Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 39 of 187
Found at i:11391774 original size:22 final size:22
Alignment explanation
Indices: 11391743--11391784 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11391733 AGTGGCGTTT
* *
11391743 AAAAATGCCGCTAAATGCCTAA
1 AAAAACGCCGCTAAAAGCCTAA
11391765 AAAAACGCCGCTAAAAGCCT
1 AAAAACGCCGCTAAAAGCCT
11391785 GTTTTGGTGT
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:0.45, C:0.26, G:0.14, T:0.14
Consensus pattern (22 bp):
AAAAACGCCGCTAAAAGCCTAA
Found at i:11393497 original size:29 final size:29
Alignment explanation
Indices: 11393455--11393510 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
11393445 ATCTTAATCC
11393455 AGAATGGATGATAGAAAATTTATGTATCT
1 AGAATGGATGATAGAAAATTTATGTATCT
11393484 AGAATGGATGATAGAAAATTTATGTAT
1 AGAATGGATGATAGAAAATTTATGTAT
11393511 GACTTGTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.43, C:0.02, G:0.21, T:0.34
Consensus pattern (29 bp):
AGAATGGATGATAGAAAATTTATGTATCT
Found at i:11394399 original size:16 final size:16
Alignment explanation
Indices: 11394364--11394409 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
11394354 AGTTGGTTGA
*
11394364 AAAAATAATTTAATTG
1 AAAAATAATTTAAATG
11394380 AAAAATAAATTTAAAT-
1 AAAAAT-AATTTAAATG
*
11394396 AAAATTAA-TTAAAT
1 AAAAATAATTTAAAT
11394410 TAAATAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 6 0.22
15 2 0.07
16 11 0.41
17 8 0.30
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (16 bp):
AAAAATAATTTAAATG
Found at i:11395519 original size:19 final size:21
Alignment explanation
Indices: 11395491--11395530 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
11395481 GAACTTTGTC
*
11395491 CAAAATATTTT-TAAG-TGTT
1 CAAAACATTTTCTAAGATGTT
11395510 CAAAACATTTTCTAAGATGTT
1 CAAAACATTTTCTAAGATGTT
11395531 TGTAAGTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
20 4 0.22
21 4 0.22
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (21 bp):
CAAAACATTTTCTAAGATGTT
Found at i:11399684 original size:52 final size:52
Alignment explanation
Indices: 11399613--11399810 Score: 309
Period size: 52 Copynumber: 3.9 Consensus size: 52
11399603 ATCAAGTGAC
*
11399613 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
*
11399665 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC------
1 AAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
*
11399711 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
* *
11399763 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGAGACAA
1 AAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
11399811 AGTGATAAGT
Statistics
Matches: 133, Mismatches: 7, Indels: 12
0.88 0.05 0.08
Matches are distributed among these distances:
46 44 0.33
52 89 0.67
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (52 bp):
AAAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGG
Found at i:11399718 original size:98 final size:98
Alignment explanation
Indices: 11399599--11399821 Score: 437
Period size: 98 Copynumber: 2.3 Consensus size: 98
11399589 TTTGAGTACT
11399599 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
11399664 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
11399697 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
11399762 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
11399795 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
11399822 GCTACACTTA
Statistics
Matches: 124, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 124 1.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:11399728 original size:46 final size:46
Alignment explanation
Indices: 11399665--11399820 Score: 231
Period size: 46 Copynumber: 3.3 Consensus size: 46
11399655 TGACAAGTGG
11399665 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
* *
11399711 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
*
11399757 AAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
11399809 AAAGTGATAAGT
1 AAAGTGATAAGT
11399821 GGCTACACTT
Statistics
Matches: 99, Mismatches: 5, Indels: 12
0.85 0.04 0.10
Matches are distributed among these distances:
46 56 0.57
52 43 0.43
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
Found at i:11399834 original size:37 final size:37
Alignment explanation
Indices: 11399784--11399893 Score: 170
Period size: 37 Copynumber: 3.0 Consensus size: 37
11399774 TAATAGCTTC
*
11399784 GGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
* *
11399821 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
*
11399858 GGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
11399893 G
1 G
11399894 ATCATACGTA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.25
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
Found at i:11402323 original size:15 final size:14
Alignment explanation
Indices: 11402301--11402340 Score: 62
Period size: 15 Copynumber: 2.8 Consensus size: 14
11402291 TCCAAATACT
11402301 ATAAAACAGAGAAA
1 ATAAAACAGAGAAA
*
11402315 ATAAAAACAGAGGAA
1 AT-AAAACAGAGAAA
11402330 ATAAAACAGAG
1 ATAAAACAGAG
11402341 TAAGCATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.68, C:0.07, G:0.17, T:0.07
Consensus pattern (14 bp):
ATAAAACAGAGAAA
Found at i:11402796 original size:25 final size:25
Alignment explanation
Indices: 11402768--11402860 Score: 73
Period size: 25 Copynumber: 3.8 Consensus size: 25
11402758 AAACTCTTTC
*
11402768 GAGCCATATAACGGGAAGCTCATGT
1 GAGCCATATAACGAGAAGCTCATGT
* * **
11402793 GAGCCATGTAACGAGAAGCTTATAA
1 GAGCCATATAACGAGAAGCTCATGT
* * * *
11402818 GAGCCATA-ATCGAAAAGTTCAAGT
1 GAGCCATATAACGAGAAGCTCATGT
* *
11402842 GAGCCA-ATATCGGGAAGCT
1 GAGCCATATAACGAGAAGCT
11402861 TTAGAGAGCC
Statistics
Matches: 51, Mismatches: 16, Indels: 3
0.73 0.23 0.04
Matches are distributed among these distances:
23 1 0.02
24 23 0.45
25 27 0.53
ACGTcount: A:0.37, C:0.18, G:0.26, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACGAGAAGCTCATGT
Found at i:11407768 original size:23 final size:23
Alignment explanation
Indices: 11407738--11407807 Score: 113
Period size: 23 Copynumber: 3.0 Consensus size: 23
11407728 TAGACATTAC
*
11407738 CTAAATATTGTCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
11407761 CTAAATATTATCACTGAATAATT
1 CTAAATATTATCACTAAATAATT
*
11407784 CTACATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
11407807 C
1 C
11407808 AAAGTTTAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.43, C:0.16, G:0.03, T:0.39
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:11407977 original size:40 final size:40
Alignment explanation
Indices: 11407933--11408037 Score: 122
Period size: 40 Copynumber: 2.6 Consensus size: 40
11407923 GTTTGGATAA
*
11407933 AAAACGCCGCTAAAAATTAAGCATTACCGGCACTTTTAAG
1 AAAACGCCGCTAAAAATTGAGCATTACCGGCACTTTTAAG
* * * * * * **
11407973 AAAACGCCACTAAAGATCGAGTATTAGCGGCGCTTTTTGG
1 AAAACGCCGCTAAAAATTGAGCATTACCGGCACTTTTAAG
11408013 AAAACGCCGCTAAAAA-TGAGCATTA
1 AAAACGCCGCTAAAAATTGAGCATTA
11408038 GCAGCGTTTT
Statistics
Matches: 52, Mismatches: 13, Indels: 1
0.79 0.20 0.02
Matches are distributed among these distances:
39 7 0.13
40 45 0.87
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATTGAGCATTACCGGCACTTTTAAG
Found at i:11408161 original size:41 final size:41
Alignment explanation
Indices: 11408100--11408419 Score: 514
Period size: 41 Copynumber: 7.8 Consensus size: 41
11408090 TTTTGAGTTT
* *
11408100 TCGGGGCTTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGC
1 TCGGGCCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC
* *
11408141 TCGGGCCTTTAGCGGTGTTTTTAAAGAAGCGCCACTAATGC
1 TCGGGCCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC
*
