGAAAAATTGATACTTCCAACTTTTTCTT-AAAATATTTTTTTAAA
1 TTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTAAA
* ** * * * *
8807595 ATTGAATCTTCAAGGAAAATTGATACTTTCAAC-TTTTCTTTAAAGTATTTTATTAAA
1 TTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTAAA
* ** * * * * * *
8807652 ATTGGATATTCAAGGAAAATTGATATTTTTAA-TTTTTCCTTAAGGTATTTTTTTTTTGAAA
1 TTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTT-CTTAA--AAATATTTTTTT-AAA
8807713 TTTTTATTTTCA
1 TTTTTATTTTCA
8807725 GAAAATCATT
Statistics
Matches: 396, Mismatches: 65, Indels: 47
0.78 0.13 0.09
Matches are distributed among these distances:
56 9 0.02
57 111 0.28
58 33 0.08
59 44 0.11
60 100 0.25
61 87 0.22
62 12 0.03
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (58 bp):
TTTTTATTTTCAAGGAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTTAAA
Found at i:8807791 original size:26 final size:25
Alignment explanation
Indices: 8807759--8807844 Score: 97
Period size: 26 Copynumber: 3.5 Consensus size: 25
8807749 TGCTTAATTA
8807759 AATAAATAAATGATTCCAATTTAATC
1 AATAAATAAAT-ATTCCAATTTAATC
** * *
8807785 AATAAATAAATA-AGC-A-TAAATA
1 AATAAATAAATATTCCAATTTAATC
8807807 AATAAATAAATTATTCCAATTTAATC
1 AATAAATAAA-TATTCCAATTTAATC
8807833 AATAAATAAATA
1 AATAAATAAATA
8807845 AGCAAAAATA
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
22 14 0.29
23 3 0.06
24 2 0.04
25 4 0.08
26 25 0.52
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.31
Consensus pattern (25 bp):
AATAAATAAATATTCCAATTTAATC
Found at i:8807794 original size:4 final size:4
Alignment explanation
Indices: 8807785--8807868 Score: 60
Period size: 4 Copynumber: 19.5 Consensus size: 4
8807775 CAATTTAATC
* * * * *
8807785 AATA AATA AATA AGCATA AATA AATA AATA AATT ATTCCA ATTT AATC
1 AATA AATA AATA A--ATA AATA AATA AATA AATA AAT--A AATA AATA
*
8807833 AATA AATA AATA AGCAAA AATA AATA AATA AATA AA
1 AATA AATA AATA A--ATA AATA AATA AATA AATA AA
8807869 GAAAAAAGGA
Statistics
Matches: 65, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
4 55 0.85
6 10 0.15
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:8807817 original size:48 final size:48
Alignment explanation
Indices: 8807757--8807865 Score: 200
Period size: 48 Copynumber: 2.3 Consensus size: 48
8807747 AATGCTTAAT
*
8807757 TAAATAAATAAATGATTCCAATTTAATCAATAAATAAATAAGCATAAA
1 TAAATAAATAAATGATTCCAATTTAATCAATAAATAAATAAGCAAAAA
*
8807805 TAAATAAATAAATTATTCCAATTTAATCAATAAATAAATAAGCAAAAA
1 TAAATAAATAAATGATTCCAATTTAATCAATAAATAAATAAGCAAAAA
8807853 TAAATAAATAAAT
1 TAAATAAATAAAT
8807866 AAAGAAAAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.61, C:0.07, G:0.03, T:0.29
Consensus pattern (48 bp):
TAAATAAATAAATGATTCCAATTTAATCAATAAATAAATAAGCAAAAA
Found at i:8807874 original size:22 final size:22
Alignment explanation
Indices: 8807785--8807867 Score: 85
Period size: 22 Copynumber: 3.6 Consensus size: 22
8807775 CAATTTAATC
*
8807785 AATAAATAAATAAGCATAAATA
1 AATAAATAAATAAGCAAAAATA
** * *
8807807 AATAAATAAATTATTCCAATTTAATC
1 AATAAATAAA-TA-AGCAA--AAATA
8807833 AATAAATAAATAAGCAAAAATA
1 AATAAATAAATAAGCAAAAATA
8807855 AATAAATAAATAA
1 AATAAATAAATAA
8807868 AGAAAAAAGG
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
22 26 0.54
23 2 0.04
24 5 0.10
25 2 0.04
26 13 0.27
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.27
Consensus pattern (22 bp):
AATAAATAAATAAGCAAAAATA
Found at i:8808670 original size:50 final size:51
Alignment explanation
Indices: 8808589--8808686 Score: 153
Period size: 50 Copynumber: 1.9 Consensus size: 51
8808579 TACTTTCAAC
* *
8808589 TTTTTCTTAAAGTATTTTTCAAAATTTTTATTTTCAAAGAAAATTGATGCT
1 TTTTTCTTAAAGCATTTTTCAAAATTCTTATTTTCAAAGAAAATTGATGCT
* *
8808640 TTTTTCTTAAGGCATTTTT-GAAATTCTTATTTTCAAAGAAAATTGAT
1 TTTTTCTTAAAGCATTTTTCAAAATTCTTATTTTCAAAGAAAATTGAT
8808687 ACTCTCAACT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
50 26 0.60
51 17 0.40
ACGTcount: A:0.33, C:0.08, G:0.09, T:0.50
Consensus pattern (51 bp):
TTTTTCTTAAAGCATTTTTCAAAATTCTTATTTTCAAAGAAAATTGATGCT
Found at i:8808747 original size:59 final size:57
Alignment explanation
Indices: 8808655--8808826 Score: 211
Period size: 59 Copynumber: 2.9 Consensus size: 57
8808645 CTTAAGGCAT
* *
8808655 TTTTGAAATTCTTATTTTCAA-AGAAAATTGATACTCTCAACTTCTCCTCAAAAAATAAC
1 TTTTGAAATT-TTATTTTCAAGA-AAAATTGATACTTTCAACTTTTCCTCAAAAAA-AAC
* * * *
8808714 TTTTGAAAATTTTATCTTCAAGAAAAATTGATACTTTCAACTTTTTCTCAAAAAACAT
1 TTTTG-AAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAAAC
* *
8808772 TTCTTGAAATTTTCATTTTCAAGAAAAATTGATACTTTCAATTTTTCCTTAAAAA
1 TT-TTGAAATTTT-ATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAA
8808827 TGTTTTTATT
Statistics
Matches: 99, Mismatches: 10, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
58 10 0.10
59 83 0.84
60 6 0.06
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.41
Consensus pattern (57 bp):
TTTTGAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTCAAAAAAAAC
Found at i:8810823 original size:9 final size:10
Alignment explanation
Indices: 8810806--8810833 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
8810796 AGTAAAAAAA
8810806 AATTTTTTTG
1 AATTTTTTTG
8810816 AATTTTTTTG
1 AATTTTTTTG
8810826 AATTTTTT
1 AATTTTTT
8810834 ATATATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.71
Consensus pattern (10 bp):
AATTTTTTTG
Found at i:8811282 original size:195 final size:198
Alignment explanation
Indices: 8811011--8811374 Score: 470
Period size: 197 Copynumber: 1.8 Consensus size: 198
8811001 AAAATGTAAG
* * * * * * *
8811011 AAAAGGAAATTTTTACCCGATGATGAGATTCAAAGGTACTCCGAGTAGCGATACTTATGAAATCT
1 AAAAAGAAAATTTTACCCGATGATGAGATTCAAAAGTACTCCGAATAGAGATACTTAAGAAATCC
* *
8811076 CTAGGTGAGAAGA-TTTTTTGAATATTACCAGCGTATT-GGAGTATTTATA-AAAAATTTCAATA
66 CTAGGTGAGAAGATTTTTTTAAATATTACCAGAGTATTGGGA-TATTTATAGAAAAATTTCAATA
8811138 CAATAAAAATT-TTATTTTTT-TTGTTTTAAAATAATAAATAAAAATAAATTAATAAATTAAATA
130 CAATAAAAATTCTTATTTTTTATTGTTTTAAAATAATAAATAAAAATAAATTAATAAATTAAATA
8811201 ATAA
195 ATAA
* * ** *
8811205 AAAAAGAAAATTTTATCCGATGATGAGATTCTAAAAGTATTTTGAATAGAGATGCTTTAAGAAAT
1 AAAAAGAAAATTTTACCCGATGATGAGATTC-AAAAGTACTCCGAATAGAGATAC-TTAAGAAAT
* *
8811270 CCCTA-GTGAGAAGATTTTTTTTAAATATTACTAGAGTATTGGGATATTTATAGAAAATTTTCAA
64 CCCTAGGTGAGAAGA-TTTTTTTAAATATTACCAGAGTATTGGGATATTTATAGAAAAATTTCAA
* * * *
8811334 TATAATAAAAATTCTTCTTTTTTATTTTTTTATAATAATAA
128 TACAATAAAAATTCTTATTTTTTATTGTTTTAAAATAATAA
8811375 GTATTAATTA
Statistics
Matches: 142, Mismatches: 20, Indels: 10
0.83 0.12 0.06
Matches are distributed among these distances:
194 28 0.20
195 25 0.18
196 12 0.08
197 29 0.20
198 25 0.18
199 8 0.06
200 15 0.11
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (198 bp):
AAAAAGAAAATTTTACCCGATGATGAGATTCAAAAGTACTCCGAATAGAGATACTTAAGAAATCC
CTAGGTGAGAAGATTTTTTTAAATATTACCAGAGTATTGGGATATTTATAGAAAAATTTCAATAC
AATAAAAATTCTTATTTTTTATTGTTTTAAAATAATAAATAAAAATAAATTAATAAATTAAATAA
TAA
Found at i:8812616 original size:85 final size:84
Alignment explanation
Indices: 8812367--8812627 Score: 267
Period size: 85 Copynumber: 3.1 Consensus size: 84
8812357 TCAAAAACAT
* * * *
8812367 AATGACTTGGATCAAACTAAAGTCTGAAAAAAACAACTTGGA-TCGAACCCAAA-AAGGATCTGG
1 AATGACTTGGACCAAACCAAAGTCT-AAATAAATAACTTGGACT-GAA-CCAAAGAAGGATCTGG
* **
8812430 CATAGGTTAAAATCCAAAACAA
63 CATAGGCTAAAATCCAAAATGA
** ** * * * * *
8812452 AATGACTTAAACTGAATCAAAGTCTAAAATGAATAACTTGGACT-AAACAGAAGAAAGATCTAGC
1 AATGACTTGGACCAAACCAAAGTCT-AAATAAATAACTTGGACTGAACCA-AAGAAGGATCTGGC
*
8812516 ATAGGCCAAAATCCAAAATGA
64 ATAGGCTAAAATCCAAAATGA
*
8812537 AATGACTTGGACCAAACCAAAGTCTAAACTAAATAACTTGGACTGAGCCAAAGAAGGATCTGGCA
1 AATGACTTGGACCAAACCAAAGTCTAAA-TAAATAACTTGGACTGAACCAAAGAAGGATCTGGCA
* *
8812602 TAGGCTGAATTCCAAAATGA
65 TAGGCTAAAATCCAAAATGA
8812622 AATGAC
1 AATGAC
8812628 CTGAATGAAA
Statistics
Matches: 140, Mismatches: 31, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
