Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 278 of 332
Found at i:92881145 original size:108 final size:110
Alignment explanation
Indices: 92880990--92881190 Score: 282
Period size: 108 Copynumber: 1.8 Consensus size: 110
92880980 ATCCTTTTGA
* * *
92880990 AACTTACCATTGCCATGTCTCGACTTGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
92881053 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * * * *
92881098 AACTTATCAATGCCATGTCTTGACATGGTCTTGCATGATTTCTTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
*
92881163 TTCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
92881191 TATCCTTAAA
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
107 1 0.01
108 45 0.56
109 7 0.09
110 27 0.34
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:92888715 original size:55 final size:54
Alignment explanation
Indices: 92888515--92888766 Score: 239
Period size: 55 Copynumber: 4.7 Consensus size: 54
92888505 ACGCGGGTAC
* * * * * *
92888515 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAGAA
* * * *
92888564 CTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTAT-GAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAGAA
* * * *
92888617 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAG-AA
* * * * *
92888672 CTTATCAATGCCATGTCTTGACATGGTCTTGCATGATTTCTTTGCCTTATA-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAGAA
* *
92888725 CCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATC
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATC
92888767 CTTAAACCCT
Statistics
Matches: 165, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
49 39 0.24
52 2 0.01
53 46 0.28
54 8 0.05
55 70 0.42
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCTTTGCCTTATAGAA
Found at i:92888717 original size:108 final size:110
Alignment explanation
Indices: 92888562--92888762 Score: 298
Period size: 108 Copynumber: 1.8 Consensus size: 110
92888552 ATCCTTTTGA
* * *
92888562 AACTTACCATTGCCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATGAA-CTCACCAA-
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTATAAACCTCACCAAT
92888625 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
66 TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * * * *
92888670 AACTTATCAATGCCATGTCTTGACATGGTCTTGCATGATTTCTTTGCCTTATAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTATAAACCTCACCAAT
*
92888735 TTCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
92888763 TATCCTTAAA
Statistics
Matches: 81, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
108 47 0.58
109 7 0.09
110 27 0.33
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTCGACATGGTCTTACATGATATCCTTGCCTTATAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:92890226 original size:22 final size:22
Alignment explanation
Indices: 92890185--92890233 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
92890175 GGCTTAATAT
92890185 TGTGA-CCGTAAAGTTCGATGC
1 TGTGACCCGTAAAGTTCGATGC
* *
92890206 TGTGACCCGTACAGATT-GATGT
1 TGTGACCCGTAAAG-TTCGATGC
92890228 TGTGAC
1 TGTGAC
92890234 TCTACATACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.21
22 17 0.71
23 2 0.08
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (22 bp):
TGTGACCCGTAAAGTTCGATGC
Found at i:92893030 original size:20 final size:21
Alignment explanation
Indices: 92892997--92893040 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
92892987 AGTACATAGA
*
92892997 TTTTTAGTTTGTTTG-TTTGT
1 TTTTTAGTTGGTTTGCTTTGT
*
92893017 TTTTTTGTTGGTTTGCTTTGT
1 TTTTTAGTTGGTTTGCTTTGT
92893038 TTT
1 TTT
92893041 GGTTGTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.02, C:0.02, G:0.20, T:0.75
Consensus pattern (21 bp):
TTTTTAGTTGGTTTGCTTTGT
Found at i:92898556 original size:43 final size:46
Alignment explanation
Indices: 92898500--92898614 Score: 149
Period size: 44 Copynumber: 2.7 Consensus size: 46
92898490 ATCTCATACA
92898500 ATGCCAACG--TCCCAGACGTGGTCTTACATGT-AATCA-ACAATCG
1 ATGCCAACGTATCCCAGACGTGGTCTTACATGTAAATCATA-AATCG
92898543 ATGCC-AC-TATCCCAGACAG-GGTCTTACATGTAAATCATAAATCG
1 ATGCCAACGTATCCCAGAC-GTGGTCTTACATGTAAATCATAAATCG
92898587 ATGCCAACGTA--CCAGACGTGGTCTTACA
1 ATGCCAACGTATCCCAGACGTGGTCTTACA
92898615 CAAAATTACA
Statistics
Matches: 64, Mismatches: 0, Indels: 15
0.81 0.00 0.19
Matches are distributed among these distances:
42 2 0.03
43 26 0.41
44 31 0.48
45 3 0.05
46 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.23
Consensus pattern (46 bp):
ATGCCAACGTATCCCAGACGTGGTCTTACATGTAAATCATAAATCG
Found at i:92903052 original size:19 final size:19
Alignment explanation
Indices: 92903030--92903073 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
92903020 TAAAATTATA
92903030 AAAATATATAAAAATAATT
1 AAAATATATAAAAATAATT
* *
92903049 AAAATTTATAAAAATTATT
1 AAAATATATAAAAATAATT
92903068 AGAAAT
1 A-AAAT
92903074 TAACTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
AAAATATATAAAAATAATT
Found at i:92903066 original size:9 final size:9
Alignment explanation
Indices: 92903021--92903066 Score: 56
Period size: 10 Copynumber: 4.9 Consensus size: 9
92903011 AATTCATTCT
92903021 AAAATTATA
1 AAAATTATA
92903030 AAAATATATA
1 AAAAT-TATA
*
92903040 AAAATAATTA
1 AAAATTA-TA
*
92903050 AAATTTATA
1 AAAATTATA
92903059 AAAATTAT
1 AAAATTAT
92903067 TAGAAATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
9 15 0.48
10 16 0.52
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
AAAATTATA
Found at i:92903598 original size:21 final size:21
Alignment explanation
Indices: 92903565--92903633 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 21
92903555 TTAGAGGAAC
92903565 TTAATTGATTTTTTAGAAAATT
1 TTAATT-ATTTTTTAGAAAATT
*
92903587 TTAATTA-TTTTTA-TAAATT
1 TTAATTATTTTTTAGAAAATT
* *
92903606 TTAGAATTATTGTTAAGAATAATT
1 TT--AATTATTTTTTAGAA-AATT
92903630 TTAA
1 TTAA
92903634 AATTATTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
19 7 0.18
20 6 0.16
21 6 0.16
22 12 0.32
23 1 0.03
24 6 0.16
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (21 bp):
TTAATTATTTTTTAGAAAATT
Found at i:92908506 original size:53 final size:53
Alignment explanation
Indices: 92908444--92908549 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
92908434 CAGAGCGTTG
92908444 AACTAAAAACCTCATAGGATACCTGGCAGTTCACATACAGTACACTTGTTTTA
1 AACTAAAAACCTCATAGGATACCTGGCAGTTCACATACAGTACACTTGTTTTA
*
92908497 AACTAAAAACCTCATAGGATACCTGGTAGTTCACATACAGTACACTTGTTTTA
1 AACTAAAAACCTCATAGGATACCTGGCAGTTCACATACAGTACACTTGTTTTA
92908550 TATGCATACT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (53 bp):
AACTAAAAACCTCATAGGATACCTGGCAGTTCACATACAGTACACTTGTTTTA
Found at i:92910117 original size:102 final size:102
Alignment explanation
Indices: 92909993--92910190 Score: 396
Period size: 102 Copynumber: 1.9 Consensus size: 102
92909983 AATTAAACAA
92909993 TAATCTAATTAGTGTAATTACAAATATATATTATTTAAAATAAGTTATGTTAAAAATATATTTAT
1 TAATCTAATTAGTGTAATTACAAATATATATTATTTAAAATAAGTTATGTTAAAAATATATTTAT
92910058 GGTGAAATTTAAATTTATGCCAATTCTATTAAAACGT
66 GGTGAAATTTAAATTTATGCCAATTCTATTAAAACGT
92910095 TAATCTAATTAGTGTAATTACAAATATATATTATTTAAAATAAGTTATGTTAAAAATATATTTAT
1 TAATCTAATTAGTGTAATTACAAATATATATTATTTAAAATAAGTTATGTTAAAAATATATTTAT
92910160 GGTGAAATTTAAATTTATGCCAATTCTATTA
66 GGTGAAATTTAAATTTATGCCAATTCTATTA
92910191 GTAAGACCTT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 96 1.00
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.43
Consensus pattern (102 bp):
TAATCTAATTAGTGTAATTACAAATATATATTATTTAAAATAAGTTATGTTAAAAATATATTTAT
GGTGAAATTTAAATTTATGCCAATTCTATTAAAACGT
Found at i:92923055 original size:101 final size:101
Alignment explanation
Indices: 92922933--92923134 Score: 350
Period size: 101 Copynumber: 2.0 Consensus size: 101
92922923 GTCGATTGGT
92922933 GTTGGTAAGCTACATTGAATGATACAGATAGATCATATTATTGTTAATAGTTGATTTCATTCTCT
1 GTTGGTAAGCTACATTGAATGATACAGATAGATCATATTATTGTTAATAGTTGATTTCATTCTCT
*
92922998 AAGTTTTGCATATTTAAATGTTCTCATTGGATAGAA
66 AAGTTTTGCATATGTAAATGTTCTCATTGGATAGAA
*
92923034 GTTGGTAAGCTACATTGAATGATACAGATGGATCATATTATTGTTAATAGTTGATTTCATTCTCT
1 GTTGGTAAGCTACATTGAATGATACAGATAGATCATATTATTGTTAATAGTTGATTTCATTCTCT
** * *
92923099 TGGTTTTGCATATGTATATGTTCTCATTGGGTAGAA
66 AAGTTTTGCATATGTAAATGTTCTCATTGGATAGAA
92923135 ACATTAGTTT
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 95 1.00
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (101 bp):
GTTGGTAAGCTACATTGAATGATACAGATAGATCATATTATTGTTAATAGTTGATTTCATTCTCT
AAGTTTTGCATATGTAAATGTTCTCATTGGATAGAA
Found at i:92926168 original size:47 final size:47
Alignment explanation
Indices: 92926090--92927019 Score: 1527
Period size: 47 Copynumber: 19.6 Consensus size: 47
92926080 TATTTGAATA
92926090 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
92926139 AATGTGAAATTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
92926186 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
92926233 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
92926280 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
92926327 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * *
92926376 AACGTGAAATTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
92926423 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
92926470 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
92926517 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
92926566 AATGTGAAATTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
92926613 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
92926662 AATGTGAAATTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
92926709 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
92926756 AATGTGAAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTG-AAA-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