11408182 TCGGGCCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATTC
1 TCGGGCCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC
*
11408223 TCGGGCCTTTAACGGCGTTTTTAAAGAAGCGCCGCTAATGC
1 TCGGGCCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC
* *
11408264 TCGGGCCTTTAGCGGCGTTTTTAAAGAAGCACCGCTAATTC
1 TCGGGCCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC
* * *
11408305 TCGGGCCTTTAACGGTGTTTTTAAAGAAGCACCGCTAATGC
1 TCGGGCCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC
* *
11408346 TCGGGCCTTTAGCGGCGTTTTTGAAGAAGTGCCGCTAATGC
1 TCGGGCCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC
*
11408387 TCGGGTCTTTAGCGGCGTTTTTAAAGAAGCGCC
1 TCGGGCCTTTAGCGGCGTTTTTAAAGAAGCGCC
11408420 ACAAAAAATA
Statistics
Matches: 256, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 256 1.00
ACGTcount: A:0.20, C:0.23, G:0.28, T:0.29
Consensus pattern (41 bp):
TCGGGCCTTTAGCGGCGTTTTTAAAGAAGCGCCGCTAATGC
Found at i:11412688 original size:38 final size:37
Alignment explanation
Indices: 11412637--11412712 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 37
11412627 TTAAAAGATT
** *
11412637 ATGTTTTTAGCGGCGTTTTTGTTAGAAGCGCCGCTAA
1 ATGTTTTTAGCGGCGTTTTTAATAAAAGCGCCGCTAA
*
11412674 ATGTTCTTTCGCGGCGTTTTTAATAAAAGCGCCGCTAA
1 ATGTT-TTTAGCGGCGTTTTTAATAAAAGCGCCGCTAA
11412712 A
1 A
11412713 GGTCTTGGTC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
37 5 0.15
38 29 0.85
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (37 bp):
ATGTTTTTAGCGGCGTTTTTAATAAAAGCGCCGCTAA
Found at i:11417068 original size:61 final size:61
Alignment explanation
Indices: 11417002--11417126 Score: 151
Period size: 61 Copynumber: 2.0 Consensus size: 61
11416992 ATCTCAAATA
* * * * * * * *
11417002 TAAAAAATTTAACAAATTTAGCCCTCAATATTTACAGAATTTGTCATTTTAGTTCTAATTC
1 TAAAAAAATTAACAAATTTAGCCCTCAACATTTACAAAATCTATCAATTTAGTCCTAACTC
* * *
11417063 TAAAAAAATTAATAAATTTGGCCGTCAACATTTACAAAATCTATCAATTTAGTCCTAACTC
1 TAAAAAAATTAACAAATTTAGCCCTCAACATTTACAAAATCTATCAATTTAGTCCTAACTC
11417124 TAA
1 TAA
11417127 CAATTTTTGA
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.37
Consensus pattern (61 bp):
TAAAAAAATTAACAAATTTAGCCCTCAACATTTACAAAATCTATCAATTTAGTCCTAACTC
Found at i:11418365 original size:62 final size:61
Alignment explanation
Indices: 11418208--11418387 Score: 184
Period size: 61 Copynumber: 2.9 Consensus size: 61
11418198 TTTTTAAAAT
* * * ** * *
11418208 TTTTAGAGTTAGGACTAAATTGACAGAATTTGTAAATATTGAGGAATAAATTTATTGATTT
1 TTTTAGAATTAGAACTAAATTGATAGAATTTGTAAATATTGAGGGCTAAATTTGTTGATTA
* *
11418269 TTTTAGAATTAGAACTAAAATGATA-AATTTTGTAAACATTGAGGGCTAAATTTGTTGAATTA
1 TTTTAGAATTAGAACTAAATTGATAGAA-TTTGTAAATATTGAGGGCTAAATTTGTTG-ATTA
* * * * *
11418331 TTTTATATTTAGTA-TCAAATTGATAGAATATGTAAATATTAGAGGGCTAATTTTGTT
1 TTTTAGAATTAGAACT-AAATTGATAGAATTTGTAAATATT-GAGGGCTAAATTTGTT
11418388 ACAAGACCAA
Statistics
Matches: 98, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
60 2 0.02
61 47 0.48
62 32 0.33
63 17 0.17
ACGTcount: A:0.38, C:0.04, G:0.17, T:0.42
Consensus pattern (61 bp):
TTTTAGAATTAGAACTAAATTGATAGAATTTGTAAATATTGAGGGCTAAATTTGTTGATTA
Found at i:11420568 original size:13 final size:13
Alignment explanation
Indices: 11420550--11420576 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11420540 ATAATCTTCA
11420550 TTTTCTGCTGAAT
1 TTTTCTGCTGAAT
11420563 TTTTCTGCTGAAT
1 TTTTCTGCTGAAT
11420576 T
1 T
11420577 ACACACTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.56
Consensus pattern (13 bp):
TTTTCTGCTGAAT
Found at i:11424007 original size:45 final size:45
Alignment explanation
Indices: 11423915--11424070 Score: 140
Period size: 45 Copynumber: 3.5 Consensus size: 45
11423905 CGACTACTAG
** * * *
11423915 GATGCCATAGGGTCTTTCAACTATGGTCTTAGT--TTTGTTTTCTAT
1 GATGCCATAGCATCTTTCAACTATGGTCTTACTCATTT-ATATC-AT
* * *
11423960 GATGCCATAGCGTCTCTCAACCATGGTCTTACTCATTTATATCAT
1 GATGCCATAGCATCTTTCAACTATGGTCTTACTCATTTATATCAT
* * *
11424005 GATGCCATAACATCTTTCAGCTATGGTTTTACTCGTATTTA-AT-AT
1 GATGCCATAGCATCTTTCAACTATGGTCTTACTC--ATTTATATCAT
*
11424050 GATACCATAGCATCTTTCAAC
1 GATGCCATAGCATCTTTCAAC
11424071 ATATAGCCCC
Statistics
Matches: 92, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
45 79 0.86
46 5 0.05
47 8 0.09
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (45 bp):
GATGCCATAGCATCTTTCAACTATGGTCTTACTCATTTATATCAT
Found at i:11426462 original size:43 final size:42
Alignment explanation
Indices: 11426423--11426534 Score: 152
Period size: 43 Copynumber: 2.6 Consensus size: 42
11426413 AATGCCATGT
* * *
11426423 CCCATACATAGTCTTACATGGAAATCTCATATCGATGCCAATAG
1 CCCA-ACATGGTCTTACA-CGAAATCTCAAATCGATGCCAATAG
*
11426467 CCCAGCTATGGTCTTACACGAAATCTCAAATCGATGCCAATAG
1 CCCAAC-ATGGTCTTACACGAAATCTCAAATCGATGCCAATAG
11426510 CCCAGACATGGTCTTACACGAAATC
1 CCCA-ACATGGTCTTACACGAAATC
11426535 ACACCTCAGA
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
43 46 0.75
44 15 0.25
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (42 bp):
CCCAACATGGTCTTACACGAAATCTCAAATCGATGCCAATAG
Found at i:11426705 original size:31 final size:31
Alignment explanation
Indices: 11426658--11426858 Score: 251
Period size: 31 Copynumber: 6.5 Consensus size: 31
11426648 TGCTCAAATT
* * **
11426658 AATTCGACAATATATATCCATATACGCATCA
1 AATTCGGCAATGTATATCCATATACAAATCA
* * *
11426689 AATTTGGCAATGTATATCTACATACAAATC-
1 AATTCGGCAATGTATATCCATATACAAATCA
*
11426719 AATTCGGCAATTTATATCCATATACAAATCA
1 AATTCGGCAATGTATATCCATATACAAATCA
* *
11426750 AATTCGGCAATTTATAACCATATACAAATCA
1 AATTCGGCAATGTATATCCATATACAAATCA
* * * *
11426781 AATTCAGCAATGTATATCTATAAACAATTCA
1 AATTCGGCAATGTATATCCATATACAAATCA
*
11426812 AATTCGGCAATGTATATCTATATACAAATCA
1 AATTCGGCAATGTATATCCATATACAAATCA
*
11426843 AATTCGACAATGTATA
1 AATTCGGCAATGTATA
11426859 AAACATATAC
Statistics
Matches: 147, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
30 26 0.18
31 121 0.82
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (31 bp):
AATTCGGCAATGTATATCCATATACAAATCA
Found at i:11426879 original size:93 final size:92
Alignment explanation
Indices: 11426658--11426869 Score: 271
Period size: 92 Copynumber: 2.3 Consensus size: 92
11426648 TGCTCAAATT
* ** ** ** *
11426658 AATTCGACAATATATATCCATATACGCATCAAATTTGGCAATGTATATCTACATACAAATCAATT
1 AATTCGACAATGTATAAACATATACAAATCAAATTCAGCAATGTATATCTACAAACAAATCAATT
*
11426723 CGGCAATTTATATCCATATACAAATCA
66 CGGCAATGTATATCCATATACAAATCA
* * * * *
11426750 AATTCGGCAATTTATAACCATATACAAATCAAATTCAGCAATGTATATCTATAAACAATTCAAAT
1 AATTCGACAATGTATAAACATATACAAATCAAATTCAGCAATGTATATCTACAAACAAATC-AAT
*
11426815 TCGGCAATGTATATCTATATACAAATCA
65 TCGGCAATGTATATCCATATACAAATCA
11426843 AATTCGACAATGTATAAAACATATACA
1 AATTCGACAATGTAT-AAACATATACA
11426870 TTTAAATTCA
Statistics
Matches: 103, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
92 51 0.50
93 42 0.41
94 10 0.10
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.31
Consensus pattern (92 bp):
AATTCGACAATGTATAAACATATACAAATCAAATTCAGCAATGTATATCTACAAACAAATCAATT
CGGCAATGTATATCCATATACAAATCA
Found at i:11428713 original size:27 final size:27
Alignment explanation
Indices: 11428680--11429159 Score: 852
Period size: 27 Copynumber: 17.6 Consensus size: 27
11428670 TAAATTGTGC
*
11428680 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
11428707 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
11428734 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
11428761 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
11428788 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
11428815 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
11428842 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