83 2 0.01
84 7 0.05
85 127 0.91
86 4 0.03
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.20
Consensus pattern (84 bp):
AATGACTTGGACCAAACCAAAGTCTAAATAAATAACTTGGACTGAACCAAAGAAGGATCTGGCAT
AGGCTAAAATCCAAAATGA
Found at i:8812671 original size:85 final size:85
Alignment explanation
Indices: 8812415--8812671 Score: 180
Period size: 85 Copynumber: 3.0 Consensus size: 85
8812405 TGGATCGAAC
* * ** ** * * ** *
8812415 CCAAA-AAGGATCTGGCATAGGTTAAAATCCAAAACAAAATGACTTAAACTGAATCAAAGTCTAA
1 CCAAAGAAAGATCTAGCATAGGCCAAAATCCAAAATGAAATGACCTGAACCAAACCAAAGTCTAA
* * *
8812479 A-ATGAATAACTTGGACTAA-
66 ACA-AAATAAATGGGACTAAG
* * *
8812498 ACAGAAGAAAGATCTAGCATAGGCCAAAATCCAAAATGAAATGACTTGGACCAAACCAAAGTCTA
1 CCA-AAGAAAGATCTAGCATAGGCCAAAATCCAAAATGAAATGACCTGAACCAAACCAAAGTCTA
* * * *
8812563 AACTAAATAACTTGGACTGAG
65 AACAAAATAAATGGGACTAAG
* * ** * ** **
8812584 CCAAAGAAGGATCTGGCATAGGCTGAATTCCAAAATGAAATGACCTGAATGAAACTGAAGTCTAA
1 CCAAAGAAAGATCTAGCATAGGCCAAAATCCAAAATGAAATGACCTGAACCAAACCAAAGTCTAA
*
8812649 A-AAAACTAAATGGGATTAAG
66 ACAAAA-TAAATGGGACTAAG
8812669 CCA
1 CCA
8812672 GAATACATCA
Statistics
Matches: 137, Mismatches: 32, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
83 2 0.01
84 5 0.04
85 128 0.93
86 2 0.01
ACGTcount: A:0.46, C:0.17, G:0.18, T:0.19
Consensus pattern (85 bp):
CCAAAGAAAGATCTAGCATAGGCCAAAATCCAAAATGAAATGACCTGAACCAAACCAAAGTCTAA
ACAAAATAAATGGGACTAAG
Found at i:8813523 original size:52 final size:51
Alignment explanation
Indices: 8813413--8813615 Score: 237
Period size: 52 Copynumber: 3.8 Consensus size: 51
8813403 TTCATGACTC
**
8813413 AAACTGCCTTTTGTAGGTTTTCAATTTGAGCCTTTCTTTTTTTTTTTTTGAACTT
1 AAACTGCC-TTTACAGGTTTTCAATTTGAG-C--TCTTTTTTTTTTTTTGAACTT
* *
8813468 AAACCGCCATTTACAGGTTTTCAATTTGAACTCTTTTTTTTTTTTTGAACTT
1 AAACTGCC-TTTACAGGTTTTCAATTTGAGCTCTTTTTTTTTTTTTGAACTT
** *
8813520 AAACTGACCTTTATGGGTTTTCAATTTGAGCTCTCTTTTTTTTTTTT-AACTC
1 AAACTG-CCTTTACAGGTTTTCAATTTGAGCTCT-TTTTTTTTTTTTGAACTT
* * *
8813572 AAACTGCCCTTTACGGGTTTTCAATTTGAGCCCTTTTTATTTTT
1 AAACTG-CCTTTACAGGTTTTCAATTTGAGCTCTTTTTTTTTTT
8813616 AAGAGAAATA
Statistics
Matches: 132, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
51 9 0.07
52 83 0.63
53 14 0.11
54 1 0.01
55 25 0.19
ACGTcount: A:0.19, C:0.17, G:0.12, T:0.52
Consensus pattern (51 bp):
AAACTGCCTTTACAGGTTTTCAATTTGAGCTCTTTTTTTTTTTTTGAACTT
Found at i:8820781 original size:15 final size:15
Alignment explanation
Indices: 8820757--8820790 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
8820747 TTATTTTATT
*
8820757 AAATGTAATGAATGA
1 AAATGCAATGAATGA
8820772 AAATGCAATGAATGA
1 AAATGCAATGAATGA
8820787 AAAT
1 AAAT
8820791 ACATGCATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.56, C:0.03, G:0.18, T:0.24
Consensus pattern (15 bp):
AAATGCAATGAATGA
Found at i:8824053 original size:58 final size:56
Alignment explanation
Indices: 8823976--8824355 Score: 253
Period size: 59 Copynumber: 6.7 Consensus size: 56
8823966 TTATTCAAGA
* * *
8823976 AAAATTAATACTTTCAACTTTTCTTTGAGCAACATTTTTTTAAAGTTTTATTTTTAAG
1 AAAATTGATACTTTCAACTTTTCCTT-A-AAACATTTTTTTAAAGTTTTATTTTTAAG
* * * *
8824034 AAAATTGATACTCTCAACTTTTCCTCAAATGGCA-TTTTTTGAAGTTTTCATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTTAAA--ACATTTTTTTAAAGTTTT-ATTTTTAA-G
* * * * *
8824093 AAAACTGATACTTTCAACTTTTCCTTAAAATATTTTTTCAAAATTTTATTTTCAAAG
1 AAAATTGATACTTTCAACTTTTCCTTAAAACATTTTTTTAAAGTTTTATTTT-TAAG
* ** * * *
8824150 AAAATTGAT--GTT----TTTT-CTTAAGGCA-TTTTTGAAATTTTTATTTTCAAG
1 AAAATTGATACTTTCAACTTTTCCTTAAAACATTTTTTTAAAGTTTTATTTTTAAG
* * * * * *
8824198 AAAAATTGATACTCTCAA-TGTTTCCTCAAAAAATATCTTTTGAAGATTTTATTTTCAAG
1 -AAAATTGATACTTTCAACT-TTTCCTTAAAACAT-TTTTTTAAAG-TTTTATTTTTAAG
* * * *
8824257 AAAAATTGATACTTTAAACTTATT-CTTGAAAAACATTTTTTGAAATTTTTATTTTTACAA
1 -AAAATTGATACTTTCAACTT-TTCCTT--AAAACATTTTTTTAAAGTTTTATTTTTA-AG
* * *
8824317 AAAATTGATACTTTCAATTTTTTCTTAAAA-ATATTTTTA
1 AAAATTGATACTTTCAACTTTTCCTTAAAACATTTTTTTA
8824356 TTAAATATAT
Statistics
Matches: 251, Mismatches: 48, Indels: 48
0.72 0.14 0.14
Matches are distributed among these distances:
48 3 0.01
49 26 0.10
50 6 0.02
51 5 0.02
54 1 0.00
55 5 0.02
56 13 0.05
57 33 0.13
58 53 0.21
59 90 0.36
60 10 0.04
61 6 0.02
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (56 bp):
AAAATTGATACTTTCAACTTTTCCTTAAAACATTTTTTTAAAGTTTTATTTTTAAG
Found at i:8824371 original size:16 final size:16
Alignment explanation
Indices: 8824333--8824374 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
8824323 GATACTTTCA
*
8824333 ATTTTTTCTTAAAAAT
1 ATTTTTTATTAAAAAT
*
8824349 A-TTTTTATTAAATAT
1 ATTTTTTATTAAAAAT
8824364 ATTTTTTATTA
1 ATTTTTTATTA
8824375 TATTAACTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTTTTTATTAAAAAT
Found at i:8826644 original size:22 final size:22
Alignment explanation
Indices: 8826600--8826643 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
8826590 ATCAAAGAAT
8826600 ATAAAATTAAATTTTATTAAAA
1 ATAAAATTAAATTTTATTAAAA
*
8826622 ATAAAATTAGATTTT-TTAAAA
1 ATAAAATTAAATTTTATTAAAA
8826643 A
1 A
8826644 AAGAAAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
ATAAAATTAAATTTTATTAAAA
Found at i:8827732 original size:22 final size:24
Alignment explanation
Indices: 8827701--8827749 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
8827691 AAATATAATT
8827701 TTTAACTTTA-TTTTTAAT-AGAA
1 TTTAACTTTACTTTTTAATCAGAA
* *
8827723 TTTAATTTTACTTTTTTATCAGAA
1 TTTAACTTTACTTTTTAATCAGAA
8827747 TTT
1 TTT
8827750 GTAAATACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 9 0.39
23 7 0.30
24 7 0.30
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (24 bp):
TTTAACTTTACTTTTTAATCAGAA
Found at i:8828668 original size:31 final size:30
Alignment explanation
Indices: 8828582--8828696 Score: 83
Period size: 31 Copynumber: 3.8 Consensus size: 30
8828572 TTAATAATCT
* *
8828582 ATTTTAAAATGATAT-GAAAATTTTTACATTA
1 ATTTTAAAATAATATAG-AATTTTTTAC-TTA
* * * *
8828613 TCTTTTAAAATCATAT-G-GTGTTTTTATTTA
1 -ATTTTAAAATAATATAGAAT-TTTTTACTTA
*
8828643 ATTTTAAAATCAATATAGAATTTTTTGCTTA
1 ATTTTAAAAT-AATATAGAATTTTTTACTTA
* *
8828674 TTTTTAAAATGATATAGAATTTT
1 ATTTTAAAATAATATAGAATTTT
8828697 GAAAAATTAT
Statistics
Matches: 67, Mismatches: 12, Indels: 10
0.75 0.13 0.11
Matches are distributed among these distances:
29 9 0.13
30 19 0.28
31 24 0.36
32 15 0.22
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.50
Consensus pattern (30 bp):
ATTTTAAAATAATATAGAATTTTTTACTTA
Found at i:8828975 original size:20 final size:19
Alignment explanation
Indices: 8828950--8828987 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
8828940 AATATTTAAA
8828950 AAAATAGAT-TTTTCTATTAG
1 AAAATA-ATATTTT-TATTAG
8828970 AAAATAATATTTTTATTA
1 AAAATAATATTTTTATTA
8828988 TGATTTATGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (19 bp):
AAAATAATATTTTTATTAG
Found at i:8829966 original size:15 final size:16
Alignment explanation
Indices: 8829946--8829976 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
8829936 TAATTTTGTT
8829946 AATAAAAA-AAGAAAA
1 AATAAAAAGAAGAAAA
8829961 AATAAAAAGAAGAAAA
1 AATAAAAAGAAGAAAA
8829977 GAAAAAATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (16 bp):
AATAAAAAGAAGAAAA
Found at i:8830945 original size:36 final size:37
Alignment explanation
Indices: 8830905--8830976 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 37
8830895 AAAAAAAAAA
* *
8830905 AGAAATTTCTAAATTGACCCAAATGGTGGAA-AATTT
1 AGAAAATTATAAATTGACCCAAATGGTGGAATAATTT
*
8830941 AGAAAATTATAATTTGACCCAAATGGTGGAATAATT
1 AGAAAATTATAAATTGACCCAAATGGTGGAATAATT
8830977 AGATATATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 28 0.88
37 4 0.12
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.31
Consensus pattern (37 bp):
AGAAAATTATAAATTGACCCAAATGGTGGAATAATTT
Found at i:8835045 original size:8 final size:8