92926805 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
92926852 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
92926899 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
92926946 AATGTGAAAGTGTATATATGCGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
92926993 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
92927020 TCCCGAAGGG
Statistics
Matches: 827, Mismatches: 46, Indels: 18
0.93 0.05 0.02
Matches are distributed among these distances:
47 637 0.77
48 6 0.01
49 184 0.22
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:92926251 original size:143 final size:142
Alignment explanation
Indices: 92926090--92927019 Score: 1510
Period size: 143 Copynumber: 6.5 Consensus size: 142
92926080 TATTTGAATA
*
92926090 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATA
1 AATGTGAAAGTGT-TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
92926155 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
65 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
92926220 GGCCGATGTGATG
130 GGCCGATGTGATG
*
92926233 AATGTGAAAGTG-TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAAAGTGTTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
92926297 ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAA
92926362 TGGCCGATGTGATG
129 TGGCCGATGTGATG
* * * *
92926376 AACGTGAAATTG-TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAAAGTGTTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
92926440 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATG
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
*
92926505 GCCAATGTGATG
131 GCCGATGTGATG
*
92926517 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATA
1 AATGTGAAAGTGT-TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
92926582 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTA
65 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTA
92926647 ATGGCCGATGTGATG
128 ATGGCCGATGTGATG
* *
92926662 AATGTGAAATTG-TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAAAGTGTTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
92926726 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGCCTAA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAA-GTGTATATATGTGATAAGGCCTAA
92926791 TGGCCGATGTGATG
129 TGGCCGATGTGATG
92926805 AATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAAAGTGTTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
92926869 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
92926934 GCCGATGTGATG
131 GCCGATGTGATG
* * * * * * * * *
92926946 AATGTGAAAGTG-TATATATGCGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAA
1 AATGTGAAAGTGTTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
92927010 ATGTGATAAG
66 ATGTGATAAG
92927020 TCCCGAAGGG
Statistics
Matches: 736, Mismatches: 43, Indels: 18
0.92 0.05 0.02
Matches are distributed among these distances:
141 234 0.32
142 3 0.00
143 450 0.61
144 3 0.00
145 46 0.06
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (142 bp):
AATGTGAAAGTGTTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
GCCGATGTGATG
Found at i:92926413 original size:190 final size:189
Alignment explanation
Indices: 92926090--92927019 Score: 1542
Period size: 190 Copynumber: 4.9 Consensus size: 189
92926080 TATTTGAATA
*
92926090 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTG-TAT
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTTAT
* * *
92926154 ATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
64 ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATATATGTGATAAGGCCGAA
* *
92926219 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
129 TGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
92926280 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT-TATA
*
92926345 TATGTGATAAGGCCTAATGGCCGATGTGATGAACGTGAAATTGTATATATGTGATAAGGCCGAAT
65 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATATATGTGATAAGGCCGAAT
92926410 GGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
130 GGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
92926470 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGT-TATA
92926535 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATATATGTGATAAGGCCGAAT
65 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATATATGTGATAAGGCCGAAT
92926600 GGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
130 GGCCAATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
92926662 AATGTGAAATTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG-TATAT
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTTATAT
* * *
92926726 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGCCTAA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAAT-TGTATATATGTGATAAGGCCGAA
*
92926791 TGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
129 TGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
92926852 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATAT
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTTATAT
* * * * *
92926916 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGCGACAGGGCCGAGTG
66 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATATATGTGATAAGGCCGAATG
* * *
92926981 GCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
131 GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAG
92927020 TCCCGAAGGG
Statistics
Matches: 702, Mismatches: 32, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
188 98 0.14
189 3 0.00
190 461 0.66
191 4 0.01
192 136 0.19
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (189 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTTATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATTGTATATATGTGATAAGGCCGAATG
GCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:92927239 original size:37 final size:37
Alignment explanation
Indices: 92927138--92927239 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
92927128 CCGAGCTCTA
*
92927138 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
92927175 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* * *
92927212 AAGACCCGATAACTTCATGTGGAGATTT
1 AAGACCCGATGACTACGTGTGGAGATTT
92927240 CGTCTGAGCT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
Found at i:92929738 original size:3 final size:3
Alignment explanation
Indices: 92929730--92929763 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
92929720 GGTTCATGGC
* *
92929730 ATG ATG ATG ATG ACG ATG ATG ACG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
92929764 ATACAATTCC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.35, C:0.06, G:0.32, T:0.26
Consensus pattern (3 bp):
ATG
Found at i:92937341 original size:11 final size:11
Alignment explanation
Indices: 92937325--92937352 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
92937315 ACCAGACTGT
92937325 ATAACATAATG
1 ATAACATAATG
92937336 ATAACATAATG
1 ATAACATAATG
92937347 ATAACA
1 ATAACA
92937353 ACCTAACTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.11, G:0.07, T:0.25
Consensus pattern (11 bp):
ATAACATAATG
Found at i:92940024 original size:18 final size:18
Alignment explanation
Indices: 92940001--92940036 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
92939991 CTTGAAAAAG
92940001 ACAGTTTATGTAATTTTC
1 ACAGTTTATGTAATTTTC
*
92940019 ACAGTTTATGTGATTTTC
1 ACAGTTTATGTAATTTTC
92940037 CCTTTTGACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.11, G:0.14, T:0.50
Consensus pattern (18 bp):
ACAGTTTATGTAATTTTC
Found at i:92942407 original size:11 final size:11
Alignment explanation
Indices: 92942391--92942416 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
92942381 ACGAGACTGT
92942391 ATAATAGAATG
1 ATAATAGAATG
92942402 ATAATAGAATG
1 ATAATAGAATG
92942413 ATAA
1 ATAA
92942417 CAACCTAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.15, T:0.27
Consensus pattern (11 bp):
ATAATAGAATG
Found at i:92952237 original size:42 final size:42
Alignment explanation
Indices: 92952191--92952275 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
92952181 TTAAGATTTG
92952191 AGATATTATTAATATATTTAAAATTCATATAGCAATAATAAA
1 AGATATTATTAATATATTTAAAATTCATATAGCAATAATAAA
92952233 AGATATTATTAATATATTTAAAATTCATATAGCAATAATAAA
1 AGATATTATTAATATATTTAAAATTCATATAGCAATAATAAA
92952275 A
1 A
92952276 AAATTAAAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.38
Consensus pattern (42 bp):
AGATATTATTAATATATTTAAAATTCATATAGCAATAATAAA
Found at i:92967946 original size:24 final size:24
Alignment explanation
Indices: 92967914--92967961 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
92967904 AAATCCAGGT
* * *
92967914 ACATATAAGCTTGTGATGTGATAA
1 ACATATAAGCATGTAACGTGATAA
92967938 ACATATAAGCATGTAACGTGATAA
1 ACATATAAGCATGTAACGTGATAA
92967962 GTAAATTTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (24 bp):
ACATATAAGCATGTAACGTGATAA
Found at i:92979120 original size:26 final size:26
Alignment explanation
Indices: 92979061--92979143 Score: 107
Period size: 26 Copynumber: 3.3 Consensus size: 26
92979051 AATTTTAAGT
* *
92979061 GAGCCAAT-ATCGAGAAGCTC-CGGA
1 GAGCCATTAATCGAGAAGCTCACGAA
*
92979085 GAGCCATTAATCGAGAAGCTCACAAA
1 GAGCCATTAATCGAGAAGCTCACGAA
* *
92979111 GAGCCTTTAATCGGGAAGCTCACGAA
1 GAGCCATTAATCGAGAAGCTCACGAA
92979137 GAGCCAT
1 GAGCCAT
92979144 ATATCAAGAT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
24 7 0.14
25 12 0.24
26 31 0.62
ACGTcount: A:0.35, C:0.24, G:0.25, T:0.16
Consensus pattern (26 bp):
GAGCCATTAATCGAGAAGCTCACGAA
Found at i:92983980 original size:26 final size:26
Alignment explanation
Indices: 92983944--92984027 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
92983934 CATGAAATTC
92983944 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
92983970 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* * *