11428870 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
11428897 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
11428924 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
11428952 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
11428980 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
11429008 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
11429036 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
11429063 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
11429090 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
11429118 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
11429145 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
11429160 GACTTAATAT
Statistics
Matches: 444, Mismatches: 6, Indels: 6
0.97 0.01 0.01
Matches are distributed among these distances:
27 281 0.63
28 163 0.37
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:11428920 original size:82 final size:82
Alignment explanation
Indices: 11428680--11429159 Score: 874
Period size: 82 Copynumber: 5.9 Consensus size: 82
11428670 TAAATTGTGC
*
11428680 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
11428744 GTGCGAGTTGACTATGT
66 GTGCGAGTTGACTATGT
11428761 AGCACTAAGTGTGCGAG-TTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
11428825 GTGCGAGTTGACTATGT
66 GTGCGAGTTGACTATGT
*
11428842 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
11428907 GTGCGAGTTGACTATGT
66 GTGCGAGTTGACTATGT
11428924 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAG
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATGTAGCACTAAG
11428989 TGTGCGAGTTTGACTATGT
65 TGTGCGAG-TTGACTATGT
11429008 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
11429073 GTGCGAGTTGACTATGT
66 GTGCGAGTTGACTATGT
* * * *
11429090 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
11429155 GTGCG
66 GTGCG
11429160 GACTTAATAT
Statistics
Matches: 389, Mismatches: 6, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
81 97 0.25
82 183 0.47
83 54 0.14
84 55 0.14
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGT
GTGCGAGTTGACTATGT
Found at i:11440788 original size:12 final size:12
Alignment explanation
Indices: 11440771--11440809 Score: 62
Period size: 12 Copynumber: 3.2 Consensus size: 12
11440761 CAAAAAAATG
11440771 TTTATTTTCTTT
1 TTTATTTTCTTT
11440783 TTTA-TTTCTTT
1 TTTATTTTCTTT
11440794 ATTTATTTTCTTT
1 -TTTATTTTCTTT
11440807 TTT
1 TTT
11440810 TCTTATTCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 7 0.28
12 11 0.44
13 7 0.28
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTATTTTCTTT
Found at i:11460209 original size:17 final size:17
Alignment explanation
Indices: 11460168--11460209 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
11460158 AAAAAATTTA
11460168 ATTTTT-ACTCAAAAAT
1 ATTTTTAACTCAAAAAT
*
11460184 ACTTTTTAACTTAAAAAT
1 A-TTTTTAACTCAAAAAT
11460202 ATTTTTAA
1 ATTTTTAA
11460210 GAAATAATAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 1 0.04
17 12 0.52
18 10 0.43
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (17 bp):
ATTTTTAACTCAAAAAT
Found at i:11469912 original size:27 final size:28
Alignment explanation
Indices: 11469854--11469942 Score: 126
Period size: 28 Copynumber: 3.2 Consensus size: 28
11469844 ACTCAAATAT
11469854 CACTTGGTTCAAAACTTAGCTCGGATAC
1 CACTTGGTTCAAAACTTAGCTCGGATAC
* *
11469882 CACTTGGTTCAAAACCT-GCTCGGATAT
1 CACTTGGTTCAAAACTTAGCTCGGATAC
* * *
11469909 CACTTGGCTCAAAACTTGGCTCTGATAC
1 CACTTGGTTCAAAACTTAGCTCGGATAC
11469937 CACTTG
1 CACTTG
11469943 TCACAGGGCT
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 24 0.44
28 30 0.56
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (28 bp):
CACTTGGTTCAAAACTTAGCTCGGATAC
Found at i:11471043 original size:149 final size:149
Alignment explanation
Indices: 11470772--11471054 Score: 404
Period size: 149 Copynumber: 1.9 Consensus size: 149
11470762 TCTTATGTAT
* * *
11470772 TTTCAATTTGTAAAATTGTGATTTTAATATTGTTGGTATTAGTTGTTCACAAAAATATAAGGTTT
1 TTTCAATTTGTAAAATTGTGATTTTAATATTGTTGGTATTAGTTATTCACAAAAATAAAAGGTTC
* ** ** * *
11470837 AATCTATTTAATTGTTACATTATGGTACAACTTATCTTCCTCGTTGCTTAAGTTAGTAATAGCAA
66 AATCTAGTTAACCGTTACATTATGGTACAACTTATCTTCCTCACTGCTTAAGCTAGTAATAACAA
11470902 CAATATAAGGTTTGATCTC
131 CAATATAAGGTTTGATCTC
** * * **
11470921 TTTCAATTTGTGTAATTGTGGTTTTAATGTTGTTGGTATTAGTTATTTGCAAAAATAAAAGGTTC
1 TTTCAATTTGTAAAATTGTGATTTTAATATTGTTGGTATTAGTTATTCACAAAAATAAAAGGTTC
* *
11470986 AATCTAGTTAACCGTTACATTATGGTACAACTTCTCTTCCTCACTGTTTAAGCTAGTAATAACAA
66 AATCTAGTTAACCGTTACATTATGGTACAACTTATCTTCCTCACTGCTTAAGCTAGTAATAACAA
11471051 CAAT
131 CAAT
11471055 TTAGTAATAA
Statistics
Matches: 116, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
149 116 1.00
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.42
Consensus pattern (149 bp):
TTTCAATTTGTAAAATTGTGATTTTAATATTGTTGGTATTAGTTATTCACAAAAATAAAAGGTTC
AATCTAGTTAACCGTTACATTATGGTACAACTTATCTTCCTCACTGCTTAAGCTAGTAATAACAA
CAATATAAGGTTTGATCTC
Found at i:11475869 original size:23 final size:23
Alignment explanation
Indices: 11475781--11475870 Score: 58
Period size: 23 Copynumber: 3.8 Consensus size: 23
11475771 GTTATGAATT
* * *
11475781 TTTTTATTCATTATATTTTGTAA
1 TTTTTATTGATTATATTTTATTA
* * *
11475804 TTTGTACTGATTTAAATTTATATTA
1 TTTTTATTGA-TTATATTT-TATTA
* *
11475829 TTATTA-TG-TTATGAATTTTTTTA
1 TTTTTATTGATTAT--ATTTTATTA
11475852 TTTTTATTGATTATATTTT
1 TTTTTATTGATTATATTTT
11475871 GTACTAATTT
Statistics
Matches: 50, Mismatches: 11, Indels: 12
0.68 0.15 0.16
Matches are distributed among these distances:
22 3 0.06
23 21 0.42
24 15 0.30
25 11 0.22
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (23 bp):
TTTTTATTGATTATATTTTATTA
Found at i:11475883 original size:64 final size:64
Alignment explanation
Indices: 11475767--11475897 Score: 185
Period size: 64 Copynumber: 2.0 Consensus size: 64
11475757 TATCATGTGT
* *
11475767 TTATGTTATGAATTTTTTTATTCATTATATTTTGTAATTTGTACTGATTTAAATTTATATTATTA
1 TTATGTTATGAATTTTTTTATT-ATTATATTTTATAATTTGTACTAATTTAAATTTATATTATTA
* *
11475832 TTATGTTATGAATTTTTTTATT-TT-TATTGATTATATTTTGTACTAATTTAAATTTATTTTATT
1 TTATGTTATGAATTTTTTTATTATTATATT--TTATAATTTGTACTAATTTAAATTTATATTATT
11475895 A
64 A
11475896 TT
1 TT
11475898 TACCGTTGTA
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
62 4 0.07
63 2 0.03
64 32 0.53
65 22 0.37
ACGTcount: A:0.28, C:0.02, G:0.07, T:0.63
Consensus pattern (64 bp):
TTATGTTATGAATTTTTTTATTATTATATTTTATAATTTGTACTAATTTAAATTTATATTATTA
Found at i:11476371 original size:5 final size:5
Alignment explanation
Indices: 11476356--11476389 Score: 59
Period size: 5 Copynumber: 6.6 Consensus size: 5
11476346 TTCAAACTGC
11476356 ATTATA ATTAA ATTAA ATTAA ATTAA ATTAA ATT
1 ATTA-A ATTAA ATTAA ATTAA ATTAA ATTAA ATT
11476390 CTAAAAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 24 0.86
6 4 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
ATTAA
Found at i:11476586 original size:18 final size:18
Alignment explanation
Indices: 11476563--11476597 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11476553 ATTCAACTCG
11476563 AATCCCAAGAAATTTCAA
1 AATCCCAAGAAATTTCAA
* *
11476581 AATCCCATGCAATTTCA
1 AATCCCAAGAAATTTCA
11476598 TTTCCAGATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.26, G:0.06, T:0.26
Consensus pattern (18 bp):
AATCCCAAGAAATTTCAA
Found at i:11484822 original size:5 final size:5
Alignment explanation
Indices: 11484812--11485159 Score: 543
Period size: 5 Copynumber: 69.6 Consensus size: 5
11484802 CCAATCGTGC
11484812 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
* * * *
11484862 ATACA ATATA ATACA GTACA GTACA GTACA ATACA ATACA ATACA ATACA