Alignment explanation
Indices: 8835023--8835132 Score: 122
Period size: 8 Copynumber: 14.0 Consensus size: 8
8835013 TAATGGATAG
8835023 AAAAAAAT
1 AAAAAAAT
8835031 GAGAAAAAA-
1 -A-AAAAAAT
*
8835040 CAAAAAAT
1 AAAAAAAT
*
8835048 GAAAAAAT
1 AAAAAAAT
8835056 AAAAAAAT
1 AAAAAAAT
8835064 AAAAAAAT
1 AAAAAAAT
8835072 AAAAAAAT
1 AAAAAAAT
8835080 -AAAAAA-
1 AAAAAAAT
8835086 AAAAAAAT
1 AAAAAAAT
8835094 -AAAAAAT
1 AAAAAAAT
8835101 AAAAAAAT
1 AAAAAAAT
8835109 GAAAAAAAT
1 -AAAAAAAT
* *
8835118 GAAAGAA-
1 AAAAAAAT
8835125 AAAAAAAT
1 AAAAAAAT
8835133 GAGAGAAAAA
Statistics
Matches: 87, Mismatches: 7, Indels: 15
0.80 0.06 0.14
Matches are distributed among these distances:
7 30 0.34
8 42 0.48
9 9 0.10
10 6 0.07
ACGTcount: A:0.84, C:0.01, G:0.05, T:0.10
Consensus pattern (8 bp):
AAAAAAAT
Found at i:8835127 original size:14 final size:13
Alignment explanation
Indices: 8835049--8835145 Score: 62
Period size: 13 Copynumber: 7.5 Consensus size: 13
8835039 ACAAAAAATG
8835049 AAAAAATAAA-AA
1 AAAAAATAAAGAA
*
8835061 AATAAAA-AAA-TA
1 AA-AAAATAAAGAA
*
8835073 AAAAAATAAAAAAA
1 AAAAAAT-AAAGAA
8835087 AAAAAATAAA-AA
1 AAAAAATAAAGAA
*
8835099 ATAAAAA-AATG-A
1 A-AAAAATAAAGAA
8835111 AAAAAATGAAAGAAA
1 AAAAAAT-AAAG-AA
*
8835126 AAAAAATGAGAGAA
1 AAAAAAT-AAAGAA
8835140 AAAAAA
1 AAAAAA
8835146 ACTCAAATTG
Statistics
Matches: 70, Mismatches: 5, Indels: 18
0.75 0.05 0.19
Matches are distributed among these distances:
11 9 0.13
12 15 0.21
13 18 0.26
14 16 0.23
15 12 0.17
ACGTcount: A:0.85, C:0.00, G:0.06, T:0.09
Consensus pattern (13 bp):
AAAAAATAAAGAA
Found at i:8835127 original size:38 final size:39
Alignment explanation
Indices: 8835023--8835132 Score: 152
Period size: 39 Copynumber: 2.8 Consensus size: 39
8835013 TAATGGATAG
* *
8835023 AAAAAAATGAGAAAAAACAAAAAATGAAAAAATAAAAAAAT
1 AAAAAAATGA-AAAAAATAAAAAA-AAAAAAATAAAAAAAT
8835064 AAAAAAAT-AAAAAAATAAAAAAAAAAAAAT-AAAAAAT
1 AAAAAAATGAAAAAAATAAAAAAAAAAAAATAAAAAAAT
*
8835101 AAAAAAATGAAAAAAATGAAAGAAAAAAAAAT
1 AAAAAAATGAAAAAAAT-AAAAAAAAAAAAAT
8835133 GAGAGAAAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
37 15 0.23
38 15 0.23
39 25 0.39
40 1 0.02
41 8 0.12
ACGTcount: A:0.84, C:0.01, G:0.05, T:0.10
Consensus pattern (39 bp):
AAAAAAATGAAAAAAATAAAAAAAAAAAAATAAAAAAAT
Found at i:8835139 original size:15 final size:15
Alignment explanation
Indices: 8835023--8835146 Score: 91
Period size: 16 Copynumber: 8.5 Consensus size: 15
8835013 TAATGGATAG
*
8835023 AAAAAAATGAGAAAAA
1 AAAAAAATGA-AAGAA
*
8835039 ACAAAAAATGAAAAAA
1 A-AAAAAATGAAAGAA
* *
8835055 TAAAAAAATAAAAAAA
1 -AAAAAAATGAAAGAA
*
8835071 TAAAAAAAT-AAAAAA
1 -AAAAAAATGAAAGAA
8835086 AAAAAAAT-AAA-AA
1 AAAAAAATGAAAGAA
* *
8835099 ATAAAAA--AATG--
1 AAAAAAATGAAAGAA
8835110 AAAAAAATGAAAGAA
1 AAAAAAATGAAAGAA
*
8835125 AAAAAAATGAGAGAA
1 AAAAAAATGAAAGAA
8835140 AAAAAAA
1 AAAAAAA
8835147 CTCAAATTGA
Statistics
Matches: 95, Mismatches: 6, Indels: 15
0.82 0.05 0.13
Matches are distributed among these distances:
11 6 0.06
12 2 0.02
13 11 0.12
14 11 0.12
15 27 0.28
16 28 0.29
17 10 0.11
ACGTcount: A:0.83, C:0.01, G:0.07, T:0.09
Consensus pattern (15 bp):
AAAAAAATGAAAGAA
Found at i:8835146 original size:1 final size:1
Alignment explanation
Indices: 8835034--8835131 Score: 70
Period size: 1 Copynumber: 98.0 Consensus size: 1
8835024 AAAAAATGAG
* ** * * * * *
8835034 AAAAAACAAAAAATGAAAAAATAAAAAAATAAAAAAATAAAAAAATAAAAAAAAAAAAATAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* ** ** *
8835099 ATAAAAAAATGAAAAAAATGAAAGAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
8835132 TGAGAGAAAA
Statistics
Matches: 72, Mismatches: 25, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 72 1.00
ACGTcount: A:0.86, C:0.01, G:0.04, T:0.09
Consensus pattern (1 bp):
A
Found at i:8835932 original size:79 final size:79
Alignment explanation
Indices: 8835739--8835936 Score: 229
Period size: 80 Copynumber: 2.5 Consensus size: 79
8835729 TGGTTGACAT
* * * * ** * * *
8835739 AACTTGTGAGTTGTGAGC-AATGATGGAAATAATATGGATCAATGAATGAATTTTTTTTTGAAAT
1 AACTTGTGAGTTGTGATCAAATAATGGAAATAATGTGGATCAATAAACAAAATTTATTCTGAAAT
* *
8835803 TGCTAGTGGTGCGA
66 TGCTAGTGCTGAGA
* * *
8835817 AGGC-TATGAGTTTGTGATCAAATAATGGAAATAATGTGGATTAATAAACAAAATTTATTCTGAA
1 A-ACTTGTGAG-TTGTGATCAAATAATGGAAATAATGTGGATCAATAAACAAAATTTATTCTGAA
8835881 ATTGCTAGTGCTGAGA
64 ATTGCTAGTGCTGAGA
*
8835897 AACTTGTGAGTTGTGATCAAATAATAGAAATAATGTGGAT
1 AACTTGTGAGTTGTGATCAAATAATGGAAATAATGTGGAT
8835937 GAAATTTGTT
Statistics
Matches: 99, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
78 6 0.06
79 38 0.38
80 55 0.56
ACGTcount: A:0.36, C:0.07, G:0.23, T:0.34
Consensus pattern (79 bp):
AACTTGTGAGTTGTGATCAAATAATGGAAATAATGTGGATCAATAAACAAAATTTATTCTGAAAT
TGCTAGTGCTGAGA
Found at i:8836077 original size:90 final size:90
Alignment explanation
Indices: 8835924--8836105 Score: 355
Period size: 90 Copynumber: 2.0 Consensus size: 90
8835914 CAAATAATAG
*
8835924 AAATAATGTGGATGAAATTTGTTCTGAAATGGGTAGTTCTGGGAAGCCTATGAAGTGTGATCAAG
1 AAATAATGTGGATGAAATTTGTTCTGAAATGGGTAGTTCTAGGAAGCCTATGAAGTGTGATCAAG
8835989 TATCAATTGACAAAACTTGCTCTAA
66 TATCAATTGACAAAACTTGCTCTAA
8836014 AAATAATGTGGATGAAATTTGTTCTGAAATGGGTAGTTCTAGGAAGCCTATGAAGTGTGATCAAG
1 AAATAATGTGGATGAAATTTGTTCTGAAATGGGTAGTTCTAGGAAGCCTATGAAGTGTGATCAAG
8836079 TATCAATTGACAAAACTTGCTCTAA
66 TATCAATTGACAAAACTTGCTCTAA
8836104 AA
1 AA
8836106 TGGTTAGTAT
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 91 1.00
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.31
Consensus pattern (90 bp):
AAATAATGTGGATGAAATTTGTTCTGAAATGGGTAGTTCTAGGAAGCCTATGAAGTGTGATCAAG
TATCAATTGACAAAACTTGCTCTAA
Found at i:8836850 original size:43 final size:43
Alignment explanation
Indices: 8836776--8837296 Score: 330
Period size: 43 Copynumber: 12.1 Consensus size: 43
8836766 ACATATTATC
* * * **
8836776 GAGGAGCTTTGTTTACTTTTCAAAATCATTAAGCCTTTATTTA
1 GAGGAGCTTTATTTATTTTTCAAAGTTGTTAAGCCTTTATTTA
* * * * **
8836819 TAGGAGCTTTATTTATTTTCCAAAGTTATTAAGCCTCTGCTTA
1 GAGGAGCTTTATTTATTTTTCAAAGTTGTTAAGCCTTTATTTA
* *
8836862 GAGGAGCCTTATTTATTTTTCAAAGTTGTTGAGCCTTTATTTA
1 GAGGAGCTTTATTTATTTTTCAAAGTTGTTAAGCCTTTATTTA
** * * **
8836905 GAATAACCTTATTTATTTTTCCAAAG-TGTCGAG-CTTCTGA-TTA
1 GAGGAGCTTTATTTATTTTT-CAAAGTTGTTAAGCCTT-T-ATTTA
* * ** * * *
8836948 GAAGAGGCTTTATTTATTTTTTTTAAAGTCATTGAGCCTCTGTTTA
1 GAGGA-GCTTTATTTA--TTTTTCAAAGTTGTTAAGCCTTTATTTA
* * * * *
8836994 AAGAAGCTTTATTTATTTTTTAAAGTTGTTGAGCC-TTGTTTA
1 GAGGAGCTTTATTTATTTTTCAAAGTTGTTAAGCCTTTATTTA
* * * * * *
8837036 GAGAAGCTTTATTTGTTTTTCCAAAG-TATTGAGTCTCTATTTA
1 GAGGAGCTTTATTTATTTTT-CAAAGTTGTTAAGCCTTTATTTA
*
8837079 GAGGAGCTTTATTTA---TTCAAAGTTGTTAAGCCTCTGA-TTA
1 GAGGAGCTTTATTTATTTTTCAAAGTTGTTAAGCCT-TTATTTA
* * * * *
8837119 AAGAAGCCTTATTTATTTTTTAAAGTTGTTAAGCCTCTATTTA
1 GAGGAGCTTTATTTATTTTTCAAAGTTGTTAAGCCTTTATTTA
* * * *
8837162 GATGAGCTTTATTTATTTTTTAAAGTCGTTAAG-CTCTGA-TTA
1 GAGGAGCTTTATTTATTTTTCAAAGTTGTTAAGCCT-TTATTTA
** * **
8837204 GAGGAG-TCTTATTTA-TTTTCTAAAGTCATTAAGCCTCTGCTTA
1 GAGGAGCT-TTATTTATTTTTC-AAAGTTGTTAAGCCTTTATTTA
* * * * *
8837247 GAGGAGCTTTATTTATTTTTTTAAAGTCGTTGAGCCTCTGTTTA
1 GAGGAGCTTTATTTA-TTTTTCAAAGTTGTTAAGCCTTTATTTA
8837291 GAGGAG
1 GAGGAG
8837297 TTTTTATAAA
Statistics
Matches: 380, Mismatches: 73, Indels: 49
0.76 0.15 0.10
Matches are distributed among these distances:
39 5 0.01
40 24 0.06
41 6 0.02
42 63 0.17
43 207 0.54
44 40 0.11
45 18 0.05
46 15 0.04
47 2 0.01
ACGTcount: A:0.26, C:0.12, G:0.17, T:0.45
Consensus pattern (43 bp):
GAGGAGCTTTATTTATTTTTCAAAGTTGTTAAGCCTTTATTTA
Found at i:8837087 original size:85 final size:85
Alignment explanation
Indices: 8836780--8837293 Score: 439
Period size: 86 Copynumber: 6.0 Consensus size: 85
8836770 ATTATCGAGG
* * * * * * * *
8836780 AGCTTTGTTTACTTTTCAAAATCATTAAGCCTTTATTTATAGGAGCTTTATTTATTTTCCAAAGT