92983996 TTGTCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
92984022 TTATCA
1 TTATCA
92984028 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:92989305 original size:96 final size:96
Alignment explanation
Indices: 92989157--92989427 Score: 323
Period size: 96 Copynumber: 2.8 Consensus size: 96
92989147 TTGTCGAGGC
* * * * ** *
92989157 CGATGCCATGTCCTAGACATTGTCTTACACTAGTTCTTGTCTCAAT-GCCGATGCCATGTCCCAG
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATC-ATGGCCGATGCCATGTCCCAG
92989221 ACATGGTCTTACACTGGCTCTCATGATGTGG-
65 ACATGGTCTTACACTGGCTCTCATGATGTGGT
* * * * *
92989252 CTGATGGCATGTCCCAGACATGGTCTTACATTGGCTCTCATGAT-ATGGTCGATGCCATGTCCCA
1 C-GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCAT-ATCATGGCCGATGCCATGTCCCA
*
92989316 GACATGGTCTTAAACTGGCTCTCATGATGTGGT
64 GACATGGTCTTACACTGGCTCTCATGATGTGGT
** * ** *
92989349 CGATGCCATGTTTCAAACATGGTCTTACACTAGCTCTCATATCGTGGCCGACACCATGTCGCAGA
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCATGGCCGATGCCATGTCCCAGA
92989414 CATGGTCTTACACT
66 CATGGTCTTACACT
92989428 AGCCCACATA
Statistics
Matches: 148, Mismatches: 23, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
95 5 0.03
96 141 0.95
97 2 0.01
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.30
Consensus pattern (96 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCATGGCCGATGCCATGTCCCAGA
CATGGTCTTACACTGGCTCTCATGATGTGGT
Found at i:92989439 original size:48 final size:48
Alignment explanation
Indices: 92989203--92989427 Score: 308
Period size: 48 Copynumber: 4.7 Consensus size: 48
92989193 TTGTCTCAAT
92989203 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGATGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGATGTG
* * * *
92989251 GCTGATGGCATGTCCCAGACATGGTCTTACATTGGCTCTCATGATATG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGATGTG
* *
92989299 GTCGATGCCATGTCCCAGACATGGTCTTAAACTGGCTCTCATGATGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGATGTG
* ** * *
92989347 GTCGATGCCATGTTTCAAACATGGTCTTACACTAGCTCTCAT-ATCGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGAT-GTG
** *
92989395 GCCGACACCATGTCGCAGACATGGTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
92989428 AGCCCACATA
Statistics
Matches: 155, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
47 2 0.01
48 153 0.99
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.29
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATGATGTG
Found at i:92996437 original size:69 final size:70
Alignment explanation
Indices: 92996305--92996437 Score: 205
Period size: 69 Copynumber: 1.9 Consensus size: 70
92996295 TAGTTTATTA
* * * * *
92996305 CTAATTAATTTACTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTA
1 CTAATTAATATACTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
92996370 CTTAG
66 CTTAG
*
92996375 CTAATTAATATGCTGCTGTAATACT-TAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
1 CTAATTAATATACTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGT
92996438 GTTATGTGCT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
69 35 0.61
70 22 0.39
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (70 bp):
CTAATTAATATACTGCTGTAATACTGTAAATTATTGGCTCTCCAAATTAGGACAAAATCATGGTA
CTTAG
Found at i:92997978 original size:47 final size:47
Alignment explanation
Indices: 92997901--92998462 Score: 836
Period size: 47 Copynumber: 12.0 Consensus size: 47
92997891 TTAGGATTTT
** *
92997901 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
92997948 ATTTGATAAATGTGAGCATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
92997995 ATGTGGTGAATATGAACATGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
92998042 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
92998089 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
92998136 ATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
92998183 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
92998230 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
92998277 ATGTGATGAATGTGAACATGCATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
92998324 ATGTGATGAATGTGAGCATGCATATATATGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
92998371 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
92998418 ATGTGGTGAATATGAACACGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
92998463 TAGTGTGAAA
Statistics
Matches: 461, Mismatches: 54, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 461 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:92998097 original size:25 final size:25
Alignment explanation
Indices: 92998022--92998097 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
92998012 ATGTATATAT
92998022 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
92998047 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
92998069 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
92998094 GTGA
1 GTGA
92998098 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:92998426 original size:25 final size:25
Alignment explanation
Indices: 92998352--92998426 Score: 61
Period size: 23 Copynumber: 3.1 Consensus size: 25
92998342 TGCATATATA
*
92998352 TGATAAGGCCGAATGGCCAATGTGA
1 TGATAAGGCCGAATGGCCAATGTGG
* * *
92998377 TGA-ATGTG-AGCAT-G-CATATGT-G
1 TGATAAG-GCCGAATGGCCA-ATGTGG
92998399 TGATAAGGCCGAATGGCCAATGTGG
1 TGATAAGGCCGAATGGCCAATGTGG
92998424 TGA
1 TGA
92998427 ATATGAACAC
Statistics
Matches: 36, Mismatches: 7, Indels: 14
0.63 0.12 0.25
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.24
Consensus pattern (25 bp):
TGATAAGGCCGAATGGCCAATGTGG
Found at i:92998805 original size:37 final size:37
Alignment explanation
Indices: 92998625--92998807 Score: 294
Period size: 37 Copynumber: 4.9 Consensus size: 37
92998615 GGAAATATAT
* * *
92998625 TCCGGGTGAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
92998662 TCCGGGTAAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
92998699 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
92998736 CCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
92998773 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
92998808 CGTCTGAGCT
Statistics
Matches: 139, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 139 1.00
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:93000072 original size:47 final size:47
Alignment explanation
Indices: 93000003--93000097 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
92999993 TTGATGATGA
93000003 ATCCGGCTTCTGAGATGGATCAATCAGCTTCCTTGGAGTAATTCCTT
1 ATCCGGCTTCTGAGATGGATCAATCAGCTTCCTTGGAGTAATTCCTT
*
93000050 ATCCGGCTTCTGAGATGGATCAATCGGCTTCCTTGGAGTAATTCCTT
1 ATCCGGCTTCTGAGATGGATCAATCAGCTTCCTTGGAGTAATTCCTT
93000097 A
1 A
93000098 CTCCCCCTTC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.34
Consensus pattern (47 bp):
ATCCGGCTTCTGAGATGGATCAATCAGCTTCCTTGGAGTAATTCCTT
Found at i:93002578 original size:42 final size:42
Alignment explanation
Indices: 93002519--93002603 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
93002509 ATAATAAATC
93002519 AACACAACATTCTTGAGTGCACAAAGGTAGATATCACCACAT
1 AACACAACATTCTTGAGTGCACAAAGGTAGATATCACCACAT
93002561 AACACAACATTCTTGAGTGCACAAAGGTAGATATCACCACAT
1 AACACAACATTCTTGAGTGCACAAAGGTAGATATCACCACAT
93002603 A
1 A
93002604 CTTCTACATC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.41, C:0.24, G:0.14, T:0.21
Consensus pattern (42 bp):
AACACAACATTCTTGAGTGCACAAAGGTAGATATCACCACAT
Found at i:93002927 original size:48 final size:48
Alignment explanation
Indices: 93002848--93003277 Score: 364
Period size: 48 Copynumber: 9.0 Consensus size: 48
93002838 GAGGGTGAAC
* * * * * * *
93002848 TGCCGATTCCATGTTCCAAACATGGTCTTACACTGGCTCACTTGTCGA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAA
* * * *
93002896 TGCCAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAA
* * * * **
93002944 TGCCAATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGATGTA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-ATCAA
* * * *
93002993 -GCCGATGCCATGTCTCAGACATGGTCTTACAGTAGCGCATATATCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAA
* ** * * * *
93003040 CGTTGATACCATGTCTCAGACATGGTCTTACAATAGCGCACATATCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAA
* * * * *
93003088 CGCCGATGCCAAGTCTCAGACATGGTTTTACACTAGCACACATATCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAA
* * * * *
93003136 TGCCGATGCCATGTCCTAGACATGGTTTTACATTGGCTCACATGAT--G
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-ATCAA
* * * * *
93003183 TGGCCGATGCCATGTTCCAAAC-TGGTCTTACACTGGCTCTCATATCAT
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAA
* * * * * *
93003231 TACCGACGCCATGTCCCAAACACGGTCTTACGCTAGCCCACATATCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCA
93003278 CCCAAATTTC
Statistics
Matches: 315, Mismatches: 60, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
46 2 0.01
47 39 0.12
48 270 0.86
49 4 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (48 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAA
Found at i:93003020 original size:96 final size:97
Alignment explanation
Indices: 93002848--93003261 Score: 403
Period size: 96 Copynumber: 4.3 Consensus size: 97
93002838 GAGGGTGAAC
* * * * *
93002848 TGCCGATTCCATGTTCCAAACATGGTCTTACACTGGCTCACTTG-TCG-ATGCCAATGCCATGTC
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGAT-GTACGCCGATGCCATGTC
* * *
93002911 CCAGACATGGTCTTACACTAGCTCTCGTCTCAA
65 TCAGACATGGTCTTACACTAGCTCTCATATCAA
* *
93002944 TGCCAATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGATGTA-GCCGATGCCATGTCT
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGATGTACGCCGATGCCATGTCT
* *
93003008 CAGACATGGTCTTACAGTAGCGCAT-ATATCAA
66 CAGACATGGTCTTACACTAGCTC-TCATATCAA
* ** * * * * * * ** *
93003040 CGTTGATACCATGTCTCAGACATGGTCTTACAATAGCGCACAT-ATCAACGCCGATGCCAAGTCT