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
11484912 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
11484962 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
11485012 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
* * * * * *
11485062 ATACA ATACA ATACA ATACA GTACA GTACA GTACA GTACA GTACA GTACA
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA
* * * * * * *
11485112 GTACA GTACA GTACA GTACA GTACA GTACA GTACA ATACA ATACA ATA
1 ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATACA ATA
11485160 TACAATAATT
Statistics
Matches: 337, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 337 1.00
ACGTcount: A:0.55, C:0.20, G:0.05, T:0.20
Consensus pattern (5 bp):
ATACA
Found at i:11491892 original size:104 final size:104
Alignment explanation
Indices: 11491712--11491919 Score: 407
Period size: 104 Copynumber: 2.0 Consensus size: 104
11491702 CCTAGAGAAT
11491712 GTAAGCATACAGTTAGGAAATAAAAGCAATTGAATGAAACAGTAGATTAAATCAAATATATGCTT
1 GTAAGCATACAGTTAGGAAATAAAAGCAATTGAATGAAACAGTAGATTAAATCAAATATATGCTT
11491777 CGACCATTGAAGAAAACAAAAGTTTCATTATATAATCCC
66 CGACCATTGAAGAAAACAAAAGTTTCATTATATAATCCC
11491816 GTAAGCATACAGTTAGGAAATAAAAGCAATTGAATGAAACAGTAGATTAAATCAAATATATGCTT
1 GTAAGCATACAGTTAGGAAATAAAAGCAATTGAATGAAACAGTAGATTAAATCAAATATATGCTT
*
11491881 CGACCATTGAAGAAAACAAAAGTTTCATTATGTAATCCC
66 CGACCATTGAAGAAAACAAAAGTTTCATTATATAATCCC
11491920 AAAACTATGA
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 103 1.00
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.26
Consensus pattern (104 bp):
GTAAGCATACAGTTAGGAAATAAAAGCAATTGAATGAAACAGTAGATTAAATCAAATATATGCTT
CGACCATTGAAGAAAACAAAAGTTTCATTATATAATCCC
Found at i:11500261 original size:40 final size:40
Alignment explanation
Indices: 11500230--11500320 Score: 148
Period size: 40 Copynumber: 2.3 Consensus size: 40
11500220 GGACTAAGAT
* *
11500230 CCGAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
11500270 CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
11500310 CCGAAGGCATT
1 CCGAAGGCATT
11500321 GTATGAGTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
39 2 0.04
40 46 0.96
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
Found at i:11500341 original size:39 final size:40
Alignment explanation
Indices: 11500230--11500357 Score: 134
Period size: 40 Copynumber: 3.2 Consensus size: 40
11500220 GGACTAAGAT
* * * * *
11500230 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTCGTACGAGTTCTAAAATCCGGGTTAAGTC
* *
11500270 CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTACGAGTTCTAAAATCCGGGTTAAGTC
* * * *
11500310 CCGAAGGCATT-GTATGAGTTACTATAA-CCGGGCTATGTC
1 CCGAAGGCATTCGTACGAGTT-CTAAAATCCGGGTTAAGTC
11500349 CCGAAGGCA
1 CCGAAGGCA
11500358 CTTGAACGAG
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 26 0.34
40 51 0.66
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTACGAGTTCTAAAATCCGGGTTAAGTC
Found at i:11507414 original size:40 final size:40
Alignment explanation
Indices: 11507383--11507473 Score: 148
Period size: 40 Copynumber: 2.3 Consensus size: 40
11507373 GGACTAAGAT
* *
11507383 CCGAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
11507423 CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
11507463 CCGAAGGCATT
1 CCGAAGGCATT
11507474 GTATGAGTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
39 2 0.04
40 46 0.96
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
Found at i:11507494 original size:39 final size:40
Alignment explanation
Indices: 11507383--11507510 Score: 134
Period size: 40 Copynumber: 3.2 Consensus size: 40
11507373 GGACTAAGAT
* * * * *
11507383 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTCGTACGAGTTCTAAAATCCGGGTTAAGTC
* *
11507423 CCGAAGGCATTCGTGCGAGTTTTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTACGAGTTCTAAAATCCGGGTTAAGTC
* * * *
11507463 CCGAAGGCATT-GTATGAGTTACTATAA-CCGGGCTATGTC
1 CCGAAGGCATTCGTACGAGTT-CTAAAATCCGGGTTAAGTC
11507502 CCGAAGGCA
1 CCGAAGGCA
11507511 CTTGAACGAG
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
39 26 0.34
40 51 0.66
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTACGAGTTCTAAAATCCGGGTTAAGTC
Found at i:11515208 original size:654 final size:654
Alignment explanation
Indices: 11513960--11515269 Score: 2620
Period size: 654 Copynumber: 2.0 Consensus size: 654
11513950 CGGATGTATC
11513960 AACGTTTAGAGTGTGAATACTGTAACTAAAGATATATATTTGAGGCGGTGTTCGCAATTATATAG
1 AACGTTTAGAGTGTGAATACTGTAACTAAAGATATATATTTGAGGCGGTGTTCGCAATTATATAG
11514025 GTCATGTTGTAATATAGTTTGTTTACAACGAAACACTTGGTAAAGATCCTAAGGATCATACCCAA
66 GTCATGTTGTAATATAGTTTGTTTACAACGAAACACTTGGTAAAGATCCTAAGGATCATACCCAA
11514090 GGGATTGCAATTTGGGGAAAACTATTATCAAGTCAATTACGGGAAATAATTACTAATCTACTCGA
131 GGGATTGCAATTTGGGGAAAACTATTATCAAGTCAATTACGGGAAATAATTACTAATCTACTCGA
11514155 GTCACGAATTATTAGTGTTAACCAAGAAGCATGATGATAATAATAAAAAGAAACTAAATAAATTT
196 GTCACGAATTATTAGTGTTAACCAAGAAGCATGATGATAATAATAAAAAGAAACTAAATAAATTT
11514220 AACTAAACCTAAATCTACTCCTAGGTTATTGTATCGACTTTTCCTATTCCTTTTTTTGACTATGG
261 AACTAAACCTAAATCTACTCCTAGGTTATTGTATCGACTTTTCCTATTCCTTTTTTTGACTATGG
11514285 AAGTTCATTTTAGCCTAGATCCAATTTTTTTTTACCTAATTAATTATTGATGTAGAGTTCTAATC
326 AAGTTCATTTTAGCCTAGATCCAATTTTTTTTTACCTAATTAATTATTGATGTAGAGTTCTAATC
11514350 AATCAACTAGCCAATAACCTAGTTGGATCTTCTGATCTTCCACTAGAATAACGATTCAAAAAGAA
391 AATCAACTAGCCAATAACCTAGTTGGATCTTCTGATCTTCCACTAGAATAACGATTCAAAAAGAA
11514415 CTACTTATCTTTCAACCTCATAGTCCAGACTGGTTTGGGGTTAAGGTGTTCGCGGATAGGCTATA
456 CTACTTATCTTTCAACCTCATAGTCCAGACTGGTTTGGGGTTAAGGTGTTCGCGGATAGGCTATA
11514480 CCAATGTTGGGTTAATTCCCACCTAAATGACTTCCTAGGGTTGTCAAGCATAGGGTTTAAGTCCT
521 CCAATGTTGGGTTAATTCCCACCTAAATGACTTCCTAGGGTTGTCAAGCATAGGGTTTAAGTCCT
11514545 TCCTCTCCCAAACAGTTGATCTACTAAGAAACTCTATCATCCAATCAACTAATTAAGTTAAAGCA
586 TCCTCTCCCAAACAGTTGATCTACTAAGAAACTCTATCATCCAATCAACTAATTAAGTTAAAGCA
11514610 ATGG
651 ATGG
11514614 AACGTTTAGAGTGTGAATACTGTAACTAAAGATATATATTTGAGGCGGTGTTCGCAATTATATAG
1 AACGTTTAGAGTGTGAATACTGTAACTAAAGATATATATTTGAGGCGGTGTTCGCAATTATATAG
11514679 GTCATGTTGTAATATAGTTTGTTTACAACGAAACACTTGGTAAAGATCCTAAGGATCATACCCAA
66 GTCATGTTGTAATATAGTTTGTTTACAACGAAACACTTGGTAAAGATCCTAAGGATCATACCCAA
11514744 GGGATTGCAATTTGGGGAAAACTATTATCAAGTCAATTACGGGAAATAATTACTAATCTACTCGA
131 GGGATTGCAATTTGGGGAAAACTATTATCAAGTCAATTACGGGAAATAATTACTAATCTACTCGA
11514809 GTCACGAATTATTAGTGTTAACCAAGAAGCATGATGATAATAATAAAAAGAAACTAAATAAATTT
196 GTCACGAATTATTAGTGTTAACCAAGAAGCATGATGATAATAATAAAAAGAAACTAAATAAATTT
11514874 AACTAAACCTAAATCTACTCCTAGGTTATTGTATCGACTTTTCCTATTCCTTTTTTTGACTATGG
261 AACTAAACCTAAATCTACTCCTAGGTTATTGTATCGACTTTTCCTATTCCTTTTTTTGACTATGG
11514939 AAGTTCATTTTAGCCTAGATCCAATTTTTTTTTACCTAATTAATTATTGATGTAGAGTTCTAATC
326 AAGTTCATTTTAGCCTAGATCCAATTTTTTTTTACCTAATTAATTATTGATGTAGAGTTCTAATC
11515004 AATCAACTAGCCAATAACCTAGTTGGATCTTCTGATCTTCCACTAGAATAACGATTCAAAAAGAA
391 AATCAACTAGCCAATAACCTAGTTGGATCTTCTGATCTTCCACTAGAATAACGATTCAAAAAGAA
11515069 CTACTTATCTTTCAACCTCATAGTCCAGACTGGTTTGGGGTTAAGGTGTTCGCGGATAGGCTATA
456 CTACTTATCTTTCAACCTCATAGTCCAGACTGGTTTGGGGTTAAGGTGTTCGCGGATAGGCTATA
11515134 CCAATGTTGGGTTAATTCCCACCTAAATGACTTCCTAGGGTTGTCAAGCATAGGGTTTAAGTCCT
521 CCAATGTTGGGTTAATTCCCACCTAAATGACTTCCTAGGGTTGTCAAGCATAGGGTTTAAGTCCT
11515199 TCCTCTCCCAAACAGTTGATCTACTAAGAAACTCTATCATCCAATCAACTAATTAAGTTAAAGCA
586 TCCTCTCCCAAACAGTTGATCTACTAAGAAACTCTATCATCCAATCAACTAATTAAGTTAAAGCA
11515264 ATGG
651 ATGG
11515268 AA
1 AA
11515270 ACATGCAAAA
Statistics
Matches: 656, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
654 656 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Consensus pattern (654 bp):
AACGTTTAGAGTGTGAATACTGTAACTAAAGATATATATTTGAGGCGGTGTTCGCAATTATATAG