1 AGCTTTATTTATTTTTTAAAGT-ATTGAGCCTCTATTTAGAGGAGCTTTATTTATTTTTCAAAGT
* * *
8836845 TATTAAGCCTCTGCTTAGAGG
65 TGTTAAGCCTCTGATTAGAGA
* * * * ** * *
8836866 AGCCTTATTTATTTTTCAAAGTTGTTGAGCCTTTATTTAGAATAACCTTATTTATTTTTCCAAAG
1 AGCTTTATTTATTTTTTAAAG-TATTGAGCCTCTATTTAGAGGAGCTTTATTTATTTTT-CAAAG
** *
8836931 -TGTCGAGCTTCTGATTAGAAGA
64 TTGTTAAGCCTCTGATTAG-AGA
* * * * *
8836953 GGCTTTATTTATTTTTTTTAAAGTCATTGAGCCTCTGTTTAAAGAAGCTTTATTTATTTTTTAAA
1 AGCTTTATTTA--TTTTTTAAAGT-ATTGAGCCTCTATTTAGAGGAGCTTTATTTATTTTTCAAA
* *
8837018 GTTGTTGAGCCT-TGTTTAGAGA
63 GTTGTTAAGCCTCTGATTAGAGA
* * *
8837040 AGCTTTATTTGTTTTTCCAAAGTATTGAGTCTCTATTTAGAGGAGCTTTATTTA---TTCAAAGT
1 AGCTTTATTTATTTTT-TAAAGTATTGAGCCTCTATTTAGAGGAGCTTTATTTATTTTTCAAAGT
*
8837102 TGTTAAGCCTCTGATTAAAGA
65 TGTTAAGCCTCTGATTAGAGA
* * * * *
8837123 AGCCTTATTTATTTTTTAAAGTTGTTAAGCCTCTATTTAGATGAGCTTTATTTATTTTTTAAAGT
1 AGCTTTATTTATTTTTTAAAG-TATTGAGCCTCTATTTAGAGGAGCTTTATTTATTTTTCAAAGT
* *
8837188 CGTTAAG-CTCTGATTAGAGG
65 TGTTAAGCCTCTGATTAGAGA
* * ** *
8837208 AG-TCTTATTTATTTTCTAAAGTCATTAAGCCTCTGCTTAGAGGAGCTTTATTTATTTTTTTAAA
1 AGCT-TTATTTATTTTTTAAAGT-ATTGAGCCTCTATTTAGAGGAGCTTTATTTA-TTTTTCAAA
* * *
8837272 GTCGTTGAGCCTCTGTTTAGAG
63 GTTGTTAAGCCTCTGATTAGAG
8837294 GAGTTTTTAT
Statistics
Matches: 348, Mismatches: 63, Indels: 33
0.78 0.14 0.07
Matches are distributed among these distances:
82 20 0.06
83 50 0.14
84 1 0.00
85 88 0.25
86 93 0.27
87 40 0.11
88 11 0.03
89 45 0.13
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.46
Consensus pattern (85 bp):
AGCTTTATTTATTTTTTAAAGTATTGAGCCTCTATTTAGAGGAGCTTTATTTATTTTTCAAAGTT
GTTAAGCCTCTGATTAGAGA
Found at i:8837174 original size:168 final size:169
Alignment explanation
Indices: 8836792--8837263 Score: 463
Period size: 168 Copynumber: 2.8 Consensus size: 169
8836782 CTTTGTTTAC
* * * * ** *
8836792 TTTTCAAAATCATTAAGCCTTTATTTATAGGAGCTTTATTTATTTTCCAAAGTTATTAAGCCTCT
1 TTTTTAAAGTCATTAAGCCTCTATTTA-AAGAGCTTTATTTATTTTTTAAAGTTGTTAAGCCTCT
* * * * ** * *
8836857 GCTTAGAGGAGCCTTATTTATTTTT-CAAAGTTGTTGAGCCTTTATTTAGAATAACCTTATTTAT
65 GATTAGAGGAGCTTTATTT-TTTTTCCAAAG-TATTGAGCCTCTATTTAGAGGAGCTTTATTTA-
* * * *
8836921 TTTTCCAAAGTGTCGAGCTTCTGATTAGAAGAGGCTTTATTTATTT
127 --TTCCAAAGTGTCAAGCCTCTGATTAGAAGAAGCCTTATTTA-TT
* * *
8836967 TTTTTAAAGTCATTGAGCCTCTGTTTAAAGAAGCTTTATTTATTTTTTAAAGTTGTTGAGCCT-T
1 TTTTTAAAGTCATTAAGCCTCTATTTAAAG-AGCTTTATTTATTTTTTAAAGTTGTTAAGCCTCT
* * *
8837031 GTTTAGAGAAGCTTTATTTGTTTTTCCAAAGTATTGAGTCTCTATTTAGAGGAGCTTTATTTATT
65 GATTAGAGGAGCTTTATTT-TTTTTCCAAAGTATTGAGCCTCTATTTAGAGGAGCTTTATTTATT
*
8837096 -CAAAGTTGTTAAGCCTCTGATTA-AAGAAGCCTTATTTA-T
129 CCAAAG-TGTCAAGCCTCTGATTAGAAGAAGCCTTATTTATT
** * *
8837135 TTTTTAAAGTTGTTAAGCCTCTATTTAGATGAGCTTTATTTATTTTTTAAAGTCGTTAAG-CTCT
1 TTTTTAAAGTCATTAAGCCTCTATTTA-AAGAGCTTTATTTATTTTTTAAAGTTGTTAAGCCTCT
* * * **
8837199 GATTAGAGGAG-TCTTATTTATTTTCTAAAGTCATTAAGCCTCTGCTTAGAGGAGCTTTATTTAT
65 GATTAGAGGAGCT-TTATTTTTTTTCCAAAGT-ATTGAGCCTCTATTTAGAGGAGCTTTATTTAT
8837263 T
128 T
8837264 TTTTTAAAGT
Statistics
Matches: 249, Mismatches: 41, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
167 13 0.05
168 96 0.39
169 2 0.01
170 18 0.07
171 16 0.06
174 49 0.20
175 55 0.22
ACGTcount: A:0.26, C:0.12, G:0.16, T:0.46
Consensus pattern (169 bp):
TTTTTAAAGTCATTAAGCCTCTATTTAAAGAGCTTTATTTATTTTTTAAAGTTGTTAAGCCTCTG
ATTAGAGGAGCTTTATTTTTTTTCCAAAGTATTGAGCCTCTATTTAGAGGAGCTTTATTTATTCC
AAAGTGTCAAGCCTCTGATTAGAAGAAGCCTTATTTATT
Found at i:8837335 original size:8 final size:8
Alignment explanation
Indices: 8837322--8837352 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
8837312 AGTATGCTTA
8837322 AAAAAAAC
1 AAAAAAAC
*
8837330 AAAAAAAT
1 AAAAAAAC
8837338 AAAAAAAC
1 AAAAAAAC
8837346 AAAAAAA
1 AAAAAAA
8837353 TGTGTGTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.90, C:0.06, G:0.00, T:0.03
Consensus pattern (8 bp):
AAAAAAAC
Found at i:8837343 original size:16 final size:16
Alignment explanation
Indices: 8837322--8837353 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
8837312 AGTATGCTTA
8837322 AAAAAAACAAAAAAAT
1 AAAAAAACAAAAAAAT
8837338 AAAAAAACAAAAAAAT
1 AAAAAAACAAAAAAAT
8837354 GTGTGTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.88, C:0.06, G:0.00, T:0.06
Consensus pattern (16 bp):
AAAAAAACAAAAAAAT
Found at i:8837508 original size:11 final size:9
Alignment explanation
Indices: 8837477--8837506 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
8837467 TAGTTTTGTT
8837477 AATAAAAAA
1 AATAAAAAA
8837486 AATAAAAAA
1 AATAAAAAA
8837495 AATGAAAAAA
1 AAT-AAAAAA
8837505 AA
1 AA
8837507 ATTTGATAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.60
10 8 0.40
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (9 bp):
AATAAAAAA
Found at i:8837889 original size:26 final size:26
Alignment explanation
Indices: 8837860--8837911 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
8837850 CTAGTACATC
**
8837860 ACCCACCATTTTTTTAAGGCTAGGTT
1 ACCCACCATTTTCCTAAGGCTAGGTT
8837886 ACCCACCATTTTCCTAAGGCTAGGTT
1 ACCCACCATTTTCCTAAGGCTAGGTT
8837912 TCTGGTGCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (26 bp):
ACCCACCATTTTCCTAAGGCTAGGTT
Found at i:8852482 original size:63 final size:61
Alignment explanation
Indices: 8852348--8852488 Score: 153
Period size: 63 Copynumber: 2.3 Consensus size: 61
8852338 GTTTTAGGCA
* *
8852348 AAAAATGCCTTGAATAATCTGCTCATAAAAATTAAAGTGATTATTGAAGACGTTTTCTGTC
1 AAAAATGCCTTCAATAATCTGCTCAAAAAAATTAAAGTGATTATTGAAGACGTTTTCTGTC
* * * * *
8852409 AGAAACGCCTTCAATAAT-TTCTCTAAAAAAATTGTAAAG-GATTATTGAATG-TGTTTTTTTGT
1 AAAAATGCCTTCAATAATCTGCTC-AAAAAAA-T-TAAAGTGATTATTGAA-GACG-TTTTCTGT
8852471 C
61 C
8852472 AAAAATGCCTTCAATAA
1 AAAAATGCCTTCAATAA
8852489 ATCTCCTTGT
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
60 4 0.06
61 21 0.32
62 12 0.18
63 29 0.44
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (61 bp):
AAAAATGCCTTCAATAATCTGCTCAAAAAAATTAAAGTGATTATTGAAGACGTTTTCTGTC
Found at i:8852984 original size:61 final size:61
Alignment explanation
Indices: 8852928--8853054 Score: 150
Period size: 61 Copynumber: 2.1 Consensus size: 61
8852918 GTTTTTGCCT
* *
8852928 AAAACACCTTTAATAATC-CTTTATAAAAAATTAAAAGAGATTACTAAAGGCATTTTTGGTCAA
1 AAAACACCATCAATAATCTCTTT-TAAAAAA--AAAAGAGATTACTAAAGGCATTTTTGGTCAA
* * * * *
8852991 AAAACACCATCAATAATCTCTTTTAAAAAAATAAGGGATTATTGAAGGCATTTTTAGT-AA
1 AAAACACCATCAATAATCTCTTTTAAAAAAAAAAGAGATTACTAAAGGCATTTTTGGTCAA
8853051 AAAA
1 AAAA
8853055 TGCCTTCAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
60 6 0.11
61 23 0.41
63 23 0.41
64 4 0.07
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (61 bp):
AAAACACCATCAATAATCTCTTTTAAAAAAAAAAGAGATTACTAAAGGCATTTTTGGTCAA
Found at i:8853468 original size:61 final size:61
Alignment explanation
Indices: 8853398--8853517 Score: 163
Period size: 61 Copynumber: 2.0 Consensus size: 61
8853388 TATTGATAAG
* *
8853398 AAAATTTATTGAAGGTGTTTTTGACCAAAAAA-GCCTTTAATAATCCTCTATAATTTTTTAGC
1 AAAATTTATTAAAGGTGTTTTTG-CCAAAAAACGCCTTCAATAATCCTCTAT-ATTTTTTAGC
* * *
8853460 AAAA-TTATTAAAGGTGTTTTTGGCAAAAAACGCCTTCAATAATCGTCTCTATTTTTTA
1 AAAATTTATTAAAGGTGTTTTTGCCAAAAAACGCCTTCAATAATCCTCTATATTTTTTA
8853518 TAAGCAGATT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
60 15 0.29
61 33 0.63
62 4 0.08
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (61 bp):
AAAATTTATTAAAGGTGTTTTTGCCAAAAAACGCCTTCAATAATCCTCTATATTTTTTAGC
Found at i:8853737 original size:65 final size:66
Alignment explanation
Indices: 8853557--8853709 Score: 157
Period size: 67 Copynumber: 2.3 Consensus size: 66
8853547 TGAAACCCCT
* * * * * **** *
8853557 TCAATAATCTCTTATAAAAAAATTAAAAGG-GATTATTAAAGGCATTTTTTTTTTACAGAAAATA
1 TCAATAATCCCCTCTAAAAAAATT-ACAGGAGATTATTAAAGGTATTTTTTGACCA-AAAAAATA
*
8853621 CCT
64 CCA
*
8853624 TCAATAATCCCCTCTAAAAAAATTACAGGAGATTATTAAAGGTA-TTTTTGACCAAAAAAATATC