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGATGTACGCCGATGCCATGTCT
* * *
93003104 CAGACATGGTTTTACACTAGCACACATATCAA
66 CAGACATGGTCTTACACTAGCTCTCATATCAA
* * * * *
93003136 TGCCGATGCCATGTCCTAGACATGGTTTTACATTGGCTCACATGATGT-GGCCGATGCCATGT-T
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGATGTACGCCGATGCCATGTCT
* * *
93003199 CCAAAC-TGGTCTTACACTGGCTCTCATATCAT
66 -CAGACATGGTCTTACACTAGCTCTCATATCAA
* * *
93003231 TACCGACGCCATGTCCCAAACACGGTCTTAC
1 TGCCGATGCCATGTCCCAAACATGGTCTTAC
93003262 GCTAGCCCAC
Statistics
Matches: 256, Mismatches: 55, Indels: 15
0.79 0.17 0.05
Matches are distributed among these distances:
95 50 0.20
96 201 0.79
97 5 0.02
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (97 bp):
TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATGATGTACGCCGATGCCATGTCT
CAGACATGGTCTTACACTAGCTCTCATATCAA
Found at i:93013165 original size:16 final size:16
Alignment explanation
Indices: 93013141--93013173 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
93013131 TTTGCTGTAA
93013141 ATAAAATTTTTTATTT
1 ATAAAATTTTTTATTT
*
93013157 ATAAGATTTTTTATTT
1 ATAAAATTTTTTATTT
93013173 A
1 A
93013174 AATCTGTAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
ATAAAATTTTTTATTT
Found at i:93014723 original size:29 final size:28
Alignment explanation
Indices: 93014664--93014736 Score: 101
Period size: 29 Copynumber: 2.6 Consensus size: 28
93014654 TATCGATGCC
93014664 ACACGGGCGTGTGGTCACCCTGTGCAAG
1 ACACGGGCGTGTGGTCACCCTGTGCAAG
* * * *
93014692 ACATGGGTGTGTGGTCACTCGTGTGTAAG
1 ACACGGGCGTGTGGTCAC-CCTGTGCAAG
93014721 ACACGGGCGTGTGGTC
1 ACACGGGCGTGTGGTC
93014737 GATGAAGACA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
28 16 0.42
29 22 0.58
ACGTcount: A:0.16, C:0.22, G:0.38, T:0.23
Consensus pattern (28 bp):
ACACGGGCGTGTGGTCACCCTGTGCAAG
Found at i:93015173 original size:13 final size:13
Alignment explanation
Indices: 93015155--93015179 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93015145 CTGTAAATTC
93015155 TGTATCTATTTTT
1 TGTATCTATTTTT
93015168 TGTATCTATTTT
1 TGTATCTATTTT
93015180 GGGGTGGGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.68
Consensus pattern (13 bp):
TGTATCTATTTTT
Found at i:93030883 original size:30 final size:30
Alignment explanation
Indices: 93030849--93030909 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
93030839 TCCTTAACTC
93030849 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
93030879 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
93030909 A
1 A
93030910 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:93034569 original size:64 final size:63
Alignment explanation
Indices: 93034359--93034562 Score: 200
Period size: 64 Copynumber: 3.2 Consensus size: 63
93034349 ATATAGTTCG
* * *
93034359 GCTCTCTTGTAC-ACATGGTGAACACTCAGTACCACCCATGTGACCTAGC-CA-ATTTATCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACT-AGTACCACCCATGCGACCTAGCTCATA-ATATCTCGT
93034421 A
63 A
* * * * *
93034422 GCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCTACAT-ATATCCC
1 GCTCTCTTGTCTACATGGTG---TACA-CTAGTACCACCCATGCGACCTAGCT-CATAATATCTC
93034486 GTA
61 GTA
* * *
93034489 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTCATAATGTCTTGTA
1 GCTCTCTTGTCTACATGGTGTACAC-TAGTACCACCCATGCGACCTAGCTCATAATATCTCGTA
93034553 GCTCTCTTGT
1 GCTCTCTTGT
93034563 ACACATGATG
Statistics
Matches: 115, Mismatches: 16, Indels: 19
0.77 0.11 0.13
Matches are distributed among these distances:
62 1 0.01
63 22 0.19
64 40 0.35
66 20 0.17
67 30 0.26
68 2 0.02
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.31
Consensus pattern (63 bp):
GCTCTCTTGTCTACATGGTGTACACTAGTACCACCCATGCGACCTAGCTCATAATATCTCGTA
Found at i:93041256 original size:68 final size:67
Alignment explanation
Indices: 93041184--93041333 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
93041174 CATCATGTGT
* * * *
93041184 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
93041246 ATGTAG
62 ATGTAG
** * *
93041252 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
93041317 AG
66 AG
93041319 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
93041334 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:93041289 original size:64 final size:64
Alignment explanation
Indices: 93041208--93041391 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
93041198 AGACATTATG
* *
93041208 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
93041272 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
93041337 AA
63 AA
* * * *
93041339 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
93041392 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:93048774 original size:48 final size:48
Alignment explanation
Indices: 93048722--93048944 Score: 241
Period size: 48 Copynumber: 4.6 Consensus size: 48
93048712 TCTCAATGCC
* * * * *
93048722 GATGCCATGTCCCAGACATGGTCTTACTCTGGATCTCATAACATTGTT
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTGCT
93048770 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCAT-ACATTTTGCT
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACA--TTGCT
* * * **
93048819 GATGCTATATTCCAAATATGGTCTTACACTGGCTCTCATAACATTGGG
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTGCT
* * * * * ** * *
93048867 GATGCCATGTTTCAAACATGGTCTTGCACTAGCACACATAATGTGGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTGCT
*
93048915 GATGCCATGTCCCAAACATGGTCTTACACT
1 GATGCCATGTTCCAAACATGGTCTTACACT
93048945 AGCACGCATA
Statistics
Matches: 146, Mismatches: 26, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
47 3 0.02
48 100 0.68
49 40 0.27
50 3 0.02
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (48 bp):
GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTGCT
Found at i:93053519 original size:22 final size:22
Alignment explanation
Indices: 93053491--93053534 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
93053481 GGAAATATCG
93053491 AAACATAGTTCAGAACTGACAT
1 AAACATAGTTCAGAACTGACAT
93053513 AAACATAGTTCAGAACTGACAT
1 AAACATAGTTCAGAACTGACAT
93053535 TCTTTACACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.18, G:0.14, T:0.23
Consensus pattern (22 bp):
AAACATAGTTCAGAACTGACAT
Found at i:93056605 original size:42 final size:42
Alignment explanation
Indices: 93056539--93056638 Score: 155
Period size: 42 Copynumber: 2.4 Consensus size: 42
93056529 CTCGATTTAA
* *
93056539 GATTTACGTGTAAGACCATGTCTGGGACATCGGAATCGTATCT
1 GATTT-CGTGTAAGACCATGTCTGGAAAATCGGAATCGTATCT
* *
93056582 GATTTTGTGTAAGACCATGTCTGGAAAATCGGCATCGTATCT
1 GATTTCGTGTAAGACCATGTCTGGAAAATCGGAATCGTATCT
93056624 GATTTCGTGTAAGAC
1 GATTTCGTGTAAGAC
93056639 GCTGTTTGGT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
42 47 0.90
43 5 0.10
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (42 bp):
GATTTCGTGTAAGACCATGTCTGGAAAATCGGAATCGTATCT
Found at i:93056658 original size:42 final size:42
Alignment explanation
Indices: 93056500--93056687 Score: 139
Period size: 42 Copynumber: 4.4 Consensus size: 42
93056490 ATCTGAGATA
* * * * *
93056500 TCGTGTAAGACCATGTCTGGGACAGATGCCTCG-ATTTAAGATT
1 TCGTGTAAGACCATGTCTGGAAAAGAGGCATCGTATCT--GATT
* * ** *
93056543 TACGTGTAAGACCATGTCTGGGACATCGGAATCGTATCTGATT
1 T-CGTGTAAGACCATGTCTGGAAAAGAGGCATCGTATCTGATT
* **
93056586 TTGTGTAAGACCATGTCTGGAAAATCGGCATCGTATCTGATT
1 TCGTGTAAGACCATGTCTGGAAAAGAGGCATCGTATCTGATT
* * *
93056628 TCGTGTAAGACGC-TGTTTGGTACAGAGGCATCG-ATACTGAATT
1 TCGTGTAAGAC-CATGTCTGGAAAAGAGGCATCGTAT-CTG-ATT
* *
93056671 ACATGTAAGACCATGTC
1 TCGTGTAAGACCATGTC
93056688 CGGGACGTCG
Statistics
Matches: 120, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
41 2 0.02
42 66 0.55
43 22 0.18
44 27 0.22
45 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGAAAAGAGGCATCGTATCTGATT
Found at i:93060491 original size:49 final size:48
Alignment explanation
Indices: 93060329--93060597 Score: 292
Period size: 48 Copynumber: 5.6 Consensus size: 48
93060319 GTCGAGGCCA
* * * ** * *
93060329 ATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCGTCTCAATGCCA
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTGCCG
* *
93060377 ATGCCATG-TCCTAGACATGGTCTTACTCTGGCTCTCATAACATTGCCG
1 ATGCCATGTTCC-AAACATGGTCTTACACTGGCTCTCATAACATTGCCG
* *
93060425 ATGCCATGTTCCAAACATAGTCTTACACTGGCTCTCAT-ACATTTTCCTG
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACA-TTGCC-G
* *
93060474 ATGCCATGTTCCAAACATGGTCTTACATTGGCTCTTAT-ACATTGCCG
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTGCCG
* * * ** * *
93060521 ATGCCATGTTCCAAACATGGTCTTACACTAGCACACATAATGTGGCCA
1 ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTGCCG
* *
93060569 ATGCCATGTCCCAGACATGGTCTTACACT
1 ATGCCATGTTCCAAACATGGTCTTACACT
93060598 ATCACACATA
Statistics
Matches: 188, Mismatches: 28, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
47 39 0.21
48 107 0.57
49 42 0.22
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (48 bp):
ATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAACATTGCCG
Found at i:93065211 original size:26 final size:26
Alignment explanation
Indices: 93065180--93065287 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
93065170 TGAAATGCCC
*
93065180 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
93065206 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
93065232 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
93065258 ATCATGCAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
93065284 ATCA
1 ATCA
93065288 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:93068640 original size:48 final size:47
Alignment explanation
Indices: 93068569--93068663 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 47
93068559 TTGCTTGGTC
93068569 TTTAAATGTCCCACAACGTGTTCGCCATTTTATTTGGGTGGTGTTAAA
1 TTTAAATGTCCCACAACGTGTTCGCCATTTTATTT-GGTGGTGTTAAA