GTCATGTTGTAATATAGTTTGTTTACAACGAAACACTTGGTAAAGATCCTAAGGATCATACCCAA
GGGATTGCAATTTGGGGAAAACTATTATCAAGTCAATTACGGGAAATAATTACTAATCTACTCGA
GTCACGAATTATTAGTGTTAACCAAGAAGCATGATGATAATAATAAAAAGAAACTAAATAAATTT
AACTAAACCTAAATCTACTCCTAGGTTATTGTATCGACTTTTCCTATTCCTTTTTTTGACTATGG
AAGTTCATTTTAGCCTAGATCCAATTTTTTTTTACCTAATTAATTATTGATGTAGAGTTCTAATC
AATCAACTAGCCAATAACCTAGTTGGATCTTCTGATCTTCCACTAGAATAACGATTCAAAAAGAA
CTACTTATCTTTCAACCTCATAGTCCAGACTGGTTTGGGGTTAAGGTGTTCGCGGATAGGCTATA
CCAATGTTGGGTTAATTCCCACCTAAATGACTTCCTAGGGTTGTCAAGCATAGGGTTTAAGTCCT
TCCTCTCCCAAACAGTTGATCTACTAAGAAACTCTATCATCCAATCAACTAATTAAGTTAAAGCA
ATGG
Found at i:11525056 original size:26 final size:26
Alignment explanation
Indices: 11525027--11525131 Score: 111
Period size: 26 Copynumber: 4.0 Consensus size: 26
11525017 AACACACCAA
* * *
11525027 TATCGCAGCAAAGCTGCTAGTAATAG
1 TATCGCAGCAAAGCTACCAGTAACAG
* * * *
11525053 TATCGTAGCAAGGCTGCCAATAACAG
1 TATCGCAGCAAAGCTACCAGTAACAG
*
11525079 TATCGCAGTAAAGCTACCAGTAACAG
1 TATCGCAGCAAAGCTACCAGTAACAG
* * *
11525105 TATCGCAACAAAACTACTAGTAACAG
1 TATCGCAGCAAAGCTACCAGTAACAG
11525131 T
1 T
11525132 GTACTTCCTC
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 65 1.00
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (26 bp):
TATCGCAGCAAAGCTACCAGTAACAG
Found at i:11535437 original size:22 final size:22
Alignment explanation
Indices: 11535409--11535457 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
11535399 AAAGCTTTGA
* *
11535409 TTTTTTTAGAAA-AACAATGATT
1 TTTTTTTAAAAATAAAAAT-ATT
11535431 TTTTTTTAAAAATAAAAATATT
1 TTTTTTTAAAAATAAAAATATT
11535453 TTTTT
1 TTTTT
11535458 AGTCATTCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (22 bp):
TTTTTTTAAAAATAAAAATATT
Found at i:11535579 original size:125 final size:125
Alignment explanation
Indices: 11535326--11535564 Score: 302
Period size: 127 Copynumber: 1.9 Consensus size: 125
11535316 GGCGTTACAG
* * * *
11535326 TTTTTTAATCATTTTAAAGGAAAAGTTTAAAATTTTAAAATAAAGTTTTGATGTTTTTCAACTAT
1 TTTTTTAATCATTCTAAAGGAAAAGTTTAAAATTTTAAAACAAAGCTTTGATCTTTTT-AACTAT
* * *
11535391 CTCGAAATAAAGCTTTGATTTTTTTAGAAAAACAATGATTTTTTTTTAAAAATAAAAATAT
65 CTCGAAATAAAGCTTTGATTTTTTAAGAAAAACAATAAATTTTTTTTAAAAATAAAAATAT
* * * *
11535452 TTTTTTAGTCATTCTCAAGGAAAAAGTTTAAATTTTTAAAACAAAGCTTTGTTCTTTTT-ACTAT
1 TTTTTTAATCATTCTAAAGG-AAAAGTTTAAAATTTTAAAACAAAGCTTTGATCTTTTTAACTAT
* * ** *
11535516 TTTGAAATAAAGCTTTGA-TTTTTAAGAAAATTAGTAAATTTTTTTTAAA
65 CTCGAAATAAAGCTTTGATTTTTTAAGAAAAACAATAAATTTTTTTTAAA
11535565 GAAAACTTTG
Statistics
Matches: 96, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
124 25 0.26
125 21 0.22
126 17 0.18
127 33 0.34
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.46
Consensus pattern (125 bp):
TTTTTTAATCATTCTAAAGGAAAAGTTTAAAATTTTAAAACAAAGCTTTGATCTTTTTAACTATC
TCGAAATAAAGCTTTGATTTTTTAAGAAAAACAATAAATTTTTTTTAAAAATAAAAATAT
Found at i:11537933 original size:20 final size:20
Alignment explanation
Indices: 11537910--11537971 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
11537900 AGATAATTAT
*
11537910 CCCTGTTTGTACTTTGGTAC
1 CCCTGTTTGTACTTCGGTAC
* * *
11537930 CCCTGATTGCACATACGGT-C
1 CCCTGTTTGTAC-TTCGGTAC
*
11537950 CCCTATTTGTACTTCGGTAC
1 CCCTGTTTGTACTTCGGTAC
11537970 CC
1 CC
11537972 TTGATTGCAC
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
19 5 0.16
20 23 0.72
21 4 0.12
ACGTcount: A:0.15, C:0.32, G:0.18, T:0.35
Consensus pattern (20 bp):
CCCTGTTTGTACTTCGGTAC
Found at i:11537993 original size:40 final size:40
Alignment explanation
Indices: 11537910--11537986 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
11537900 AGATAATTAT
* *
11537910 CCCTGTTTGTACTTTGGTACCCCTGATTGCACATACGGTC
1 CCCTATTTGTACTTCGGTACCCCTGATTGCACATACGGTC
*
11537950 CCCTATTTGTACTTCGGTACCCTTGATTGCACATACG
1 CCCTATTTGTACTTCGGTACCCCTGATTGCACATACG
11537987 TGCCCCTGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.17, C:0.30, G:0.18, T:0.35
Consensus pattern (40 bp):
CCCTATTTGTACTTCGGTACCCCTGATTGCACATACGGTC
Found at i:11544851 original size:42 final size:42
Alignment explanation
Indices: 11544792--11544877 Score: 136
Period size: 42 Copynumber: 2.0 Consensus size: 42
11544782 AATGAAAGCA
* *
11544792 TTCATTGCATTTAGAGGCTCAGGTGTGGAGATTCATTTACTT
1 TTCATTACATTTAGAGGCCCAGGTGTGGAGATTCATTTACTT
* *
11544834 TTCATTACATTTAGAGGCCCAGGTGTGGAGGTTCATTTATTT
1 TTCATTACATTTAGAGGCCCAGGTGTGGAGATTCATTTACTT
11544876 TT
1 TT
11544878 TCTTTGTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.21, C:0.14, G:0.23, T:0.42
Consensus pattern (42 bp):
TTCATTACATTTAGAGGCCCAGGTGTGGAGATTCATTTACTT
Found at i:11552022 original size:43 final size:43
Alignment explanation
Indices: 11551946--11552031 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
11551936 TATGTGATTG
* *
11551946 ATATTGAAATGAAAAAGATGATAAATGAATATGAGATTAGAAA
1 ATATTGAAATGAAAAAGATGAGAAATGAATATGAGATGAGAAA
* *
11551989 ATATTGAAATGGAAAATATGAGAAAT-AATTATGAGATGAGAAA
1 ATATTGAAATGAAAAAGATGAGAAATGAA-TATGAGATGAGAAA
11552032 TGAAATATGA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 2 0.05
43 36 0.95
ACGTcount: A:0.55, C:0.00, G:0.20, T:0.26
Consensus pattern (43 bp):
ATATTGAAATGAAAAAGATGAGAAATGAATATGAGATGAGAAA
Found at i:11554405 original size:49 final size:49
Alignment explanation
Indices: 11554348--11554441 Score: 125
Period size: 49 Copynumber: 1.9 Consensus size: 49
11554338 TCAAGAAGGG
* * *
11554348 ATAAATAGTGGGAAAATTGTAGACAGTGGAAGACTAAATTTAGCAATGT
1 ATAAATAGTGAGAAAAGTGTAGACAGTGGAAGACCAAATTTAGCAATGT
* * * *
11554397 ATAAATAGTGATAAGAGTGTAGATAGTGGAAGACCAAGTTTAGCA
1 ATAAATAGTGAGAAAAGTGTAGACAGTGGAAGACCAAATTTAGCA
11554442 TCGTATAGCA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
49 38 1.00
ACGTcount: A:0.43, C:0.06, G:0.26, T:0.26
Consensus pattern (49 bp):
ATAAATAGTGAGAAAAGTGTAGACAGTGGAAGACCAAATTTAGCAATGT
Found at i:11555740 original size:68 final size:68
Alignment explanation
Indices: 11555515--11555727 Score: 232
Period size: 68 Copynumber: 3.1 Consensus size: 68
11555505 GTTTCATTTG
* * * ** * * *
11555515 TAAGACCATAGTTGGGCTATGGCAGGATATGAAGTCCAATAGGACAATAAACATGAGATTATATT
1 TAAGACCATAGCTAGGCTATGGAAATATATGAAGTCCACTAGGATAGTAAACATGAGATTATATT
11555580 ACA
66 ACA
* * *
11555583 TAAGACCATAGCTAGACTAT--AACAGTATATGAAGTCCACCAGGATAGTAAACATAAGATTATA
1 TAAGACCATAGCTAGGCTATGGAA-A-TATATGAAGTCCACTAGGATAGTAAACATGAGATTATA
11555646 TTACA
64 TTACA
* * * **
11555651 TAAGACTATAGCTAGGTTATGGAAATATATGAAGTCCGCTACAATAGTAAACATGAGATTATATT
1 TAAGACCATAGCTAGGCTATGGAAATATATGAAGTCCACTAGGATAGTAAACATGAGATTATATT
**
11555716 ATG
66 ACA
11555719 TAAGACCAT
1 TAAGACCAT
11555728 CGTTGGGCTA
Statistics
Matches: 119, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
66 1 0.01
68 115 0.97
69 1 0.01
70 2 0.02
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (68 bp):
TAAGACCATAGCTAGGCTATGGAAATATATGAAGTCCACTAGGATAGTAAACATGAGATTATATT
ACA
Found at i:11555752 original size:68 final size:68
Alignment explanation
Indices: 11555562--11555757 Score: 191
Period size: 68 Copynumber: 2.9 Consensus size: 68
11555552 AATAGGACAA
* * * * * *
11555562 TAAACATGAGATTATATTACATAAGACCATAGCTAGACTAT--AACAGTATATGAAGTCCACCAG
1 TAAACATAAGATTATATTACATAAGACCATAGCTAGGCTATGGAA-A-CATATGAAGTCCGCTAC
*
11555625 GATAG
64 AATAG
* * *
11555630 TAAACATAAGATTATATTACATAAGACTATAGCTAGGTTATGGAAATATATGAAGTCCGCTACAA
1 TAAACATAAGATTATATTACATAAGACCATAGCTAGGCTATGGAAACATATGAAGTCCGCTACAA
11555695 TAG
66 TAG
* ** * * * *
11555698 TAAACATGAGATTATATTATGTAAGACCATCGTTGGGCTATGGCAACA-AGTGAAGTCCGC
1 TAAACATAAGATTATATTACATAAGACCATAGCTAGGCTATGGAAACATA-TGAAGTCCGC
11555758 CAGGACAAAA
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
67 1 0.01
68 103 0.96