1 TCAATAATCCCCTCTAAAAAAATTACAGGAGATTATTAAAGGTATTTTTTGACCAAAAAAATACC
8853688 A
66 A
*
8853689 TCAATAATCCCTTCTAAAAAA
1 TCAATAATCCCCTCTAAAAAA
8853710 TTGGAGAGGA
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
65 28 0.39
66 10 0.14
67 34 0.47
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.33
Consensus pattern (66 bp):
TCAATAATCCCCTCTAAAAAAATTACAGGAGATTATTAAAGGTATTTTTTGACCAAAAAAATACC
A
Found at i:8853846 original size:62 final size:63
Alignment explanation
Indices: 8853733--8853916 Score: 162
Period size: 63 Copynumber: 2.9 Consensus size: 63
8853723 TTAAGGCGTG
* * *
8853733 TTTTTTGATCA-AAAACGCCTTCAATAATCTTCTCATATAAAA-T-GAAGGGGATTATTGAAAGC
1 TTTTTTG-TCATAAAACGCCTTCAATAATCTCCT-ATAAAAAATTAGAA-GGGATTATTGAAAAC
8853795 A
63 A
* * * * **
8853796 TTTTTTG-CATAAAACGCCTTTAATAATCTCCTTTAAAAAATTAGAAGGGATAATTAAAAATG
1 TTTTTTGTCATAAAACGCCTTCAATAATCTCCTATAAAAAATTAGAAGGGATTATTGAAAACA
* * * * **
8853858 TTTTTTGTTATAAAATGCCTTCAATAGTCCCCTCA-AAAAAATTAGCGGGGATTATTGAA
1 TTTTTTGTCATAAAACGCCTTCAATAATCTCCT-ATAAAAAATTAGAAGGGATTATTGAA
8853917 GGCTCTTTAC
Statistics
Matches: 97, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
61 8 0.08
62 39 0.40
63 50 0.52
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.35
Consensus pattern (63 bp):
TTTTTTGTCATAAAACGCCTTCAATAATCTCCTATAAAAAATTAGAAGGGATTATTGAAAACA
Found at i:8861672 original size:342 final size:340
Alignment explanation
Indices: 8860750--8861980 Score: 1245
Period size: 357 Copynumber: 3.5 Consensus size: 340
8860740 TATAACAAAT
* * * * **
8860750 TATTGAAGGGGTTTTATAATAAAAGATGCCTTTAATAATC-CGAAATTTTTTTTTTTGAGAAATT
1 TATTGAAGGCGTGTCATAATAAAAGATGCCTTTAATAATCAAGAAA--TTTTTTTAGGA-AAATT
* * *
8860814 ATTGAAGGCATTGTTATCTGCTACCACCTTCAGTAATTATATACAAACTGTGATAAAAATTATTA
63 ATTGAAGGC--TGTTATCTGCAATCGCCTTCAGTAATTATATACAAACTGTGATAAAAATTATTA
* * * * * * *
8860879 AAGGTGTCTTTCTTGGATATACGCCTTCTATAACAGTATTAGAATTTGTGTGATAGTATATATAA
126 AAGGCGTCTTTCTTGGATATACGCCTTCAATAACAGTGTTAAAATTTTTGTGATGGTATATAGAA
* * * * * * * *
8860944 TGTATTTTACAGTAGAATATGCCTTTAATAATTTTTAAAATATTTAGT-GAAAAAATTTTG-TGT
191 AGTATTTTAAAGTAGAAGACGCTTTTAATAATTCTCAAAATATTTAGTAG-AAAAATTTTGAAG-
* * *
8861007 GCGTCTATTATTAACAAAAGCTTTCAGTAATGGATTACTAAGTTTAAAGGTATATTGAAGGTGGC
254 GCGTCTGTTATTAAC-AAA-----C------GGATTCCTAAGTTTAAAGGTATATTGAAGGTGCC
* *
8861072 TTTTTTAAT-AATCGCCTTCCATCACCATCATGGTA
307 TTTTTTAATAAAT-G-CTTCCATAACCATCGTGGTA
* * *
8861107 TATTGCAGGCGTGTCATAATAAAAGAGGCCTTTAATAATTCAAAAAAATTTTTTTAGGAAAATTA
1 TATTGAAGGCGTGTCATAATAAAAGATGCCTTTAATAA-TC-AAGAAATTTTTTTAGGAAAATTA
* * * * * * * *
8861172 TTGAATGCGTTGTTATCTGTAA-CTGCCTTTAATAGTTATCTAAAAACTATGATAAAAATTATTA
64 TTGAA-G-GCTGTTATCTGCAATC-GCCTTCAGTAATTATATACAAACTGTGATAAAAATTATTA
* * * * *
8861236 AAGGCGTTTTTCTTGGATATACGCCTTTAATAATAGTGTTAGAATTTTTATGATGGTATATAGAA
126 AAGGCGTCTTTCTTGGATATACGCCTTCAATAACAGTGTTAAAATTTTTGTGATGGTATATAGAA
*
8861301 AGTATTTTACAA-TAGAAGACGCTTTTAATAATTCTCAAAATATTTAGTAGGAAAATTTTGAAGG
191 AGTATTTTA-AAGTAGAAGACGCTTTTAATAATTCTCAAAATATTTAGTAGAAAAATTTTGAAGG
* ** *
8861365 TGTCTGTTATTAACAAACGGATTCCTAAGTTTAAAAATATAATGAAGGTGCCTTTTTTTAATAAA
255 CGTCTGTTATTAACAAACGGATTCCTAAGTTTAAAGGTATATTGAAGGTGCC-TTTTTTAATAAA
*
8861430 TGCATTCCATTACCATCGTGGTA
319 TGC-TTCCATAACCATCGTGGTA
*
8861453 TATTGAAGGCGTGTCATAATAAAAGACGCCTTTAATAATCTAAGAAATTTTTTTAGGAAAATTAT
1 TATTGAAGGCGTGTCATAATAAAAGATGCCTTTAATAATC-AAGAAATTTTTTTAGGAAAATTAT
* * ** **
8861518 TGAAGGC-GTTATCTGCAATCGTCTTCAGTAATTATCTACAAACTGTGATAGGAATTATTAAAAA
65 TGAAGGCTGTTATCTGCAATCGCCTTCAGTAATTATATACAAACTGTGATAAAAATTATTAAAGG
* * * * *
8861582 TGTCTTTCTTGGATATACGCATTCAATAACAGTGTTAAAATTTTTGTGGTGGTATATAGAAGGCA
130 CGTCTTTCTTGGATATACGCCTTCAATAACAGTGTTAAAATTTTTGTGATGGTATATAGAAAGTA
* *
8861647 TTTTAAAGTAGAAGACGCTTTTAATAATTCTCAAAATTTTTAGTCA-AAAAATTTTAAAGGCGTC
195 TTTTAAAGTAGAAGACGCTTTTAATAATTCTCAAAATATTTAGT-AGAAAAATTTTGAAGGCGTC
** * * * **
8861711 TGTTATTAACAAACACATTCAGTAATGGATTACTAAGGTATATTGAAGGCGCCTTTTCAAATAAA
259 TGTTATTAACAAACGGATTC-CTAA--GTTTA--AAGGTATATTGAAGGTGCCTTTTTTAATAAA
* *
8861776 CGTCTTTCATAACCATCGTGGTA
319 TG-CTTCCATAACCATCGTGGTA
* * ** *
8861799 TATTGAAGGCGTGTCATAATAAAAGATGCCTTTACTAATCCGAGAAAAGGTTTTTAGGGAAATTA
1 TATTGAAGGCGTGTCATAATAAAAGATGCCTTTAATAAT-CAAG-AAATTTTTTTAGGAAAATTA
* * * * *
8861864 TTGAAGGCATTGTTTTCTGCAAATCGCCTTCACTAATTGTATACAAATTGTGATAGAAATTATTA
64 TTGAAGGC--TGTTATCTGC-AATCGCCTTCAGTAATTATATACAAACTGTGATAAAAATTATTA
* * *
8861929 AAGGCGTCTTTCTTGGATATACGCCTTCAACAACCGTGTTAAAATTTATGTG
126 AAGGCGTCTTTCTTGGATATACGCCTTCAATAACAGTGTTAAAATTTTTGTG
8861981 GTGATATGCT
Statistics
Matches: 737, Mismatches: 110, Indels: 60
0.81 0.12 0.07
Matches are distributed among these distances:
341 2 0.00
342 172 0.23
343 6 0.01
344 1 0.00
345 63 0.09
346 130 0.18
347 45 0.06
350 8 0.01
351 84 0.11
356 4 0.01
357 203 0.28
358 15 0.02
359 1 0.00
360 3 0.00
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (340 bp):
TATTGAAGGCGTGTCATAATAAAAGATGCCTTTAATAATCAAGAAATTTTTTTAGGAAAATTATT
GAAGGCTGTTATCTGCAATCGCCTTCAGTAATTATATACAAACTGTGATAAAAATTATTAAAGGC
GTCTTTCTTGGATATACGCCTTCAATAACAGTGTTAAAATTTTTGTGATGGTATATAGAAAGTAT
TTTAAAGTAGAAGACGCTTTTAATAATTCTCAAAATATTTAGTAGAAAAATTTTGAAGGCGTCTG
TTATTAACAAACGGATTCCTAAGTTTAAAGGTATATTGAAGGTGCCTTTTTTAATAAATGCTTCC
ATAACCATCGTGGTA
Found at i:8864756 original size:35 final size:35
Alignment explanation
Indices: 8864714--8864783 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
8864704 GTAAATAGCA
8864714 ATCCAACCATCCATGGGCAATTTCCTTCCTACCTT
1 ATCCAACCATCCATGGGCAATTTCCTTCCTACCTT
8864749 ATCCAACCATCCATGGGCAATTTCCTTCCTACCTT
1 ATCCAACCATCCATGGGCAATTTCCTTCCTACCTT
8864784 TCATTTTTCC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.23, C:0.37, G:0.09, T:0.31
Consensus pattern (35 bp):
ATCCAACCATCCATGGGCAATTTCCTTCCTACCTT
Found at i:8865141 original size:19 final size:20
Alignment explanation
Indices: 8865117--8865161 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
8865107 GGTCTTAGTG
* *
8865117 AGAAAAATA-AAGCAAAAAA
1 AGAAAAAGACAAGAAAAAAA
8865136 AGAAAAAGACAAGAAAAAAA
1 AGAAAAAGACAAGAAAAAAA
8865156 ATGAAA
1 A-GAAA
8865162 CCCAATTGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
20 10 0.45
21 4 0.18
ACGTcount: A:0.78, C:0.04, G:0.13, T:0.04
Consensus pattern (20 bp):
AGAAAAAGACAAGAAAAAAA
Found at i:8873182 original size:37 final size:37
Alignment explanation
Indices: 8873132--8873205 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
8873122 TTCTTGTTTG
*
8873132 TTTAAGCAGCAATTCAAGTGCCAAATCTACAAATCTA
1 TTTAAGCAGCAATTCAAATGCCAAATCTACAAATCTA
8873169 TTTAAGCAGCAATTCAAATGCCAAATCTACAAATCTA
1 TTTAAGCAGCAATTCAAATGCCAAATCTACAAATCTA
8873206 ACCTTTCTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.27
Consensus pattern (37 bp):
TTTAAGCAGCAATTCAAATGCCAAATCTACAAATCTA
Found at i:8874038 original size:8 final size:8
Alignment explanation
Indices: 8874025--8874063 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
8874015 AAAAATAAAA
8874025 TTTTATTT
1 TTTTATTT
8874033 TTTTA-TT
1 TTTTATTT
8874040 TTTTATTT
1 TTTTATTT
*
8874048 TTTTA-AT
1 TTTTATTT
8874055 TTTTATTT
1 TTTTATTT
8874063 T
1 T
8874064 GTATATTTAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 13 0.48
8 14 0.52
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTATTT
Found at i:8874041 original size:7 final size:7
Alignment explanation
Indices: 8874025--8874063 Score: 51
Period size: 7 Copynumber: 5.3 Consensus size: 7
8874015 AAAAATAAAA
8874025 TTTTATTT
1 TTTTA-TT
8874033 TTTTATT
1 TTTTATT
8874040 TTTTATTT
1 TTTTA-TT
*
8874048 TTTTAAT
1 TTTTATT
8874055 TTTTATT
1 TTTTATT
8874062 TT
1 TT
8874064 GTATATTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
7 16 0.57
8 12 0.43
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:8874043 original size:15 final size:15