*
93068617 TTTAAATGTCCCACAACGTGTTCGCCATTTTATTTGGTTGTGTTAAA
1 TTTAAATGTCCCACAACGTGTTCGCCATTTTATTTGGTGGTGTTAAA
93068664 GGAATGTCTT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 11 0.24
48 35 0.76
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (47 bp):
TTTAAATGTCCCACAACGTGTTCGCCATTTTATTTGGTGGTGTTAAA
Found at i:93080366 original size:13 final size:13
Alignment explanation
Indices: 93080348--93080372 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93080338 TATGTGATAT
93080348 GTGTGAAAATTTC
1 GTGTGAAAATTTC
93080361 GTGTGAAAATTT
1 GTGTGAAAATTT
93080373 TATCATTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:93081068 original size:43 final size:42
Alignment explanation
Indices: 93081002--93081171 Score: 173
Period size: 43 Copynumber: 4.0 Consensus size: 42
93080992 CATAGGATTC
* *
93081002 CGATATGAGATTTCGTATAAGACCATATCTGGGACGTTGGCAT
1 CGATAT-AGATTTCGTGTAAGACCATGTCTGGGACGTTGGCAT
* * *
93081045 CGATTTGAGATTTCGTGTAAGACCATGTCTGGGACATTAGCAT
1 CGATAT-AGATTTCGTGTAAGACCATGTCTGGGACGTTGGCAT
* * * *
93081088 CTATAT-GATTTCGTGTAAGACCCTGTCTGGGATAG-TGGCAC
1 CGATATAGATTTCGTGTAAGACCATGTCTGGGA-CGTTGGCAT
* * * *
93081129 CGATATTTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATA-TAGATTTCGTGTAAGACCATGTCTGGGACGTTGGCAT
93081172 TGTACGAGCC
Statistics
Matches: 104, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
41 33 0.32
42 2 0.02
43 69 0.66
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (42 bp):
CGATATAGATTTCGTGTAAGACCATGTCTGGGACGTTGGCAT
Found at i:93081127 original size:84 final size:84
Alignment explanation
Indices: 93081010--93081163 Score: 195
Period size: 84 Copynumber: 1.8 Consensus size: 84
93081000 TCCGATATGA
* * * * *
93081010 GATTTCGTATAAGACCATATCTGGGACGTTGGCATCGAT-TTGAGATTTCGTGTAAGACCATGTC
1 GATTTCGTATAAGACCATATCTGGGAAGTTGGCACCGATATT-AGATTACATGTAAGACCACGTC
93081074 TGGGACATTAGCATCTATAT
65 TGGGACATTAGCATCTATAT
* * * *
93081094 GATTTCGTGTAAGACCCTGTCTGGGATAG-TGGCACCGATATTTGATTACATGTAAGACCACGTC
1 GATTTCGTATAAGACCATATCTGGGA-AGTTGGCACCGATATTAGATTACATGTAAGACCACGTC
93081158 TGGGAC
65 TGGGAC
93081164 GTTGGCATTG
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
84 56 0.95
85 3 0.05
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (84 bp):
GATTTCGTATAAGACCATATCTGGGAAGTTGGCACCGATATTAGATTACATGTAAGACCACGTCT
GGGACATTAGCATCTATAT
Found at i:93085545 original size:20 final size:19
Alignment explanation
Indices: 93085500--93085543 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
93085490 GTACTTCTTT
93085500 GAAAAATGTTTAAGTTTTG
1 GAAAAATGTTTAAGTTTTG
93085519 GAAAAATGTTTAAGTTTTG
1 GAAAAATGTTTAAGTTTTG
93085538 GAAAAA
1 GAAAAA
93085544 ATTTGTATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.20, T:0.36
Consensus pattern (19 bp):
GAAAAATGTTTAAGTTTTG
Found at i:93097778 original size:13 final size:13
Alignment explanation
Indices: 93097760--93097784 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93097750 TATGTGAGAT
93097760 GTGTGAAAATTTC
1 GTGTGAAAATTTC
93097773 GTGTGAAAATTT
1 GTGTGAAAATTT
93097785 TATCATTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:93108926 original size:44 final size:43
Alignment explanation
Indices: 93108864--93108968 Score: 115
Period size: 44 Copynumber: 2.4 Consensus size: 43
93108854 GATTCAGATA
* *
93108864 TGAGATTTCGTGTAAGACCACGTCTAGGACGTTGGCATCGATT
1 TGAGATTTCGTGTAAGACCACGTCCAGGACATTGGCATCGATT
* * * *
93108907 TGAGATTTATGTGTAAGACCATGTCCGGGACATTGGCATCG-TA
1 TGAGATTT-CGTGTAAGACCACGTCCAGGACATTGGCATCGATT
*
93108950 T-ATGATTTCATGTAAGACC
1 TGA-GATTTCGTGTAAGACC
93108969 TTGTCTGGGA
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
42 10 0.19
43 15 0.29
44 27 0.52
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
TGAGATTTCGTGTAAGACCACGTCCAGGACATTGGCATCGATT
Found at i:93109010 original size:43 final size:42
Alignment explanation
Indices: 93108918--93109017 Score: 137
Period size: 42 Copynumber: 2.4 Consensus size: 42
93108908 GAGATTTATG
* * * *
93108918 TGTAAGACCATGTCCGGGACATTGGCATCGTATATGATTTCA
1 TGTAAGACCATGTCTGGGACAGTAGCATCGTATATGATTACA
* *
93108960 TGTAAGACCTTGTCTGGGACAGTAGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACAGTAGCATCG-TATATGATTACA
93109003 TGTAAGACCATGTCT
1 TGTAAGACCATGTCT
93109018 ACGACGTTGG
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 26 0.52
43 24 0.48
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACAGTAGCATCGTATATGATTACA
Found at i:93109031 original size:43 final size:43
Alignment explanation
Indices: 93108874--93109032 Score: 153
Period size: 43 Copynumber: 3.7 Consensus size: 43
93108864 TGAGATTTCG
* * **
93108874 TGTAAGACCACGTCTAGGACGTTGGCATCGAT-TTGAGATTTATG
1 TGTAAGACCATGTCTAGGACGTTGGCATCGATATT-TGA-TTACA
** * * *
93108918 TGTAAGACCATGTCCGGGACATTGGCATCG-TATATGATTTCA
1 TGTAAGACCATGTCTAGGACGTTGGCATCGATATTTGATTACA
* * *
93108960 TGTAAGACCTTGTCTGGGACAG-TAGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTAGGAC-GTTGGCATCGATATTTGATTACA
*
93109003 TGTAAGACCATGTCTACGACGTTGGCATCG
1 TGTAAGACCATGTCTAGGACGTTGGCATCG
93109033 TACTAGCTTT
Statistics
Matches: 92, Mismatches: 19, Indels: 9
0.77 0.16 0.08
Matches are distributed among these distances:
42 28 0.30
43 37 0.40
44 27 0.29
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACGTTGGCATCGATATTTGATTACA
Found at i:93133415 original size:27 final size:26
Alignment explanation
Indices: 93133357--93133437 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 26
93133347 TGGCTGCCAA
* * *
93133357 AACAGATAATGTGACAGAGTCAACAG
1 AACAGATAATGTGGCAGAGCCACCAG
93133383 ATACAGATAATCGTGGCAGAGCCACCAG
1 A-ACAGATAAT-GTGGCAGAGCCACCAG
93133411 AACAGATATATGTGGCAGAGCCACCAG
1 AACAGATA-ATGTGGCAGAGCCACCAG
93133438 GACGCTTCCT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 32 0.65
28 16 0.33
ACGTcount: A:0.40, C:0.21, G:0.25, T:0.15
Consensus pattern (26 bp):
AACAGATAATGTGGCAGAGCCACCAG
Found at i:93139241 original size:27 final size:27
Alignment explanation
Indices: 93139203--93139314 Score: 131
Period size: 27 Copynumber: 4.1 Consensus size: 27
93139193 AGCATGGCTG
* *
93139203 CCAGA-ACAGATAATGTGACAGAGGCA
1 CCAGATACAGATAATGTGGCAGAGCCA
*
93139229 CCAGATATAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
*
93139257 CCAGA-ACAGAAATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
*
93139284 CCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGATACAGATAA-TGTGGCAGAGCCA
93139311 CCAG
1 CCAG
93139315 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
26 6 0.08
27 51 0.69
28 17 0.23
ACGTcount: A:0.38, C:0.22, G:0.25, T:0.15
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:93139296 original size:54 final size:54
Alignment explanation
Indices: 93139203--93139314 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
93139193 AGCATGGCTG
* * *
93139203 CCAGAACAGATAATGTGACAGAGGCACCAGATATAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
93139257 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
93139311 CCAG
1 CCAG
93139315 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.22, G:0.25, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:93140759 original size:24 final size:24
Alignment explanation
Indices: 93140732--93140802 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
93140722 CTAGATTTCC
**
93140732 TCCCTTATCTGCTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
93140756 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
93140780 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
93140803 CTCCGGACAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.25, C:0.38, G:0.01, T:0.35
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:93148969 original size:24 final size:24
Alignment explanation
Indices: 93148941--93148988 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
93148931 AAGAAGTAAA
93148941 ATTATTACTAATTTATGTGGATAC
1 ATTATTACTAATTTATGTGGATAC
93148965 ATTATTACTAATTTATGTGGATAC
1 ATTATTACTAATTTATGTGGATAC
93148989 GAGACCCTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.46
Consensus pattern (24 bp):
ATTATTACTAATTTATGTGGATAC
Found at i:93152652 original size:5 final size:5
Alignment explanation
Indices: 93152642--93152682 Score: 64
Period size: 5 Copynumber: 7.8 Consensus size: 5
93152632 TTCGTTCTCT
93152642 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTTC TTTTC ATTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC -TTTT
93152683 TAGTTTAGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
5 25 0.74
6 9 0.26
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:93161761 original size:26 final size:25
Alignment explanation
Indices: 93161696--93161772 Score: 82
Period size: 26 Copynumber: 2.9 Consensus size: 25
93161686 ACATATTTTC
*
93161696 TCAAAATTTTACCAGGGGTAAAATCG
1 TCAAAATTTTA-CTGGGGTAAAATCG
**
93161722 TCAAAAAAATTACTGGAGGTAAAATCG
1 TC-AAAATTTTACTGG-GGTAAAATCG
*
93161749 TCAAAATTTTACTAGGGATAAAAT
1 TCAAAATTTTACT-GGGGTAAAAT
93161773 AGGAATGAGG
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 21 0.50
27 21 0.50
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (25 bp):
TCAAAATTTTACTGGGGTAAAATCG
Found at i:93162958 original size:30 final size:30
Alignment explanation
Indices: 93162924--93162985 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
93162914 TTAGGTACAT
93162924 GAAATTAAAGAATGAAATAATAAAAATAAA
1 GAAATTAAAGAATGAAATAATAAAAATAAA
93162954 GAAATTAAAGAATGAAATAATAAAAATAAA
1 GAAATTAAAGAATGAAATAATAAAAATAAA
93162984 GA
1 GA
93162986 GATCTCAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.11, T:0.19
Consensus pattern (30 bp):
GAAATTAAAGAATGAAATAATAAAAATAAA
Found at i:93163598 original size:35 final size:37
Alignment explanation
Indices: 93163559--93163633 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