69 1 0.01
70 2 0.02
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (68 bp):
TAAACATAAGATTATATTACATAAGACCATAGCTAGGCTATGGAAACATATGAAGTCCGCTACAA
TAG
Found at i:11561782 original size:19 final size:20
Alignment explanation
Indices: 11561760--11561803 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
11561750 TGAGTTCTTG
11561760 AAAATAG-AAGAGAG-CGTGA
1 AAAATAGAAAGAGAGAC-TGA
11561779 AAAA-AGAAAGAGAGACTGA
1 AAAATAGAAAGAGAGACTGA
11561798 AAAATA
1 AAAATA
11561804 AACGAGTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 2 0.09
19 18 0.82
20 2 0.09
ACGTcount: A:0.61, C:0.05, G:0.25, T:0.09
Consensus pattern (20 bp):
AAAATAGAAAGAGAGACTGA
Found at i:11561840 original size:33 final size:33
Alignment explanation
Indices: 11561778--11561843 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
11561768 AGAGAGCGTG
*
11561778 AAAAAAGAAAGAGAGACTGAAAAATAAACGAGT
1 AAAAAAGAAAGAGAGACTGAAAAAGAAACGAGT
* *
11561811 AAAAAAGAAAGAGA-ACTTGTACAAGAAACGAGT
1 AAAAAAGAAAGAGAGAC-TGAAAAAGAAACGAGT
11561844 GAAGAAAGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 2 0.07
33 27 0.93
ACGTcount: A:0.61, C:0.08, G:0.21, T:0.11
Consensus pattern (33 bp):
AAAAAAGAAAGAGAGACTGAAAAAGAAACGAGT
Found at i:11576974 original size:21 final size:21
Alignment explanation
Indices: 11576948--11576989 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
11576938 TAGGTTTTGA
11576948 TTAGGTGAGTTTGACTTAATT
1 TTAGGTGAGTTTGACTTAATT
11576969 TTAGGTGAGTTTGACTTAATT
1 TTAGGTGAGTTTGACTTAATT
11576990 AAGGATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.05, G:0.24, T:0.48
Consensus pattern (21 bp):
TTAGGTGAGTTTGACTTAATT
Found at i:11578115 original size:25 final size:25
Alignment explanation
Indices: 11578087--11578143 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
11578077 ACTTTAGCGC
* *
11578087 GCTCTCTAATTATTAGCACGTTAGT
1 GCTCTCTAATTACTAGCACGTCAGT
*
11578112 GCTCTCTGATTACTAGCACGTCAGT
1 GCTCTCTAATTACTAGCACGTCAGT
11578137 GCTCTCT
1 GCTCTCT
11578144 GTTTAGCACA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.37
Consensus pattern (25 bp):
GCTCTCTAATTACTAGCACGTCAGT
Found at i:11578144 original size:25 final size:23
Alignment explanation
Indices: 11578100--11578190 Score: 96
Period size: 22 Copynumber: 4.0 Consensus size: 23
11578090 CTCTAATTAT
*
11578100 TAGCACGTTAGTGCTCTCTGATTA
1 TAGCACGTCAGTGCTCTCTG-TTA
11578124 CTAGCACGTCAGTGCTCTCTGTT-
1 -TAGCACGTCAGTGCTCTCTGTTA
* * *
11578147 TAGCACATCTGTGCTTTCTG-TA
1 TAGCACGTCAGTGCTCTCTGTTA
* *
11578169 TAGCACTTTAGTGCTCTCTGTT
1 TAGCACGTCAGTGCTCTCTGTT
11578191 CATTAGTGCA
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.02
22 33 0.59
23 1 0.02
24 2 0.04
25 19 0.34
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (23 bp):
TAGCACGTCAGTGCTCTCTGTTA
Found at i:11590174 original size:29 final size:28
Alignment explanation
Indices: 11590085--11590183 Score: 76
Period size: 29 Copynumber: 3.5 Consensus size: 28
11590075 AGAAGAACAA
*
11590085 CCTTTG-GGACAAAACTCTAGAAAGGTAAG
1 CCTTTGTGG-CAAAACTAT-GAAAGGTAAG
* ** * * *
11590114 CCTTTTTGGTGAACCTATTAAAGG-ACAA
1 CCTTTGTGGCAAAACTATGAAAGGTA-AG
11590142 CCTTTGTGGCAAAACTATGGAAAGGTAAG
1 CCTTTGTGGCAAAACTAT-GAAAGGTAAG
*
11590171 CCTTCGTGGCAAA
1 CCTTTGTGGCAAA
11590184 CCTCTTAAAG
Statistics
Matches: 52, Mismatches: 14, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
27 1 0.02
28 20 0.38
29 28 0.54
30 3 0.06
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.25
Consensus pattern (28 bp):
CCTTTGTGGCAAAACTATGAAAGGTAAG
Found at i:11590186 original size:57 final size:57
Alignment explanation
Indices: 11590081--11590193 Score: 147
Period size: 57 Copynumber: 2.0 Consensus size: 57
11590071 CAGGAGAAGA
* ** **
11590081 ACAACCTTTGGGACAAAACTCTAGAAAGGTAAGCCTTTTTGGTGAACCTATTAAAGG
1 ACAACCTTTGGGACAAAACTATAGAAAGGTAAGCCTTCGTGGCAAACCTATTAAAGG
* *
11590138 ACAACCTTTGTGG-CAAAACTATGGAAAGGTAAGCCTTCGTGGCAAACCTCTTAAAG
1 ACAACCTTTG-GGACAAAACTATAGAAAGGTAAGCCTTCGTGGCAAACCTATTAAAG
11590194 AACGGACCTC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
57 46 0.96
58 2 0.04
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (57 bp):
ACAACCTTTGGGACAAAACTATAGAAAGGTAAGCCTTCGTGGCAAACCTATTAAAGG
Found at i:11596866 original size:20 final size:20
Alignment explanation
Indices: 11596836--11596904 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
11596826 CACTGGAGTG
*
11596836 CATTCAAGGGCACGAATGTA
1 CATTCAGGGGCACGAATGTA
*
11596856 C-TGTCAGGGGCACCGAA-GTG
1 CAT-TCAGGGGCA-CGAATGTA
*
11596876 CATTCAGGGGCACGAATGTG
1 CATTCAGGGGCACGAATGTA
*
11596896 CAATCAGGG
1 CATTCAGGG
11596905 ACACCAAAGT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
19 5 0.12
20 32 0.76
21 5 0.12
ACGTcount: A:0.28, C:0.22, G:0.33, T:0.17
Consensus pattern (20 bp):
CATTCAGGGGCACGAATGTA
Found at i:11596903 original size:40 final size:40
Alignment explanation
Indices: 11596815--11596939 Score: 135
Period size: 40 Copynumber: 3.1 Consensus size: 40
11596805 GCATGAGTGA
* * *
11596815 GCAATCAGGGGCACTGGAGTGCATTCAAGGGCACGAATGT
1 GCAATCAGGGGCACCGAAGTGCATTCAGGGGCACGAATGT
* **
11596855 ACTGTCAGGGGCACCGAAGTGCATTCAGGGGCACGAATGT
1 GCAATCAGGGGCACCGAAGTGCATTCAGGGGCACGAATGT
* * * * *
11596895 GCAATCAGGGACACCAAAGTG-TTTACAGGGGCACCAAGGT
1 GCAATCAGGGGCACCGAAGTGCATT-CAGGGGCACGAATGT
11596935 GCAAT
1 GCAAT
11596940 AAAGGCACTT
Statistics
Matches: 70, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 2 0.03
40 68 0.97
ACGTcount: A:0.29, C:0.22, G:0.33, T:0.17
Consensus pattern (40 bp):
GCAATCAGGGGCACCGAAGTGCATTCAGGGGCACGAATGT
Found at i:11605076 original size:41 final size:41
Alignment explanation
Indices: 11605026--11605176 Score: 167
Period size: 41 Copynumber: 3.5 Consensus size: 41
11605016 AATTATTCTT
* * *
11605026 TGAATTGCACATACGTGCCTCTGTTTGTACTTCGGTACCCC
1 TGAATTGCACATACGTGCCCCTATTTGTACTTCGATACCCC
* ** *
11605067 TTAATTGCACATATATGCCCCTATTTGTACTTCGACACCCC
1 TGAATTGCACATACGTGCCCCTATTTGTACTTCGATACCCC
*
11605108 TGAATTGCACCTACGTGCCCCTGCCCCTATTTGTACTTCGATACCCC
1 TGAATTGCACATAC--G----TGCCCCTATTTGTACTTCGATACCCC
*
11605155 TGAATTGCACCTACGTGCCCCT
1 TGAATTGCACATACGTGCCCCT
11605177 GTTTACACGC
Statistics
Matches: 92, Mismatches: 12, Indels: 12
0.79 0.10 0.10
Matches are distributed among these distances:
41 52 0.57
45 1 0.01
47 39 0.42
ACGTcount: A:0.19, C:0.34, G:0.15, T:0.32
Consensus pattern (41 bp):
TGAATTGCACATACGTGCCCCTATTTGTACTTCGATACCCC
Found at i:11605154 original size:47 final size:47
Alignment explanation
Indices: 11605082--11605177 Score: 183
Period size: 47 Copynumber: 2.0 Consensus size: 47
11605072 TGCACATATA
11605082 TGCCCCTATTTGTACTTCGACACCCCTGAATTGCACCTACGTGCCCC
1 TGCCCCTATTTGTACTTCGACACCCCTGAATTGCACCTACGTGCCCC
*
11605129 TGCCCCTATTTGTACTTCGATACCCCTGAATTGCACCTACGTGCCCC
1 TGCCCCTATTTGTACTTCGACACCCCTGAATTGCACCTACGTGCCCC
11605176 TG
1 TG
11605178 TTTACACGCT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.17, C:0.39, G:0.16, T:0.29
Consensus pattern (47 bp):
TGCCCCTATTTGTACTTCGACACCCCTGAATTGCACCTACGTGCCCC
Found at i:11608467 original size:27 final size:27
Alignment explanation
Indices: 11608437--11608815 Score: 373
Period size: 27 Copynumber: 14.1 Consensus size: 27
11608427 GTTAAATGAC
11608437 CGAAATACCCTCGAAGGGTAAAATTAT
1 CGAAATACCCTCGAAGGGTAAAATTAT
11608464 CGAAATACCCTCGAAGGGTAAAATTAT
1 CGAAATACCCTCGAAGGGTAAAATTAT
11608491 CGAAATACCCTCGAAGGGTAAAATTAT
1 CGAAATACCCTCGAAGGGTAAAATTAT
*
11608518 CGAAATACCCTCAAAGGGTAAAATTAT
1 CGAAATACCCTCGAAGGGTAAAATTAT
* * ** *
11608545 TGAAATACCCCCGAAATGTAAAATTAC
1 CGAAATACCCTCGAAGGGTAAAATTAT
11608572 CGAAATACCCT-GAAGGGTAAAATTA-
1 CGAAATACCCTCGAAGGGTAAAATTAT
*
11608597 CGAAAATACCCTCAAAGGGTAAAATTA-