Alignment explanation
Indices: 8874025--8874063 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
8874015 AAAAATAAAA
*
8874025 TTTTATTTTTTTATT
1 TTTTATTTTTTTAAT
8874040 TTTTATTTTTTTAAT
1 TTTTATTTTTTTAAT
8874055 TTTTATTTT
1 TTTTATTTT
8874064 GTATATTTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (15 bp):
TTTTATTTTTTTAAT
Found at i:8875251 original size:20 final size:19
Alignment explanation
Indices: 8875226--8875267 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
8875216 AAAAATTGAC
*
8875226 ATATCATTAAATTGATTATT
1 ATATCATTAAATT-ATAATT
*
8875246 ATATCATTATATTATAATT
1 ATATCATTAAATTATAATT
8875265 ATA
1 ATA
8875268 AAAATATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (19 bp):
ATATCATTAAATTATAATT
Found at i:8876189 original size:26 final size:26
Alignment explanation
Indices: 8876123--8876189 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 26
8876113 TATTTTTGCT
* * * *
8876123 AAAATTATTATAATATCCTTCTTGTC
1 AAAATTACTATAATATCCTTATAGAC
* *
8876149 AAAATTACAAAAATAT-CTTATAGAC
1 AAAATTACTATAATATCCTTATAGAC
8876174 AAAAATTACTATAATA
1 -AAAATTACTATAATA
8876190 CCACTCATAT
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
25 6 0.19
26 26 0.81
ACGTcount: A:0.49, C:0.12, G:0.03, T:0.36
Consensus pattern (26 bp):
AAAATTACTATAATATCCTTATAGAC
Found at i:8876561 original size:126 final size:125
Alignment explanation
Indices: 8876263--8876562 Score: 340
Period size: 126 Copynumber: 2.4 Consensus size: 125
8876253 TTTTGTTTCT
* *
8876263 AAATTACTATAATACCTCTATTATATTA-TATTAAATTTTAACATAATATAAAATTAACCACATA
1 AAATTACTATAATACCT-TATTA-ATTACTATTAAATTTTAACATAATACAAAATTAACCACAAA
* * * *
8876327 TTAAATTATTAAAACATCCTTACTATTGCTTTTATAAAAATTTGACATGTGAATTTTATTTA
64 TTAAATTACTAAAACACCCTTACCATTGCTTTCATAAAAATTTGACATGTGAATTTTATTTA
* * * * *
8876389 AAAATACTATAATACTTTTATTAAATT-CTATGAAATTTTAACATAATACAAAATTGACTACAAA
1 AAATTACTATAATAC-CTTATT-AATTACTATTAAATTTTAACATAATACAAAATTAACCACAAA
** * *
8876453 TTAAATTACTAAAATGCCCTTGCCATTGC-TTCGTAAAAA-TTGACATGTGAAATTTTATTTA
64 TTAAATTACTAAAACACCCTTACCATTGCTTTCATAAAAATTTGACATGTG-AATTTTATTTA
* *
8876514 AAATTTACCATAATATCCTTATTAATTACTTATTAAATGTTAA-ATAATA
1 AAA-TTACTATAATA-CCTTATTAATTAC-TATTAAATTTTAACATAATA
8876563 TATATTAAAA
Statistics
Matches: 146, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
124 10 0.07
125 26 0.18
126 96 0.66
127 14 0.10
ACGTcount: A:0.43, C:0.12, G:0.05, T:0.41
Consensus pattern (125 bp):
AAATTACTATAATACCTTATTAATTACTATTAAATTTTAACATAATACAAAATTAACCACAAATT
AAATTACTAAAACACCCTTACCATTGCTTTCATAAAAATTTGACATGTGAATTTTATTTA
Found at i:8877496 original size:3 final size:3
Alignment explanation
Indices: 8877488--8877520 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
8877478 ATCGTTATAT
8877488 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
8877521 GAAGTAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8878381 original size:27 final size:28
Alignment explanation
Indices: 8878327--8878382 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
8878317 ATTAGAATCC
*
8878327 TTGGGAAAATCTTTAAAAAGTTGAATTT
1 TTGGGAAAATCTTAAAAAAGTTGAATTT
* *
8878355 TTGGGAAAATC-TAAAAAATTTGGATTT
1 TTGGGAAAATCTTAAAAAAGTTGAATTT
8878382 T
1 T
8878383 GGATGAACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.39, C:0.04, G:0.18, T:0.39
Consensus pattern (28 bp):
TTGGGAAAATCTTAAAAAAGTTGAATTT
Found at i:8878690 original size:5 final size:5
Alignment explanation
Indices: 8878682--8878767 Score: 66
Period size: 5 Copynumber: 16.0 Consensus size: 5
8878672 GGTTTTTCTT
** *
8878682 TTTTA TTTTA TTTTA TTTTCTA TTTTA TTTTGA -TTTA TTTTA GATCA
1 TTTTA TTTTA TTTTA -TTT-TA TTTTA TTTT-A TTTTA TTTTA TTTTA
*
8878729 TTTTA TTTTGT TTTTA TTGTTA TTTTTTA TTTTA TTTTA
1 TTTTA TTTT-A TTTTA TT-TTA --TTTTA TTTTA TTTTA
8878768 CTTATCAATT
Statistics
Matches: 65, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
4 1 0.02
5 43 0.66
6 14 0.22
7 5 0.08
8 2 0.03
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:8878757 original size:13 final size:12
Alignment explanation
Indices: 8878674--8878766 Score: 64
Period size: 12 Copynumber: 7.2 Consensus size: 12
8878664 CAAGGTTTGG
*
8878674 TTTTTCTTTT-T
1 TTTTTATTTTAT
8878685 TATTTTATTTTAT
1 T-TTTTATTTTAT
*
8878698 TTTCTATTTTATT
1 TTTTTATTTTA-T
8878711 TTGATTTATTTTAGAT
1 TT--TTTATTTT--AT
* *
8878727 CATTTTATTTT-G
1 -TTTTTATTTTAT
8878739 TTTTTATTGTTAT
1 TTTTTATT-TTAT
8878752 TTTTTATTTTAT
1 TTTTTATTTTAT
8878764 TTT
1 TTT
8878767 ACTTATCAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 19
0.71 0.08 0.21
Matches are distributed among these distances:
11 8 0.12
12 26 0.40
13 13 0.20
15 15 0.23
16 1 0.02
17 2 0.03
ACGTcount: A:0.16, C:0.03, G:0.04, T:0.76
Consensus pattern (12 bp):
TTTTTATTTTAT
Found at i:8885164 original size:17 final size:15
Alignment explanation
Indices: 8885119--8885165 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 15
8885109 ATGAAATACT
8885119 AAAATAT-TAACAA-
1 AAAATATATAACAAC
*
8885132 ATAATATATAACAAC
1 AAAATATATAACAAC
8885147 AAAATATAATAACTAAC
1 AAAATAT-ATAAC-AAC
8885164 AA
1 AA
8885166 TATGTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 6 0.21
14 6 0.21
15 6 0.21
16 5 0.18
17 5 0.18
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAATATATAACAAC
Found at i:8888954 original size:51 final size:51
Alignment explanation
Indices: 8888794--8888941 Score: 242
Period size: 51 Copynumber: 2.9 Consensus size: 51
8888784 GCAGAGATGA
* * *
8888794 AGTTGAGGAATGATGTTAATATTGAGGACTTAACATTAACAAAAGACATTG
1 AGTTGAAGAATGATGTTAATGTTGAGGACTTAAAATTAACAAAAGACATTG
*
8888845 AGTTGAAGAATGATGTTAATGTTGAGGACTTAAAATTAACAAAAGACATTT
1 AGTTGAAGAATGATGTTAATGTTGAGGACTTAAAATTAACAAAAGACATTG
* *
8888896 AGCTGAAGAATGATGTTAATGTTGAGGACTTAAAATTAGCAAAAGA
1 AGTTGAAGAATGATGTTAATGTTGAGGACTTAAAATTAACAAAAGA
8888942 TGGTGAGTTG
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 91 1.00
ACGTcount: A:0.43, C:0.07, G:0.22, T:0.29
Consensus pattern (51 bp):
AGTTGAAGAATGATGTTAATGTTGAGGACTTAAAATTAACAAAAGACATTG
Found at i:8897230 original size:66 final size:66
Alignment explanation
Indices: 8897023--8897235 Score: 209
Period size: 66 Copynumber: 3.2 Consensus size: 66
8897013 GTTTCAATCT
** * *
8897023 AGATCA-TTTATTTTTTTAACTTAAGGTTCATTCTTAGTCACTCATTTTTCGATCTCGGCTTGAT
1 AGATCATTTTATTTTTTTAACTTGTGGTTCA-TCTTAGTCACTCAATTTTCGATCTCGGCTCGAT
8897087 CC
65 CC
* * * * **
8897089 AGACCATTTTATTTTTTTGACTTGTGGTTCATTTTTGTTCACTC-ATTTTCGATCTCAACTC-AT
1 AGATCATTTTATTTTTTTAACTTGTGGTTCATCTTAG-TCACTCAATTTTCGATCTCGGCTCGA-
8897152 TCC
64 TCC
* * * * *
8897155 AAATCATTTTATTTTTCTAACTTGTGGTTCATCTTCGATCACTCAATTTT-GATCTTGGCTCGGT
1 AGATCATTTTATTTTTTTAACTTGTGGTTCATCTTAG-TCACTCAATTTTCGATCTCGGCTCGAT
*
8897219 CT
65 CC
*
8897221 AGATTATTTTATTTT
1 AGATCATTTTATTTT
8897236 GCTGACTCGC
Statistics
Matches: 118, Mismatches: 24, Indels: 10
0.78 0.16 0.07
Matches are distributed among these distances:
65 1 0.01
66 85 0.72
67 32 0.27
ACGTcount: A:0.20, C:0.19, G:0.12, T:0.49
Consensus pattern (66 bp):
AGATCATTTTATTTTTTTAACTTGTGGTTCATCTTAGTCACTCAATTTTCGATCTCGGCTCGATC
C
Found at i:8897317 original size:66 final size:64
Alignment explanation
Indices: 8897154--8897332 Score: 166
Period size: 66 Copynumber: 2.7 Consensus size: 64
8897144 CAACTCATTC
* * *
8897154 CAAATCATTTTATTTTTCTAACTTGTGGTTCAT-CTTCGATCACTCAATTTTGATCTTGGCTCGG
1 CAAATCATTTTATTTTTCTAACTTGCGGTTCATCCCT-GATCATTC-ATTTTGATCTTGGCTCGG
8897218 T
64 T
* * * * * * *
8897219 CTAGATTATTTTATTTTGCTGACTCGCAGTTCATTCCCTG-TCATTCATTGTTTATCTTGGCTCG
1 C-AAATCATTTTATTTTTCTAACTTGCGGTTCA-TCCCTGATCATTCATT-TTGATCTTGGCTCG
*
8897283 ATT
63 -GT
*
8897286 CAAATCATTTTATTTTTATAACTTGCGGTTCAATCCC-GATCATTCAT
1 CAAATCATTTTATTTTTCTAACTTGCGGTTC-ATCCCTGATCATTCAT
8897333 CCTTAGTCTT
Statistics
Matches: 89, Mismatches: 18, Indels: 13
0.74 0.15 0.11
Matches are distributed among these distances:
65 5 0.06
66 77 0.87
67 5 0.06
68 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.46
Consensus pattern (64 bp):
CAAATCATTTTATTTTTCTAACTTGCGGTTCATCCCTGATCATTCATTTTGATCTTGGCTCGGT
Found at i:8899180 original size:19 final size:20
Alignment explanation
Indices: 8899156--8899193 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
8899146 AGCATTCTTT
8899156 GGATGGGTACTG-AAGGGTA
1 GGATGGGTACTGTAAGGGTA
*
8899175 GGATGGGTGCTGTAAGGGT
1 GGATGGGTACTGTAAGGGT
8899194 GCCCTTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.21, C:0.05, G:0.50, T:0.24
Consensus pattern (20 bp):
GGATGGGTACTGTAAGGGTA
Found at i:8900244 original size:86 final size:86
Alignment explanation
Indices: 8900148--8900338 Score: 229
Period size: 86 Copynumber: 2.2 Consensus size: 86
8900138 TTCTATCATA
* **
8900148 ATAAACGCAATGTTTGATAATTAAACAAGTATGGCATTTTGAAACTATAAATGCAGTCGATATAC
1 ATAAACGCAATGTTTGATAATTAAACAAGCATGGCATTTTGAAACTATAAACACAGTCGATATAC
* *
8900213 AAATACGATGTTTGTGGAATT
66 AAAGACGATGTTTGTGCAATT
* * * * ** **
8900234 ATAAATGCAATATTTGACAATTAACCAAGCATGGTGTTTTGAAACTATAAACACAGTCTTTATAC
1 ATAAACGCAATGTTTGATAATTAAACAAGCATGGCATTTTGAAACTATAAACACAGTCGATATAC
* * *
8900299 AAAGATGATGTTTTTGCTATT
66 AAAGACGATGTTTGTGCAATT
*
8900320 ATAAACGCAGTGTTTGATA
1 ATAAACGCAATGTTTGATA
8900339 TTCTTTATAA
Statistics
Matches: 85, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
86 85 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (86 bp):
ATAAACGCAATGTTTGATAATTAAACAAGCATGGCATTTTGAAACTATAAACACAGTCGATATAC
AAAGACGATGTTTGTGCAATT
Found at i:8908783 original size:264 final size:267
Alignment explanation
Indices: 8908294--8908808 Score: 704
Period size: 263 Copynumber: 1.9 Consensus size: 267
8908284 GTGACTAATT
* * *
8908294 ACTACATTTATCAATGACTAGAAATGTAGTTATTGATAATAAAAAAATTTTATATATCAAATACT
1 ACTACATTTATCAATAACAAGAAATGTAGTTATCGATAATAAAAAAATTTTATATATCAAATACT
** * ** * *
8908359 ATGTTTTTGACATAAAAAATGTAGTTAAAAATATCTTAAATATTCTGTTATAAATATTATATCAT
66 ACATTTTTAACATAAAAAACATAATTAAAAATATCTTAAATATTCTATTATAAATATTATATCAT
* * *
8908424 TACTATTTTCCATACTAAAAAATGTCGTTGATATTAAAAATATCAAATTTATTTTGTTATTTTTT
131 TACTAGTTTCCAAACTAAAAAATATCGTTGATATTAAAAATATCAAATTTATTTTGTTATTTTTT
*
8908489 AAAATGATCATTTACATTTCATATGT-AAAAAACATAATGCTTAT-AAAATAAAAACTACAATTT
196 AAAATGATCAATTACATTTCATATGTAAAAAAACATAATGCTTATAAAAATAAAAACTACAATTT
8908552 ATCAATG
261 ATCAATG
* *
8908559 ACTACATTT-TC-ATAACAAGAAATGTAGTTATCGAT-ATAAAGAAAATTTTCTATATCAAATAT
1 ACTACATTTATCAATAACAAGAAATGTAGTTATCGATAATAAA-AAAATTTTATATATCAAATAC
* *
8908621 TACATTTTTAACATAAGAAACATAATTAAAAATAT-TATCAATATTCTATTAT-AATATTATATC
65 TACATTTTTAACATAAAAAACATAATTAAAAATATCT-TAAATATTCTATTATAAATATTATATC
* * *
8908684 TATTACTACGTTTCCAAACTAAAAAATATTGTTGATATTGAAAATATCTAATTTATTTTGTTATT
129 -ATTACTA-GTTTCCAAACTAAAAAATATCGTTGATATTAAAAATATCAAATTTATTTTGTTATT
* * * *
8908749 ATTTT-AATTGATCAATTACGTTTCATATGTAAAAAAACGTAGTGCTTATAAAAATAAAAA
192 -TTTTAAAATGATCAATTACATTTCATATGTAAAAAAACATAATGCTTATAAAAATAAAAA
8908809 GATCCAAAAT
Statistics
Matches: 218, Mismatches: 25, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
262 17 0.08
263 88 0.40
264 74 0.34
265 29 0.13
266 10 0.05
ACGTcount: A:0.44, C:0.09, G:0.07, T:0.40
Consensus pattern (267 bp):
ACTACATTTATCAATAACAAGAAATGTAGTTATCGATAATAAAAAAATTTTATATATCAAATACT
ACATTTTTAACATAAAAAACATAATTAAAAATATCTTAAATATTCTATTATAAATATTATATCAT
TACTAGTTTCCAAACTAAAAAATATCGTTGATATTAAAAATATCAAATTTATTTTGTTATTTTTT
AAAATGATCAATTACATTTCATATGTAAAAAAACATAATGCTTATAAAAATAAAAACTACAATTT
ATCAATG
Found at i:8909965 original size:53 final size:53
Alignment explanation
Indices: 8909863--8909967 Score: 140
Period size: 53 Copynumber: 2.0 Consensus size: 53
8909853 TGTAAAAATA
* * ***
8909863 CCTTTAATAATCTTCTTCAATTTTTATGAGGGGATTATTCAAGTTGTTTTTGG
1 CCTTGAATAATCTCCTTCAATTTTTATGAGGGGATTATTCAACACGTTTTTGG
*
8909916 CCTTGAATAATCTCCTTCAATTTTTAATTAGGGG-TTATTCAACACGTTTTTG
1 CCTTGAATAATCTCCTTCAATTTTT-ATGAGGGGATTATTCAACACGTTTTTG
8909968 CCTAGAGCAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
53 38 0.84
54 7 0.16
ACGTcount: A:0.24, C:0.14, G:0.15, T:0.47
Consensus pattern (53 bp):
CCTTGAATAATCTCCTTCAATTTTTATGAGGGGATTATTCAACACGTTTTTGG
Found at i:8914233 original size:23 final size:23
Alignment explanation
Indices: 8914207--8914250 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
8914197 TTGAATGGTT
8914207 TGATCATAAAATCATATAAAATG
1 TGATCATAAAATCATATAAAATG
8914230 TGATCATAAAATCATATAAAA
1 TGATCATAAAATCATATAAAA
8914251 CTATCTCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.55, C:0.09, G:0.07, T:0.30
Consensus pattern (23 bp):
TGATCATAAAATCATATAAAATG
Found at i:8916629 original size:62 final size:63
Alignment explanation
Indices: 8916559--8916722 Score: 194
Period size: 62 Copynumber: 2.6 Consensus size: 63
8916549 AAAAAGAAGA
*
8916559 GATTATTCAAGGCATTTTTTG-CCAAAAATGTTTTGAATAATCCCCTCA-AAAAATTTGGAAA-G
1 GATTATTCAAGGCATTTTTTGACCAAAAATGTTTTGAATAATCCACTCATAAAAA-TT-GAAAGG
* ** *
8916621 GATTATTCAATG--TGTTTTTGACCAAAAACATCTTGAATAATCCACTCATAAAAATTGAAAGG
1 GATTATTCAAGGCAT-TTTTTGACCAAAAATGTTTTGAATAATCCACTCATAAAAATTGAAAGG
* * *
8916683 GATTATTTAAGGCATTTTCTGAGCAAAAATGTTTTGAATA
1 GATTATTCAAGGCATTTTTTGACCAAAAATGTTTTGAATA
8916723 TTCTTAAAAA
Statistics
Matches: 84, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
60 1 0.01
61 10 0.12
62 47 0.56
63 25 0.30
64 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.35
Consensus pattern (63 bp):
GATTATTCAAGGCATTTTTTGACCAAAAATGTTTTGAATAATCCACTCATAAAAATTGAAAGG
Found at i:8917825 original size:40 final size:42
Alignment explanation
Indices: 8917757--8917838 Score: 132
Period size: 40 Copynumber: 2.0 Consensus size: 42
8917747 TGCCATAAAA
* *
8917757 AAAAAAAATACTGCATTCATTGGCCACAATAGGAATATCATT
1 AAAAAAAACACTGCATTCAATGGCCACAATAGGAATATCATT
8917799 AAAAAAAACACT-CATTCAATGG-CACAATAGGAATATCATT
1 AAAAAAAACACTGCATTCAATGGCCACAATAGGAATATCATT
8917839 TAGAAACCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 18 0.47
41 9 0.24
42 11 0.29
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (42 bp):
AAAAAAAACACTGCATTCAATGGCCACAATAGGAATATCATT
Found at i:8919482 original size:17 final size:19
Alignment explanation
Indices: 8919444--8919480 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
8919434 ATTAAAAAAT
*
8919444 ATTAATTTTATATTATTAA
1 ATTAATTATATATTATTAA
8919463 ATTAATTATATATT-TTAA
1 ATTAATTATATATTATTAA
8919481 TTTTTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTAATTATATATTATTAA
Found at i:8921082 original size:73 final size:73
Alignment explanation
Indices: 8920991--8921128 Score: 222
Period size: 73 Copynumber: 1.9 Consensus size: 73
8920981 AGTATTTTCT
* *
8920991 AACAAAGATCATGCTTCTTTAATAAGAAATGTAGTCTTTAAATACCATGTTACAATAGAAATGTA
1 AACAAAGATCACGCTTCTTTAATAAGAAATGTAGTCTTTAAATACCATGTCACAATAGAAATGTA
8921056 AGAGAGAC
66 AGAGAGAC
* * * *
8921064 AACAAAGATCACGTTTCTTTGATAAGAAATGTAGTCTTTAAATGCCATGTCATAATAGAAATGTA
1 AACAAAGATCACGCTTCTTTAATAAGAAATGTAGTCTTTAAATACCATGTCACAATAGAAATGTA
8921129 GGAAAGAGAA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
73 59 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (73 bp):
AACAAAGATCACGCTTCTTTAATAAGAAATGTAGTCTTTAAATACCATGTCACAATAGAAATGTA
AGAGAGAC
Found at i:8921391 original size:55 final size:53
Alignment explanation
Indices: 8921177--8921412 Score: 226
Period size: 53 Copynumber: 4.4 Consensus size: 53
8921167 TTTTTTTTAA
* *
8921177 TTTTTTTAATCAAAGATTATGTTTCTACTTTCAAAAGTATAGTTTTTGTAAAT-
1 TTTTTTTAATCAAAGACTATATTTCTACTTTCAAAA-TATAGTTTTTGTAAATC
* * * * * *
8921230 TGTTTTTAATTAAAGACTACATTTCTACGTTCATAAACATAG-TTTTGTAAAAC
1 TTTTTTTAATCAAAGACTATATTTCTACTTTCA-AAATATAGTTTTTGTAAATC
* * * * * *
8921283 TTTTTTTAATAAAAAACTATGTTTCTACTTT-AAAATACATAGTCTTTGCAAATTT
1 TTTTTTTAATCAAAGACTATATTTCTACTTTCAAAAT--ATAGTTTTTGTAAA-TC
* *