93163549 TTAAATTTAA
93163559 ATTTAAAAAATATAT-TTTT-AAAAAAGGTATGACAG
1 ATTTAAAAAATATATATTTTAAAAAAAGGTATGACAG
93163594 ATTTAAAAAATATATATTTTAAAAAAAGGTATGACAG
1 ATTTAAAAAATATATATTTTAAAAAAAGGTATGACAG
93163631 ATT
1 ATT
93163634 AGACTAGTGA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 15 0.39
36 4 0.11
37 19 0.50
ACGTcount: A:0.52, C:0.03, G:0.11, T:0.35
Consensus pattern (37 bp):
ATTTAAAAAATATATATTTTAAAAAAAGGTATGACAG
Found at i:93164448 original size:20 final size:20
Alignment explanation
Indices: 93164423--93164477 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
93164413 CAATCTTATT
*
93164423 ATATAATAAAAATATTAATG
1 ATATAATAAAAATATTAAAG
* * *
93164443 ATATAATAATATTTTTAAAG
1 ATATAATAAAAATATTAAAG
93164463 A-ATAA-AAAAATATTA
1 ATATAATAAAAATATTA
93164478 TTAATGTAAC
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
18 7 0.25
19 4 0.14
20 17 0.61
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (20 bp):
ATATAATAAAAATATTAAAG
Found at i:93175447 original size:25 final size:26
Alignment explanation
Indices: 93175410--93175460 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
93175400 GTTATAAATC
*
93175410 AGAAAAATATCTTTAGA-AATTTTCT
1 AGAAAAATATCTTTAAAGAATTTTCT
* *
93175435 AGAATAATCTCTTTAAAGAATTTTCT
1 AGAAAAATATCTTTAAAGAATTTTCT
93175461 CTCTACAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (26 bp):
AGAAAAATATCTTTAAAGAATTTTCT
Found at i:93178264 original size:26 final size:26
Alignment explanation
Indices: 93178235--93178290 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
93178225 TGATACAAAT
93178235 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
93178261 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
93178287 TGAT
1 TGAT
93178291 TGGAATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:93181370 original size:17 final size:17
Alignment explanation
Indices: 93181333--93181370 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
93181323 GAAATAAAAG
*
93181333 AAAAACTAAACTTAATG
1 AAAAACTAAACTTAATA
93181350 AAAAACTAAA-TTGAATA
1 AAAAACTAAACTT-AATA
93181367 AAAA
1 AAAA
93181371 TTGAATAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.66, C:0.08, G:0.05, T:0.21
Consensus pattern (17 bp):
AAAAACTAAACTTAATA
Found at i:93181386 original size:12 final size:11
Alignment explanation
Indices: 93181357--93181396 Score: 62
Period size: 11 Copynumber: 3.5 Consensus size: 11
93181347 ATGAAAAACT
93181357 AAATTGAATAA
1 AAATTGAATAA
93181368 AAATTGAATAGA
1 AAATTGAATA-A
*
93181380 TAATTGAATAA
1 AAATTGAATAA
93181391 AAATTG
1 AAATTG
93181397 TTCATAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (11 bp):
AAATTGAATAA
Found at i:93182605 original size:42 final size:42
Alignment explanation
Indices: 93182528--93182755 Score: 329
Period size: 41 Copynumber: 5.5 Consensus size: 42
93182518 TTTAGCGGCG
* * *
93182528 TTTTGGCAAAACGCCGCT-AAAAACATAGCAATAGCGCCTTT
1 TTTTGGCAAAGCGCCGCTAAAAAACAGAGCAATAGCGGCTTT
93182569 TTTTGGCAAAGCGCCGCTAAAAAACAGAGCAATAGCGGCTTT
1 TTTTGGCAAAGCGCCGCTAAAAAACAGAGCAATAGCGGCTTT
*
93182611 TTTTGGCAAAGCGCCGCTAAAAAACAGAGCAATAGCGGCGTT
1 TTTTGGCAAAGCGCCGCTAAAAAACAGAGCAATAGCGGCTTT
* * *
93182653 TTTT-GCGAAGCGCCGCTAAAAAACAGAGCAATAGCAG-TGT
1 TTTTGGCAAAGCGCCGCTAAAAAACAGAGCAATAGCGGCTTT
* * * *
93182693 TTTTAGTAAAGCGCCGCTAAAAAATAGAGCAATAGCGGC-GT
1 TTTTGGCAAAGCGCCGCTAAAAAACAGAGCAATAGCGGCTTT
93182734 TTTTGGCAAAGCGCCGCTAAAA
1 TTTTGGCAAAGCGCCGCTAAAA
93182756 GTCATATAAC
Statistics
Matches: 170, Mismatches: 14, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
40 5 0.03
41 99 0.58
42 66 0.39
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.21
Consensus pattern (42 bp):
TTTTGGCAAAGCGCCGCTAAAAAACAGAGCAATAGCGGCTTT
Found at i:93182867 original size:46 final size:48
Alignment explanation
Indices: 93182759--93182884 Score: 157
Period size: 48 Copynumber: 2.6 Consensus size: 48
93182749 GCTAAAAGTC
* * * * *
93182759 ATATAACCCCTAAAACCTTAAACACCAAAAAAATCATAGACACTAGTCT
1 ATATAACTCCTAAAACCCTAAAC-CCAAAAAAACCATAAACACTAATCT
*
93182808 ATATAACTCCTAAAACCCTAAACCCAAAAAAACCCTAAACACTAATCT
1 ATATAACTCCTAAAACCCTAAACCCAAAAAAACCATAAACACTAATCT
* *
93182856 ATA-ATCT-CTAAAACCCTAAACCCCAAAAA
1 ATATAACTCCTAAAACCCTAAACCCAAAAAA
93182885 CATCATATGG
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
46 21 0.30
47 3 0.04
48 24 0.35
49 21 0.30
ACGTcount: A:0.50, C:0.29, G:0.02, T:0.19
Consensus pattern (48 bp):
ATATAACTCCTAAAACCCTAAACCCAAAAAAACCATAAACACTAATCT
Found at i:93187217 original size:19 final size:21
Alignment explanation
Indices: 93187189--93187236 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
93187179 TTATTATTTA
93187189 TTTTAGTTTTGATTATAA-AT
1 TTTTAGTTTTGATTATAATAT
* *
93187209 TTTTA-TTTTTATTTTAATAT
1 TTTTAGTTTTGATTATAATAT
93187229 TTTTAGTT
1 TTTTAGTT
93187237 AAAATTTTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.42
20 12 0.50
21 2 0.08
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (21 bp):
TTTTAGTTTTGATTATAATAT
Found at i:93187218 original size:20 final size:20
Alignment explanation
Indices: 93187177--93187236 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
93187167 TTAATCTAAT
*
93187177 TTTTATTAT-TTA-TTTTAG
1 TTTTATTATAATATTTTTAG
*
93187195 TTTTGATTATAA-ATTTTTAT
1 TTTT-ATTATAATATTTTTAG
*
93187215 TTTTATTTTAATATTTTTAG
1 TTTTATTATAATATTTTTAG
93187235 TT
1 TT
93187237 AAAATTTTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 4 0.12
19 12 0.35
20 18 0.53
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (20 bp):
TTTTATTATAATATTTTTAG
Found at i:93187330 original size:16 final size:16
Alignment explanation
Indices: 93187309--93187343 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
93187299 ATTTTTCATG
*
93187309 ATTTTTATAATATTTT
1 ATTTTTATAAAATTTT
*
93187325 ATTTTTTTAAAATTTT
1 ATTTTTATAAAATTTT
93187341 ATT
1 ATT
93187344 ACCTTTAGCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTTTTATAAAATTTT
Found at i:93187393 original size:43 final size:43
Alignment explanation
Indices: 93187366--93187477 Score: 179
Period size: 43 Copynumber: 2.6 Consensus size: 43
93187356 GTTTTTAGGT
* *
93187366 AAAGCGCCGCTAAAGGTCATGGCCTTTAGCGGCATTTGCGAGA
1 AAAGCGCTGCTAAAGGTCATGGCCTTTAGCGGCGTTTGCGAGA
* *
93187409 AAAGTGCTGCTAAAGGGCATGGCCTTTAGCGGCGTTTGCGAGA
1 AAAGCGCTGCTAAAGGTCATGGCCTTTAGCGGCGTTTGCGAGA
*
93187452 AAAGCGCTGCTAAAGGTCATGACCTT
1 AAAGCGCTGCTAAAGGTCATGGCCTT
93187478 GACCTTTAGC
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.22
Consensus pattern (43 bp):
AAAGCGCTGCTAAAGGTCATGGCCTTTAGCGGCGTTTGCGAGA
Found at i:93189254 original size:3 final size:3
Alignment explanation
Indices: 93189248--93189303 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
93189238 TAACAACGAC
93189248 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
93189296 AAT AAT AA
1 AAT AAT AA
93189304 GCAACAAAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:93190857 original size:15 final size:15
Alignment explanation
Indices: 93190837--93190866 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
93190827 GGGCTAGGGT
93190837 TAATTTGGGCCGATG
1 TAATTTGGGCCGATG
*
93190852 TAATTTGGGCTGATG
1 TAATTTGGGCCGATG
93190867 ACTATTGTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.10, G:0.33, T:0.37
Consensus pattern (15 bp):
TAATTTGGGCCGATG
Found at i:93192519 original size:29 final size:29
Alignment explanation
Indices: 93192461--93192548 Score: 72
Period size: 30 Copynumber: 3.0 Consensus size: 29
93192451 ATTTAATCTG
* * *
93192461 AATTTTTAAATTTAAAAA-ATAAAGGAACTA
1 AATTCTTAAAATTAAAAATATGAA-G-ACTA
93192491 AATTCTTAAAATTAAAAATATGAAGACTA
1 AATTCTTAAAATTAAAAATATGAAGACTA
* * *
93192520 ACTTC-TAAACCATGAAAAGTATGAAGACT
1 AATTCTTAAA--ATTAAAAATATGAAGACT
93192549 TAGAATTTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
28 4 0.08
29 8 0.16
30 33 0.67
31 4 0.08
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (29 bp):
AATTCTTAAAATTAAAAATATGAAGACTA
Found at i:93193269 original size:19 final size:20
Alignment explanation
Indices: 93193245--93193292 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
93193235 TAGGGGGTTT
93193245 TATATTTTTA-AATTTTTTA
1 TATATTTTTATAATTTTTTA
*
93193264 TATATTCTTTATACTTTTTTA
1 TATATT-TTTATAATTTTTTA
93193285 TAT-TTTTT
1 TATATTTTT
93193293 TGACTTGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 9 0.35
20 6 0.23
21 11 0.42
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (20 bp):
TATATTTTTATAATTTTTTA
Found at i:93196445 original size:23 final size:23
Alignment explanation
Indices: 93196415--93196460 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
93196405 GTTGATCGAA
*
93196415 TTGACGAATCTTATTTTATCATC
1 TTGACGAATCCTATTTTATCATC
93196438 TTGACGAATCCTATTTTATCATC
1 TTGACGAATCCTATTTTATCATC
93196461 CTAACTCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.20, G:0.09, T:0.46
Consensus pattern (23 bp):
TTGACGAATCCTATTTTATCATC
Found at i:93202728 original size:29 final size:30
Alignment explanation
Indices: 93202696--93202753 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
93202686 TTTTTCGACC
93202696 TAATCTCA-TAATTTTTCT-AAAAATCAACT
1 TAATC-CAGTAATTTTTCTAAAAAATCAACT
*
93202725 TAATCCAGTAATTTTTTTAAAAAATCAAC
1 TAATCCAGTAATTTTTCTAAAAAATCAAC
93202754 ATTTTTTGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 2 0.08
29 14 0.54
30 10 0.38
ACGTcount: A:0.43, C:0.16, G:0.02, T:0.40
Consensus pattern (30 bp):
TAATCCAGTAATTTTTCTAAAAAATCAACT
Found at i:93215512 original size:17 final size:17
Alignment explanation
Indices: 93215482--93215529 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
93215472 AATTTAATTC
* *
93215482 ATTTGTTTATTTTTATTT
1 ATTTATTTA-TTTTAGTT
*
93215500 ATTTATTTATTTTCGTT
1 ATTTATTTATTTTAGTT
*
93215517 GTTTATTTATTTT