1 CG-AAATACCCTCGAAGGGTAAAATTAT
* *
11608624 CTAAAATATACC-CGAAGGGTAAAATTA-
1 C-GAAATA-CCCTCGAAGGGTAAAATTAT
*
11608651 CTGAAATAACCTC-AAGGGGTAAAATTA-
1 C-GAAATACCCTCGAA-GGGTAAAATTAT
* ** ** *
11608678 CAAAAATACCCTTAAATAGTAAAATTAC
1 C-GAAATACCCTCGAAGGGTAAAATTAT
* * *
11608706 CGAAAT-GCATCTGAAGGATAAAATTAT
1 CGAAATACCCTC-GAAGGGTAAAATTAT
* *
11608733 CGAAATACCCTCAAAGGGTAAAATTAC
1 CGAAATACCCTCGAAGGGTAAAATTAT
* * *
11608760 CAAAATACCCCCAAAGGGTAAAATTA-
1 CGAAATACCCTCGAAGGGTAAAATTAT
* *
11608786 CTGAAATATCCCT-GAAGGGAAAAATGAT
1 C-GAAATA-CCCTCGAAGGGTAAAATTAT
11608814 CG
1 CG
11608816 TTATACCCCT
Statistics
Matches: 296, Mismatches: 43, Indels: 26
0.81 0.12 0.07
Matches are distributed among these distances:
25 2 0.01
26 29 0.10
27 253 0.85
28 12 0.04
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.21
Consensus pattern (27 bp):
CGAAATACCCTCGAAGGGTAAAATTAT
Found at i:11608823 original size:81 final size:81
Alignment explanation
Indices: 11608430--11608815 Score: 435
Period size: 81 Copynumber: 4.8 Consensus size: 81
11608420 AAAGGTTGTT
* * *
11608430 AAATGACCGAAATACCCTCGAAGGGTAAAATTA-TCGAAATA-CCCTCGAAGGGTAAAATTATCG
1 AAATTACCAAAATACCCTCAAAGGGTAAAATTACT-GAAATATCCCT-GAAGGGTAAAATTATCG
*
11608493 AAATACCCTCGAAGGGTA
64 AAATACCCTCAAAGGGTA
* * * * * ** *
11608511 AAATTATCGAAATACCCTCAAAGGGTAAAATTATTGAAATACCCCCGAAATGTAAAATTACCGAA
1 AAATTACCAAAATACCCTCAAAGGGTAAAATTACTGAAATATCCCTGAAGGGTAAAATTATCGAA
*
11608576 ATACCCT-GAAGGGTA
66 ATACCCTCAAAGGGTA
* *
11608591 AAATTACGAAAATACCCTCAAAGGGTAAAATTACTAAAATATACCC-GAAGGGTAAAATTA-CTG
1 AAATTACCAAAATACCCTCAAAGGGTAAAATTACTGAAATAT-CCCTGAAGGGTAAAATTATC-G
* *
11608654 AAATAACCTCAAGGGGTA
64 AAATACCCTCAAAGGGTA
* * ** * *
11608672 AAATTACAAAAATACCCTTAAATAGTAAAATTACCGAAATGCAT--CTGAAGGATAAAATTATCG
1 AAATTACCAAAATACCCTCAAAGGGTAAAATTACTGAAAT--ATCCCTGAAGGGTAAAATTATCG
11608735 AAATACCCTCAAAGGGTA
64 AAATACCCTCAAAGGGTA
* * *
11608753 AAATTACCAAAATACCCCCAAAGGGTAAAATTACTGAAATATCCCTGAAGGGAAAAATGATCG
1 AAATTACCAAAATACCCTCAAAGGGTAAAATTACTGAAATATCCCTGAAGGGTAAAATTATCG
11608816 TTATACCCCT
Statistics
Matches: 258, Mismatches: 36, Indels: 22
0.82 0.11 0.07
Matches are distributed among these distances:
79 3 0.01
80 66 0.26
81 182 0.71
82 5 0.02
83 2 0.01
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.21
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCAAAGGGTAAAATTACTGAAATATCCCTGAAGGGTAAAATTATCGAA
ATACCCTCAAAGGGTA
Found at i:11632661 original size:23 final size:21
Alignment explanation
Indices: 11632617--11632659 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
11632607 GGTACGGTTG
11632617 ATATTGTTTTATTATGTTAAA
1 ATATTGTTTTATTATGTTAAA
11632638 ATATATGTTTTATTA-GTTAAA
1 ATAT-TGTTTTATTATGTTAAA
11632659 A
1 A
11632660 AAATTAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.53
Consensus pattern (21 bp):
ATATTGTTTTATTATGTTAAA
Found at i:11633530 original size:26 final size:26
Alignment explanation
Indices: 11633501--11633689 Score: 155
Period size: 26 Copynumber: 7.3 Consensus size: 26
11633491 TGTACCTGAA
* *
11633501 TAGCAGGCTTTGAGCCGATGAGTATT
1 TAGCAGGCTTTGAGCCGGTGATTATT
* * * ** *
11633527 TAGCTA-GCCTTAAGACAATGATTACT
1 TAGC-AGGCTTTGAGCCGGTGATTATT
* *
11633553 TAGCAGTCTATGAGCCGGTGATTATT
1 TAGCAGGCTTTGAGCCGGTGATTATT
* * * *
11633579 TAGCAGGCCTTGCGCCAGTGATTACT
1 TAGCAGGCTTTGAGCCGGTGATTATT
* * * *
11633605 TAGCAGGCTATGAGTCGGTGTTTAAT
1 TAGCAGGCTTTGAGCCGGTGATTATT
* * *
11633631 TAGCAGGCTTTGAACCGGTGTTTATG
1 TAGCAGGCTTTGAGCCGGTGATTATT
*
11633657 TAGCAGGCTTTGAGCCGGTGAATATT
1 TAGCAGGCTTTGAGCCGGTGATTATT
*
11633683 TAACAGG
1 TAGCAGG
11633690 TATTATGTAC
Statistics
Matches: 124, Mismatches: 37, Indels: 4
0.75 0.22 0.02
Matches are distributed among these distances:
25 1 0.01
26 122 0.98
27 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (26 bp):
TAGCAGGCTTTGAGCCGGTGATTATT
Found at i:11641877 original size:42 final size:42
Alignment explanation
Indices: 11641792--11641923 Score: 117
Period size: 42 Copynumber: 3.2 Consensus size: 42
11641782 TCTCATGAGC
* * * * *
11641792 TTCAGTT-AACTCATATGAGTTTCAATTTAAC-CTTAATAAGT
1 TTCAGTTCAACTCTTATGAGCTTCAGTTCAACACTT-ATAGGT
* * *
11641833 TTCAGTTCAACTCTT-TCGAGCTTCAGTTTAACACTTCTGGGT
1 TTCAGTTCAACTCTTAT-GAGCTTCAGTTCAACACTTATAGGT
* * * *
11641875 TTCCGTTCAGCTCTTATGAGCTTCCGTTCAACCCTTATAGGT
1 TTCAGTTCAACTCTTATGAGCTTCAGTTCAACACTTATAGGT
11641917 TTCAGTT
1 TTCAGTT
11641924 TAGCACTTGT
Statistics
Matches: 73, Mismatches: 14, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
41 8 0.11
42 61 0.84
43 4 0.05
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (42 bp):
TTCAGTTCAACTCTTATGAGCTTCAGTTCAACACTTATAGGT
Found at i:11645374 original size:57 final size:57
Alignment explanation
Indices: 11645281--11645396 Score: 205
Period size: 57 Copynumber: 2.0 Consensus size: 57
11645271 TTAATGTGTG
* *
11645281 TAAGTCCCTCAGAAAGGTTCAGTTGTACTATTAGTAATATTTTGTATGATATTCTTT
1 TAAGTCCCTCAGAAAGGTTCAGTTGTACTATCAGTAATATTATGTATGATATTCTTT
*
11645338 TAAGTCCCTCAGAAAGGTTCAGTTGTACTATCAGTAATATTATGTATGGTATTCTTT
1 TAAGTCCCTCAGAAAGGTTCAGTTGTACTATCAGTAATATTATGTATGATATTCTTT
11645395 TA
1 TA
11645397 GGAACTCACT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.42
Consensus pattern (57 bp):
TAAGTCCCTCAGAAAGGTTCAGTTGTACTATCAGTAATATTATGTATGATATTCTTT
Found at i:11646271 original size:33 final size:33
Alignment explanation
Indices: 11646234--11646300 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
11646224 TAGCAGTCCA
* *
11646234 AGCAGATTGACCTCCTTGAGCAGCGGCAGTTAG
1 AGCAGATCGACCGCCTTGAGCAGCGGCAGTTAG
*
11646267 AGCAGATCGACCGCCTTGAGCAGCGGTAGTTAG
1 AGCAGATCGACCGCCTTGAGCAGCGGCAGTTAG
11646300 A
1 A
11646301 TCGGCTCAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.25, C:0.24, G:0.31, T:0.19
Consensus pattern (33 bp):
AGCAGATCGACCGCCTTGAGCAGCGGCAGTTAG
Found at i:11646317 original size:33 final size:33
Alignment explanation
Indices: 11646247--11646321 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 33
11646237 AGATTGACCT
* *
11646247 CCTTGAGCAGCGGCAGTTAGAGCAGATCGACCG
1 CCTTGAGCAGCGGCAGTTAGAGCAGATCAACCA
* * * * *
11646280 CCTTGAGCAGCGGTAGTTAGATCGGCTCAATCA
1 CCTTGAGCAGCGGCAGTTAGAGCAGATCAACCA
11646313 CCTTGAGCA
1 CCTTGAGCA
11646322 ATGACATTCA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.24, C:0.27, G:0.29, T:0.20
Consensus pattern (33 bp):
CCTTGAGCAGCGGCAGTTAGAGCAGATCAACCA
Found at i:11647337 original size:41 final size:41
Alignment explanation
Indices: 11647280--11647359 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
11647270 ATGATAGAGG
11647280 CACTTAGGATTTAACCTACTTAACCTTTAACACAACTTAGC
1 CACTTAGGATTTAACCTACTTAACCTTTAACACAACTTAGC
*
11647321 CACTTAGGATTTAACCTACTTAACCTTTAACATAACTTA
1 CACTTAGGATTTAACCTACTTAACCTTTAACACAACTTA
11647360 CCTATTGAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (41 bp):
CACTTAGGATTTAACCTACTTAACCTTTAACACAACTTAGC
Found at i:11650536 original size:19 final size:18
Alignment explanation
Indices: 11650503--11650555 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
11650493 TAATAAATAA
*
11650503 TAAATTTTAGA-AAAATTAT
1 TAAATTTTA-ATAAAAAT-T
11650522 TAAATTTTAATAAAAATT
1 TAAATTTTAATAAAAATT
* *
11650540 TAAAATTTATTAAAAA
1 TAAATTTTAATAAAAA
11650556 ATAGATTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 16 0.53
19 14 0.47
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
TAAATTTTAATAAAAATT
Found at i:11650852 original size:29 final size:30
Alignment explanation
Indices: 11650820--11650882 Score: 101
Period size: 29 Copynumber: 2.1 Consensus size: 30
11650810 TCCTTACGAC
* *
11650820 TTTATAAAATTTTATAA-TTTTTTATGTTT
1 TTTATAAAATTTTACAATTTTTTTATATTT