8921338 TTTTTTTATTCAAAGACTATATTTCTACTTTCATAAATGTAGTTTTTGTAAATTC
1 TTTTTTTAATCAAAGACTATATTTCTACTTTCA-AAATATAGTTTTTGTAAA-TC
* *
8921393 TTTTTTCAATCAAAAACTAT
1 TTTTTTTAATCAAAGACTAT
8921413 GTTCTCGATT
Statistics
Matches: 145, Mismatches: 30, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
51 3 0.02
52 10 0.07
53 60 0.41
54 10 0.07
55 57 0.39
56 1 0.01
57 4 0.03
ACGTcount: A:0.34, C:0.11, G:0.07, T:0.48
Consensus pattern (53 bp):
TTTTTTTAATCAAAGACTATATTTCTACTTTCAAAATATAGTTTTTGTAAATC
Found at i:8921932 original size:24 final size:24
Alignment explanation
Indices: 8921904--8921949 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
8921894 ATATGATTTG
* *
8921904 TTGATAATATTTAAAATTTATACA
1 TTGATAATATATAAAATCTATACA
*
8921928 TTGATAATGTATAAAATCTATA
1 TTGATAATATATAAAATCTATA
8921950 TAGATATCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.43
Consensus pattern (24 bp):
TTGATAATATATAAAATCTATACA
Found at i:8926703 original size:15 final size:15
Alignment explanation
Indices: 8926662--8926703 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
8926652 TAGAATTCAT
*
8926662 AAATTTATTTTGTAA
1 AAATTTTTTTTGTAA
8926677 AAATTTTATTTTG-AA
1 AAATTTT-TTTTGTAA
8926692 AAGATTTTTTTT
1 AA-ATTTTTTTT
8926704 TCTTTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (15 bp):
AAATTTTTTTTGTAA
Found at i:8926704 original size:16 final size:16
Alignment explanation
Indices: 8926665--8926703 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
8926655 AATTCATAAA
8926665 TTTATTTTGTAAAAAT
1 TTTATTTTGTAAAAAT
8926681 TTTATTTTG-AAAAGAT
1 TTTATTTTGTAAAA-AT
8926697 TTT-TTTT
1 TTTATTTT
8926704 TCTTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (16 bp):
TTTATTTTGTAAAAAT
Found at i:8926748 original size:26 final size:25
Alignment explanation
Indices: 8926695--8926786 Score: 71
Period size: 26 Copynumber: 3.5 Consensus size: 25
8926685 TTTTGAAAAG
*
8926695 ATTTTTT-TTTCTTTTTTT-TTTTTAT
1 ATTTTTTGTTT-TTTTTTTATCTTT-T
8926720 ATTGTTTTGTTTTTTTTTTATCTTTT
1 ATT-TTTTGTTTTTTTTTTATCTTTT
* * *
8926746 ATTTTTTATCATTTTTTTTATTCTTTG
1 ATTTTTTGT-TTTTTTTTTA-TCTTTT
*
8926773 CTTCTTTTGTTTTT
1 ATT-TTTTGTTTTT
8926787 CAAAAAAGAT
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
25 8 0.15
26 24 0.44
27 17 0.31
28 5 0.09
ACGTcount: A:0.09, C:0.07, G:0.04, T:0.80
Consensus pattern (25 bp):
ATTTTTTGTTTTTTTTTTATCTTTT
Found at i:8926751 original size:19 final size:20
Alignment explanation
Indices: 8926707--8926752 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
8926697 TTTTTTTTCT
*
8926707 TTTTTTTTTTTATATTGTTT
1 TTTTTTTTTTTATATTGTTA
*
8926727 TGTTTTTTTTTTATCTT-TTA
1 T-TTTTTTTTTTATATTGTTA
8926747 TTTTTT
1 TTTTTT
8926753 ATCATTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 5 0.22
20 4 0.17
21 14 0.61
ACGTcount: A:0.09, C:0.02, G:0.04, T:0.85
Consensus pattern (20 bp):
TTTTTTTTTTTATATTGTTA
Found at i:8926751 original size:35 final size:35
Alignment explanation
Indices: 8926696--8926763 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
8926686 TTTGAAAAGA
* *
8926696 TTTTTTTTTCTTTTTTTTTTTTAT-ATTGTTTTGT
1 TTTTTTTTTATTTTTATTTTTTATCATTGTTTTGT
*
8926730 TTTTTTTTTATCTTTTATTTTTTATCATTTTTTT
1 TTTTTTTTTAT-TTTTATTTTTTATCATTGTTTT
8926764 TATTCTTTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 10 0.34
35 12 0.41
36 7 0.24
ACGTcount: A:0.09, C:0.04, G:0.03, T:0.84
Consensus pattern (35 bp):
TTTTTTTTTATTTTTATTTTTTATCATTGTTTTGT
Found at i:8926752 original size:14 final size:14
Alignment explanation
Indices: 8926729--8926764 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
8926719 TATTGTTTTG
8926729 TTTTTTTTTTATC-
1 TTTTTTTTTTATCA
8926742 TTTTATTTTTTATCA
1 TTTT-TTTTTTATCA
8926757 TTTTTTTT
1 TTTTTTTT
8926765 ATTCTTTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.19
14 13 0.62
15 4 0.19
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTTTTTATCA
Found at i:8928920 original size:8 final size:8
Alignment explanation
Indices: 8928909--8928938 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
8928899 TTTTTTGGTT
8928909 TTTTTTTG
1 TTTTTTTG
*
8928917 TTTTTTTA
1 TTTTTTTG
8928925 TTTTTTTG
1 TTTTTTTG
8928933 TTTTTT
1 TTTTTT
8928939 AATAATCAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.00, G:0.07, T:0.90
Consensus pattern (8 bp):
TTTTTTTG
Found at i:8929076 original size:41 final size:40
Alignment explanation
Indices: 8928989--8929260 Score: 264
Period size: 41 Copynumber: 6.7 Consensus size: 40
8928979 CCCTAAGTAG
* ** *
8928989 AGGCTC-ACAACTTTGGAAAATAAATAAAGCTCCTCTAAGTAG
1 AGGCTCAACAACTTTGAAAAATAAAT---GCTCCTCTAAACAA
*
8929031 AGGCTCAA-AGACTTTGAAAAAATAAATGCTCCTCTAGACAA
1 AGGCTCAACA-ACTTTG-AAAAATAAATGCTCCTCTAAACAA
8929072 AGGCTCAACAACTTT-AGAAAATAAATGCTCCTCTAAACAA
1 AGGCTCAACAACTTTGA-AAAATAAATGCTCCTCTAAACAA
* ** * *
8929112 AGGCTTAATGACTTTGGAAAAATAAATGCT-CTCCTAAATAG
1 AGGCTCAACAACTTT-GAAAAATAAATGCTCCT-CTAAACAA
*
8929153 AGGTTCAACAACTTTGAAAAATAAATGCTCCTCTAAACAA
1 AGGCTCAACAACTTTGAAAAATAAATGCTCCTCTAAACAA
* * * * ** *
8929193 ACGCTTAACAACTTTTGAAAAATAAAGGCTCCTTTAATTAG
1 AGGCTCAACAAC-TTTGAAAAATAAATGCTCCTCTAAACAA
8929234 AGGCTCAACAACTTTTGAAAAATAAAT
1 AGGCTCAACAAC-TTTGAAAAATAAAT
8929261 ATGGCTCTTT
Statistics
Matches: 192, Mismatches: 28, Indels: 21
0.80 0.12 0.09
Matches are distributed among these distances:
39 1 0.01
40 65 0.34
41 101 0.53
42 9 0.05
43 7 0.04
44 9 0.05
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.26
Consensus pattern (40 bp):
AGGCTCAACAACTTTGAAAAATAAATGCTCCTCTAAACAA
Found at i:8929126 original size:81 final size:79
Alignment explanation
Indices: 8928981--8929260 Score: 298
Period size: 81 Copynumber: 3.4 Consensus size: 79
8928971 CAAAATTCCC
* ** * *
8928981 CTAAGTAGAGGCTC-ACAACTTTGGAAAATAAATAAAGCTCCTCTAAGTAGAGGCTCAAAGACTT
1 CTAA-TAGAGGCTCAACAACTTTGAAAAATAAAT---GCTCCTCTAAACAAAGGCTTAAAGACTT
8929045 TGAAAAAATAAATGCTCCT
62 TG-AAAAATAAATGCTCCT
* * *
8929064 CTAGACAAAGGCTCAACAACTTT-AGAAAATAAATGCTCCTCTAAACAAAGGCTTAATGACTTTG
1 CTA-ATAGAGGCTCAACAACTTTGA-AAAATAAATGCTCCTCTAAACAAAGGCTTAAAGACTTT-
8929128 GAAAAATAAATGCT-CT
63 GAAAAATAAATGCTCCT
* *
8929144 CCTAAATAGAGGTTCAACAACTTTGAAAAATAAATGCTCCTCTAAACAAACGCTTAACA-ACTTT
1 -CT-AATAGAGGCTCAACAACTTTGAAAAATAAATGCTCCTCTAAACAAAGGCTTAA-AGAC-TT
*
8929208 TGAAAAATAAAGGCTCCT
62 TGAAAAATAAATGCTCCT
*
8929226 TTAATTAGAGGCTCAACAACTTTTGAAAAATAAAT
1 CTAA-TAGAGGCTCAACAAC-TTTGAAAAATAAAT
8929261 ATGGCTCTTT
Statistics
Matches: 169, Mismatches: 16, Indels: 25
0.80 0.08 0.12
Matches are distributed among these distances:
80 4 0.02
81 115 0.68
82 22 0.13
83 10 0.06
84 18 0.11
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (79 bp):
CTAATAGAGGCTCAACAACTTTGAAAAATAAATGCTCCTCTAAACAAAGGCTTAAAGACTTTGAA
AAATAAATGCTCCT
Found at i:8930288 original size:79 final size:78
Alignment explanation
Indices: 8930150--8930380 Score: 201
Period size: 79 Copynumber: 2.9 Consensus size: 78
8930140 TTAATTGTTT
* * * * * * * *
8930150 AGCACTAGCTATCCCAAAATAGATTCTACCAACTGATCAACATCATTTGTATCATTTGATCGTAA
1 AGCACTAGCCATTCTAAAATAAATTCTATCAACTGATCAACATTATTT-CATCATTTGATCATAA
8930215 CTCACAAGCTTTTC
65 CTCACAAGCTTTTC
* * * * *
8930229 AGCACTAGTCATTCTAAAATAAATTCTATCAATTGATCTACATTATGTTCATCACTTGATCACAA
1 AGCACTAGCCATTCTAAAATAAATTCTATCAACTGATCAACATTAT-TTCATCATTTGATCATAA
* * * *
8930294 TTCATAGGTTTTTC
65 CTCACAAGCTTTTC
* * * * * * * * *
8930308 AGCACTAGCCATTTTAGAATGAATTTTGTCCACTGATCCATATTATTTTCATCATTTGATCATAT
1 AGCACTAGCCATTCTAAAATAAATTCTATCAACTGATCAACATTA-TTTCATCATTTGATCATAA
8930373 CTCACAAG
65 CTCACAAG
8930381 TTATGTCAAC
Statistics
Matches: 117, Mismatches: 33, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
79 114 0.97
80 3 0.03
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.36
Consensus pattern (78 bp):
AGCACTAGCCATTCTAAAATAAATTCTATCAACTGATCAACATTATTTCATCATTTGATCATAAC
TCACAAGCTTTTC
Done.