1 ATTTATTTATTTT
93215530 TATTGTTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.17, C:0.02, G:0.06, T:0.75
Consensus pattern (17 bp):
ATTTATTTATTTTAGTT
Found at i:93215535 original size:17 final size:17
Alignment explanation
Indices: 93215487--93215536 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
93215477 AATTCATTTG
*
93215487 TTTATTTTTATTTATTTA
1 TTTATTTTTA-TTGTTTA
**
93215505 TTTATTTTCGTTGTTTA
1 TTTATTTTTATTGTTTA
93215522 TTTATTTTTATTGTT
1 TTTATTTTTATTGTT
93215537 CTTAATCTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 19 0.70
18 8 0.30
ACGTcount: A:0.16, C:0.02, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTATTTTTATTGTTTA
Found at i:93218117 original size:3 final size:3
Alignment explanation
Indices: 93218111--93218136 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
93218101 GTTGTTGTTG
93218111 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
93218137 TTGTTAAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:93220227 original size:2 final size:2
Alignment explanation
Indices: 93220220--93220260 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
93220210 ACACATCCAA
93220220 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
93220261 GTTTGCTTGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:93223331 original size:22 final size:23
Alignment explanation
Indices: 93223296--93223340 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
93223286 TTTTTGTAAT
93223296 TTTTTTTATTTTTATTTTTAAAAA
1 TTTTTTTA-TTTTATTTTTAAAAA
93223320 TTTTTTTA-TTTATTTTTAAAA
1 TTTTTTTATTTTATTTTTAAAA
93223341 TTTAGATTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 13 0.62
24 8 0.38
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTTTTTATTTTATTTTTAAAAA
Found at i:93228650 original size:46 final size:45
Alignment explanation
Indices: 93228557--93228642 Score: 111
Period size: 46 Copynumber: 1.9 Consensus size: 45
93228547 TACATCTCAC
* *
93228557 GAACTCAGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGT
1 GAACTCAGACTCAACTCAACGAGTTCG-ACATGCGCAACCATAAGT
* * *
93228603 GAACTCGGACTCAACTCAACGAGTTCG-GATGCTCAACCAT
1 GAACTCAGACTCAACTCAACGAGTTCGACATGCGCAACCAT
93228643 CCTAGTGACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 9 0.26
46 26 0.74
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (45 bp):
GAACTCAGACTCAACTCAACGAGTTCGACATGCGCAACCATAAGT
Found at i:93229220 original size:20 final size:18
Alignment explanation
Indices: 93229186--93229222 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
93229176 GCAACTCATA
93229186 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
93229204 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
93229223 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:93232067 original size:46 final size:43
Alignment explanation
Indices: 93231993--93232148 Score: 152
Period size: 46 Copynumber: 3.5 Consensus size: 43
93231983 ATCGATGTTG
* * * *
93231993 TGTCCCAGACAAGTCTTACACTGACACATGTAACCATGCTGACGCA
1 TGTCCCAGACATGTCTTACATTG-CACATCT--CCATGCCGACGCA
*
93232039 TGTCCCAGACATGTCTTACATTAGCACATCT-CGTAGCCGACGCA
1 TGTCCCAGACATGTCTTACATT-GCACATCTCCAT-GCCGACGCA
* * * *
93232083 TGTCCCAGACATGTCTGACATTGGCTAACATCTCGAGGCCGATGCA
1 TGTCCCAGACATGTCTTACATT-GC--ACATCTCCATGCCGACGCA
93232129 TGTCCCAGACATGTCTTACA
1 TGTCCCAGACATGTCTTACA
93232149 CTGGCTCTCA
Statistics
Matches: 93, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
43 2 0.02
44 31 0.33
46 59 0.63
47 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.24
Consensus pattern (43 bp):
TGTCCCAGACATGTCTTACATTGCACATCTCCATGCCGACGCA
Found at i:93232154 original size:46 final size:46
Alignment explanation
Indices: 93232036--93232246 Score: 196
Period size: 46 Copynumber: 4.6 Consensus size: 46
93232026 CCATGCTGAC
* * *
93232036 GCATGTCCCAGACATGTCTTACATTAG--CACATCTCGTA-GCCGAC
1 GCATGTCCCAGACATGTCTTACACTGGCTCACATCTCG-AGGCCGAT
* * *
93232080 GCATGTCCCAGACATGTCTGACATTGGCTAACATCTCGAGGCCGAT
1 GCATGTCCCAGACATGTCTTACACTGGCTCACATCTCGAGGCCGAT
* * **
93232126 GCATGTCCCAGACATGTCTTACACTGGCTCTCATACT-GTGGCTAAT
1 GCATGTCCCAGACATGTCTTACACTGGCTCACAT-CTCGAGGCCGAT
* * * * * **
93232172 GCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTCAATACCGAT
1 GCATGTCCCAGACATGTCTTACACTGGCTCACATCTCGAGGCCGAT
*
93232218 GCCATGTCCCATACATGGTCTTACACTGG
1 G-CATGTCCCAGACAT-GTCTTACACTGG
93232247 TACACAAATC
Statistics
Matches: 138, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
44 25 0.18
45 3 0.02
46 84 0.61
47 15 0.11
48 11 0.08
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (46 bp):
GCATGTCCCAGACATGTCTTACACTGGCTCACATCTCGAGGCCGAT
Found at i:93238809 original size:16 final size:16
Alignment explanation
Indices: 93238790--93238822 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
93238780 GGTAACAAGC
93238790 CCCACTCTTAAATCGG
1 CCCACTCTTAAATCGG
93238806 CCCACTCTTAAATCGG
1 CCCACTCTTAAATCGG
93238822 C
1 C
93238823 ATTCACCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.39, G:0.12, T:0.24
Consensus pattern (16 bp):
CCCACTCTTAAATCGG
Found at i:93241499 original size:46 final size:46
Alignment explanation
Indices: 93241432--93241606 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
93241422 TGTAACCCGC
93241432 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
93241478 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCACAT
* * ** * ** * *
93241528 -C-TCA-CGAACTTAGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
*
93241571 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
93241607 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 61 0.58
47 24 0.23
48 3 0.03
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
Found at i:93242198 original size:20 final size:18
Alignment explanation
Indices: 93242164--93242200 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
93242154 GGAACTCATA
93242164 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
93242182 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
93242201 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:93243873 original size:25 final size:25
Alignment explanation
Indices: 93243812--93243879 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
93243802 TTTACGAGCC
* * *
93243812 AGAATCGGTAAACTCCTCTGAGCTG
1 AGAATCGGTAAGCTCATATGAGCTG
93243837 A-AATACGGTAAGCTCATATGAGCTG
1 AGAAT-CGGTAAGCTCATATGAGCTG
*
93243862 AGAATCGGTAAGCACATA
1 AGAATCGGTAAGCTCATA
93243880 CAAGCTGTGG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
24 3 0.08
25 31 0.84
26 3 0.08
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (25 bp):
AGAATCGGTAAGCTCATATGAGCTG
Found at i:93243885 original size:25 final size:25
Alignment explanation
Indices: 93243832--93243886 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
93243822 AACTCCTCTG
* **
93243832 AGCTGAAATACGGTAAGCTCATATG
1 AGCTGAAATACGGTAAGCACATACA
93243857 AGCTGAGAAT-CGGTAAGCACATACA
1 AGCTGA-AATACGGTAAGCACATACA
93243882 AGCTG
1 AGCTG
93243887 TGGTGAGTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 23 0.88
26 3 0.12
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.20
Consensus pattern (25 bp):
AGCTGAAATACGGTAAGCACATACA
Found at i:93247641 original size:10 final size:10
Alignment explanation
Indices: 93247626--93247685 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
93247616 TTAATCTAAG
93247626 ATTTAT-TTT
1 ATTTATCTTT
93247635 CATTTATCTTT
1 -ATTTATCTTT
93247646 ATTTATCTTT
1 ATTTATCTTT
*
93247656 AATTATCTTT
1 ATTTATCTTT
93247666 ATTTAT-TTGT
1 ATTTATCTT-T
93247676 ATTTATCTTT
1 ATTTATCTTT
93247686 TAAAATTTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.22, C:0.08, G:0.02, T:0.68
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:93252342 original size:21 final size:20
Alignment explanation
Indices: 93252313--93252351 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
93252303 GCACTTTGGT
*
93252313 AATTAGGCCTCGATAGGCTAA
1 AATTAGGCC-CAATAGGCTAA
*
93252334 AATTGGGCCCAATAGGCT
1 AATTAGGCCCAATAGGCT
93252352 TACAGGCCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.23
Consensus pattern (20 bp):
AATTAGGCCCAATAGGCTAA
Found at i:93254434 original size:3 final size:3
Alignment explanation
Indices: 93254426--93254497 Score: 57
Period size: 3 Copynumber: 24.7 Consensus size: 3
93254416 GCAACCCAAT
93254426 TTA TTA TTA TTA TTAA TT- TTA TT- TTA TT- TTA TTTA TT- TTA TTTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA -TTA TTA TTA -TTA
*
93254470 TT- TTA CTA TTTA TTA TT- TTA TTA TTA TT
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TT
93254498 TTTTGGATGT
Statistics
Matches: 57, Mismatches: 2, Indels: 20
0.72 0.03 0.25
Matches are distributed among these distances:
2 12 0.21
3 34 0.60
4 11 0.19
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:93254451 original size:23 final size:22
Alignment explanation
Indices: 93254425--93254497 Score: 71
Period size: 24 Copynumber: 3.3 Consensus size: 22
93254415 GGCAACCCAA
93254425 TTTATTATTATTATTAATTTTAT
1 TTTATTATTATTATT-ATTTTAT
93254448 TTTATT-TTA-T-TTATTTTAT
1 TTTATTATTATTATTATTTTAT
* *
93254467 TTATTTTACTATTTATTATTTTAT
1 TT-TATTATTA-TTATTATTTTAT
93254491 TATTATT
1 T-TTATT
93254498 TTTTGGATGT
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
19 9 0.22
20 5 0.12
21 3 0.07
22 3 0.07
23 7 0.17
24 13 0.32
25 1 0.02
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTATTATTATTATTATTTTAT
Found at i:93254460 original size:14 final size:14
Alignment explanation
Indices: 93254429--93254498 Score: 72
Period size: 14 Copynumber: 4.8 Consensus size: 14
93254419 ACCCAATTTA
*
93254429 TTATTATTATTAATT
1 TTATT-TTATTTATT
93254444 TTATTTTATTT-TAT
1 TTATTTTATTTAT-T
93254458 TTATTTTATTTATT
1 TTATTTTATTTATT
93254472 TTACTATTTA-TTATT
1 TTA-T-TTTATTTATT
93254487 TTATTATTATTT
1 TTATT-TTATTT
93254499 TTTGGATGTT
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
13 2 0.04
14 25 0.52
15 17 0.35
16 4 0.08
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.73
Consensus pattern (14 bp):
TTATTTTATTTATT
Found at i:93254462 original size:4 final size:5
Alignment explanation
Indices: 93254425--93254499 Score: 68
Period size: 5 Copynumber: 14.6 Consensus size: 5
93254415 GGCAACCCAA
93254425 TTTAT TATTAT TATTAAT TTTAT TTTAT TTTA- TTTAT TTTA- TTTAT
1 TTTAT T-TTAT T-TT-AT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT
93254471 TTTACT ATTTA- -TTAT TTTAT TATTAT TTT
1 TTTA-T -TTTAT TTTAT TTTAT T-TTAT TTT
93254500 TTGGATGTTG
Statistics
Matches: 61, Mismatches: 0, Indels: 18
0.77 0.00 0.23
Matches are distributed among these distances:
3 3 0.05
4 8 0.13
5 27 0.44
6 16 0.26
7 7 0.11
ACGTcount: A:0.25, C:0.01, G:0.00, T:0.73
Consensus pattern (5 bp):
TTTAT
Found at i:93254968 original size:10 final size:10
Alignment explanation
Indices: 93254953--93255022 Score: 99
Period size: 10 Copynumber: 7.0 Consensus size: 10
93254943 TAATTCTGGG
93254953 ATTTAT-TTT
1 ATTTATCTTT
93254962 CATTTATCTTT
1 -ATTTATCTTT
*
93254973 ATTTATCTTC
1 ATTTATCTTT
93254983 ATTTATCTTT
1 ATTTATCTTT
93254993 ATTTATCTTT
1 ATTTATCTTT
93255003 ATTTAT-TTGT
1 ATTTATCTT-T
93255013 ATTTATCTTT
1 ATTTATCTTT
93255023 TAGTATTTAT
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
9 2 0.04
10 48 0.87
11 5 0.09
ACGTcount: A:0.20, C:0.10, G:0.01, T:0.69
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:93270538 original size:10 final size:10
Alignment explanation
Indices: 93270523--93270547 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
93270513 TGTGTCCCAG
93270523 ACACGGTCTT
1 ACACGGTCTT
93270533 ACACGGTCTT
1 ACACGGTCTT
93270543 ACACG
1 ACACG
93270548 ATATTTCAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (10 bp):
ACACGGTCTT
Found at i:93281500 original size:40 final size:40
Alignment explanation
Indices: 93281445--93281572 Score: 213
Period size: 40 Copynumber: 3.2 Consensus size: 40
93281435 CGGATGATAA
93281445 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * *
93281485 CCGGGCTAAGACCCGAAGGCATTTGTGTGAGTTGCTGTAA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
93281525 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
93281565 CC-GGCTAA
1 CCGGGCTAA
93281573 ATCCCAAAGA
Statistics
Matches: 81, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 6 0.07
40 75 0.93
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:93289535 original size:40 final size:40
Alignment explanation
Indices: 93289480--93289647 Score: 284
Period size: 40 Copynumber: 4.2 Consensus size: 40
93289470 CAGATGATAA
*
93289480 CCGGGCTAAGGCCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
93289520 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * *
93289560 CTGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTGTAA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
93289600 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
93289640 CC-GGCTAA
1 CCGGGCTAA
93289648 ATCCCAAAGA
Statistics
Matches: 120, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 6 0.05
40 114 0.95
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:93297280 original size:24 final size:26
Alignment explanation
Indices: 93297252--93297299 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
93297242 TCGTTTTTCA
*
93297252 ATTTTCT-AAAATAATA-AAAAAATC
1 ATTTTCTCAAAATAAAATAAAAAATC
93297276 ATTTTCTCAAAATAAAATAAAAAA
1 ATTTTCTCAAAATAAAATAAAAAA
93297300 GATTTCAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 8 0.38
26 6 0.29
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.31
Consensus pattern (26 bp):
ATTTTCTCAAAATAAAATAAAAAATC
Found at i:93300482 original size:18 final size:18
Alignment explanation
Indices: 93300459--93300495 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
93300449 GCGCAGCGCG
93300459 ACGTGAAATATGGGTTTA
1 ACGTGAAATATGGGTTTA
93300477 ACGTGAAATATGGGTTTA
1 ACGTGAAATATGGGTTTA
93300495 A
1 A
93300496 AATTTTACCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.32
Consensus pattern (18 bp):
ACGTGAAATATGGGTTTA
Found at i:93303317 original size:68 final size:69
Alignment explanation
Indices: 93303126--93303324 Score: 267
Period size: 68 Copynumber: 2.9 Consensus size: 69
93303116 GGGTAATACC
* * * * *
93303126 ATGGAGCCCGTCAGGACATTAAACATAGGTTCATAATGTGTAAGACCATAGTTAGACAAT-GACA
1 ATGGAGTCCGCCAGGACATTAAACATGGGTTCATAATGTGTAAGACCATAGTTAGGCTATGGACA
93303190 ACAT
66 ACAT
* * *
93303194 ATGGAGTCCACCAAGACATTAAACATGGGTTCATAATGTGTAAGACCATAATTAGGCTATGGA-A
1 ATGGAGTCCGCCAGGACATTAAACATGGGTTCATAATGTGTAAGACCATAGTTAGGCTATGGACA
93303258 ACAT
66 ACAT
* ** * *
93303262 ATGGAGTCCGCCAGGACATTAAACATGGGGTCATAAAATGTAAGACCTTAGTTAGGTTATGGA
1 ATGGAGTCCGCCAGGACATTAAACATGGGTTCATAATGTGTAAGACCATAGTTAGGCTATGGA
93303325 GTCAGATAAA
Statistics
Matches: 114, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
68 112 0.98
69 2 0.02
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.25
Consensus pattern (69 bp):
ATGGAGTCCGCCAGGACATTAAACATGGGTTCATAATGTGTAAGACCATAGTTAGGCTATGGACA
ACAT
Found at i:93303964 original size:5 final size:5
Alignment explanation
Indices: 93303954--93303982 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
93303944 CTACTGTGAA
93303954 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
93303983 GACACACTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:93310354 original size:15 final size:15
Alignment explanation
Indices: 93310334--93310364 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
93310324 CCAACCTTCA
93310334 AATTTTACCTCAATT
1 AATTTTACCTCAATT
93310349 AATTTTACCTCAATT
1 AATTTTACCTCAATT
93310364 A
1 A
93310365 TACATAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTTACCTCAATT
Found at i:93312624 original size:11 final size:11
Alignment explanation
Indices: 93312608--93312634 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
93312598 TAGAAATTAG
93312608 TTTGTGAAACT
1 TTTGTGAAACT
93312619 TTTGTGAAACT
1 TTTGTGAAACT
93312630 TTTGT
1 TTTGT
93312635 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:93314167 original size:93 final size:92
Alignment explanation
Indices: 93314035--93314229 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
93314025 TTGATTTTAG
* *
93314035 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
* *
93314099 TATTTAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
93314127 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
93314192 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
93314220 CAAATTCATA
1 TAAATTCATA
93314230 AACTATAATC
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 17 0.18
93 71 0.76
94 5 0.05
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:93314287 original size:17 final size:17
Alignment explanation
Indices: 93314262--93314295 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
93314252 ATAATTTTAA
*
93314262 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
93314279 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
93314296 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:93314297 original size:15 final size:16
Alignment explanation
Indices: 93314262--93314300 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
93314252 ATAATTTTAA
*
93314262 ATTTTATTAAATCATAT
1 ATTTAATTAAATCA-AT
93314279 ATTTAATTAAATC-AT
1 ATTTAATTAAATCAAT
93314294 ATTTAAT
1 ATTTAAT
93314301 ATTAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTAATTAAATCAAT
Found at i:93314304 original size:17 final size:18
Alignment explanation
Indices: 93314266--93314305 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
93314256 TTTTAAATTT
*
93314266 TATTAAATCATATATTTA
1 TATTAAATCATATATTAA
93314284 -ATTAAATCATAT-TTAA
1 TATTAAATCATATATTAA
93314300 TATTAA
1 TATTAA
93314306 TTATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAAATCATATATTAA
Found at i:93314420 original size:15 final size:15
Alignment explanation
Indices: 93314385--93314436 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
93314375 TTAAGAATTT
*
93314385 TATTAAATTAT-ATA
1 TATTTAATTATAATA
93314399 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
93314413 TATTTAATAATAAT-
1 TATTTAATTATAATA
93314427 TATGTTAATT
1 TAT-TTAATT
93314437 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:93314427 original size:120 final size:120
Alignment explanation
Indices: 93314261--93314552 Score: 450
Period size: 120 Copynumber: 2.4 Consensus size: 120
93314251 AATAATTTTA
* * *
93314261 AATTTTATTAAATCATATA-TTTAATTA-AATCATATTTAATATTAATTAT-TTGAAATTT-TCT
1 AATTTTATTAAATTATATATTTTAATTATAAT-ATATTTAATAATAATTATGTT--AATTTATAT
* *
93314322 TTTATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAAT-TTTATTTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTT-TTAAG
93314380 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
* *
93314445 ACAGTATCATATATTATTATTTGAGTAAATTCATATAAGAATATTAATTTTTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTTTTAAG
93314500 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
93314553 TAAATATGAT
Statistics
Matches: 161, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
119 23 0.14
120 127 0.79
121 11 0.07
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTTTTAAG
Found at i:93314535 original size:16 final size:16
Alignment explanation
Indices: 93314514--93314555 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
93314504 TTATTAAATT
*
93314514 ATATATTTTAATTATA
1 ATATATTTTAATAATA
93314530 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
93314545 AT-TATGTTTAA
1 ATATAT-TTTAA
93314556 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Done.