11650849 TTTATAAAATTTTACAATTTTTTTATATTT
1 TTTATAAAATTTTACAATTTTTTTATATTT
11650879 TTTA
1 TTTA
11650883 CGATTTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 16 0.52
30 15 0.48
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (30 bp):
TTTATAAAATTTTACAATTTTTTTATATTT
Found at i:11650853 original size:19 final size:18
Alignment explanation
Indices: 11650829--11650918 Score: 56
Period size: 18 Copynumber: 4.7 Consensus size: 18
11650819 CTTTATAAAA
11650829 TTTTATAATTTTTTATGTT
1 TTTTAT-ATTTTTTATGTT
**
11650848 TTTTATAAAATTTTACAAT-TT
1 TTTTAT---ATTTT-TTATGTT
* *
11650869 TTTTATATTTTTTACGAT
1 TTTTATATTTTTTATGTT
* *
11650887 TTTTATATTTTTTCTAATT
1 TTTTATATTTTTTAT-GTT
*
11650906 TTTAATATTTTTT
1 TTTTATATTTTTT
11650919 TAATATTTTA
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
17 1 0.02
18 19 0.35
19 19 0.35
21 14 0.25
22 2 0.04
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTTATATTTTTTATGTT
Found at i:11650879 original size:9 final size:9
Alignment explanation
Indices: 11650867--11650937 Score: 58
Period size: 9 Copynumber: 7.9 Consensus size: 9
11650857 ATTTTACAAT
11650867 TTTTTTATA
1 TTTTTTATA
*
11650876 TTTTTTACGA
1 TTTTTTA-TA
11650886 -TTTTTATA
1 TTTTTTATA
*
11650894 TTTTTTCTAA
1 TTTTTTAT-A
*
11650904 TTTTTAATA
1 TTTTTTATA
11650913 TTTTTT-TAA
1 TTTTTTAT-A
*
11650922 TATTTTA-A
1 TTTTTTATA
11650930 TTTTTTAT
1 TTTTTTAT
11650938 TAAAAGTTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 12
0.71 0.12 0.18
Matches are distributed among these distances:
8 9 0.19
9 31 0.65
10 8 0.17
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (9 bp):
TTTTTTATA
Found at i:11650889 original size:18 final size:18
Alignment explanation
Indices: 11650868--11650935 Score: 79
Period size: 18 Copynumber: 3.8 Consensus size: 18
11650858 TTTTACAATT
*
11650868 TTTTTATATTTTTTAC-GA
1 TTTTTATATTTTTT-CTAA
11650886 TTTTTATATTTTTTCTAA
1 TTTTTATATTTTTTCTAA
11650904 TTTTTAATATTTTTT-TAA
1 TTTTT-ATATTTTTTCTAA
11650922 TATTTTA-ATTTTTT
1 T-TTTTATATTTTTT
11650936 ATTAAAAGTT
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
17 8 0.17
18 25 0.54
19 13 0.28
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (18 bp):
TTTTTATATTTTTTCTAA
Found at i:11650927 original size:19 final size:19
Alignment explanation
Indices: 11650885--11650940 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
11650875 ATTTTTTACG
*
11650885 ATTTTTATATTTTTTCTAAT
1 ATTTTAATATTTTTT-TAAT
11650905 -TTTTAATATTTTTTTAAT
1 ATTTTAATATTTTTTTAAT
11650923 ATTTTAAT-TTTTTATTAA
1 ATTTTAATATTTTT-TTAA
11650941 AAGTTAATAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
18 9 0.27
19 24 0.73
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTTAATATTTTTTTAAT
Found at i:11655765 original size:16 final size:16
Alignment explanation
Indices: 11655744--11655775 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11655734 TATTACTGTC
11655744 TACTATCATGCTGCGA
1 TACTATCATGCTGCGA
11655760 TACTATCATGCTGCGA
1 TACTATCATGCTGCGA
11655776 AGTAAATCTG
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:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (16 bp):
TACTATCATGCTGCGA
Found at i:11657190 original size:25 final size:23
Alignment explanation
Indices: 11657144--11657190 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
11657134 TAAACTTAAT
**
11657144 TAAAATTAAAATTTTATCTAGAG
1 TAAAATTAAAATTTTAAATAGAG
11657167 TAAAATTCAAAATTTTTAAATAGA
1 TAAAATT-AAAA-TTTTAAATAGA
11657191 TGACATAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
24 4 0.20
25 9 0.45
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.38
Consensus pattern (23 bp):
TAAAATTAAAATTTTAAATAGAG
Found at i:11680172 original size:17 final size:17
Alignment explanation
Indices: 11680139--11680170 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11680129 ATTTTATAAG
11680139 ATTTTATAACATATTTA
1 ATTTTATAACATATTTA
11680156 ATTTTATAA-ATATTT
1 ATTTTATAACATATTT
11680171 TATTATAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTATAACATATTTA
Found at i:11680188 original size:24 final size:21
Alignment explanation
Indices: 11680151--11680211 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 21
11680141 TTTATAACAT
*
11680151 ATTTAATTTTATAAATATTTT
1 ATTTAATTTTATAAATATTTG
11680172 ATTATAACATTTTATAATATATTTG
1 ATT-T-A-ATTTTATAA-ATATTTG
11680197 ATTTAATTTTATAAA
1 ATTTAATTTTATAAA
11680212 AAATCAACAT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
21 4 0.11
22 10 0.29
23 2 0.06
24 10 0.29
25 9 0.26
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTTAATTTTATAAATATTTG
Found at i:11686346 original size:5 final size:5
Alignment explanation
Indices: 11686336--11686372 Score: 65
Period size: 5 Copynumber: 7.2 Consensus size: 5
11686326 ATTATTTATG
11686336 ATTAA ATTAA ATTAA ATTTAA ATTAA ATTAA ATTAA A
1 ATTAA ATTAA ATTAA A-TTAA ATTAA ATTAA ATTAA A
11686373 CATTGAAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 26 0.84
6 5 0.16
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATTAA
Found at i:11686358 original size:16 final size:16
Alignment explanation
Indices: 11686337--11686369 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
11686327 TTATTTATGA
11686337 TTAAATTAAATTAAAT
1 TTAAATTAAATTAAAT
11686353 TTAAATTAAATTAAAT
1 TTAAATTAAATTAAAT
11686369 T
1 T
11686370 AAACATTGAA
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:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAATTAAATTAAAT
Found at i:11689109 original size:59 final size:59
Alignment explanation
Indices: 11689017--11689133 Score: 191
Period size: 59 Copynumber: 2.0 Consensus size: 59
11689007 ATTGATTTAT
11689017 TTTTGAATATTTTTGTACCAATTATTTTTATATTGTTTCAATTAATAAAATAGAAGTTC
1 TTTTGAATATTTTTGTACCAATTATTTTTATATTGTTTCAATTAATAAAATAGAAGTTC
* * *
11689076 TTTTGAATATTTTTGTA-CAATTTATTTTTATATTGTTTCATTTAATAAATTGGAAGTT
1 TTTTGAATATTTTTGTACCAA-TTATTTTTATATTGTTTCAATTAATAAAATAGAAGTT
11689134 ATTTCTATGT
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
58 3 0.06
59 51 0.94
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.54
Consensus pattern (59 bp):
TTTTGAATATTTTTGTACCAATTATTTTTATATTGTTTCAATTAATAAAATAGAAGTTC
Found at i:11692246 original size:29 final size:29
Alignment explanation
Indices: 11692213--11692283 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 29
11692203 TTAAAATAAA
11692213 TTTTTCAGAACACATCA-CGTCAAATTTAT
1 TTTTTCAGAACACAT-ATCGTCAAATTTAT
* * * *
11692242 TTTTTCATATCCCATATTGTCAAATTTAT
1 TTTTTCAGAACACATATCGTCAAATTTAT
*
11692271 TTCTTCCAGAACA
1 TT-TTTCAGAACA
11692284 ATACATAGCA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
28 1 0.03
29 25 0.78
30 6 0.19
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (29 bp):
TTTTTCAGAACACATATCGTCAAATTTAT
Found at i:11693609 original size:31 final size:30
Alignment explanation
Indices: 11693569--11693639 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 30
11693559 TAGTTTCGTG
* * *
11693569 ATTTAAATTT-AAGATTTAATGTTTACATTAA
1 ATTTTAATTTCAA-ATTT-ATGTTTAAATAAA
11693600 ATTTTAATTTTCAAATTTATGTTTAAATAAA
1 ATTTTAA-TTTCAAATTTATGTTTAAATAAA
11693631 ATTATTAAT
1 ATT-TTAAT
11693640 AATTATTTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
31 21 0.62
32 11 0.32
33 2 0.06
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (30 bp):
ATTTTAATTTCAAATTTATGTTTAAATAAA
Found at i:11695504 original size:12 final size:12
Alignment explanation
Indices: 11695487--11695521 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
11695477 CGACCTGCCC
11695487 ATATTAATTTTT
1 ATATTAATTTTT
11695499 ATATT-ATTTTT
1 ATATTAATTTTT
11695510 ATA-TAATTTTT
1 ATATTAATTTTT
11695521 A
1 A
11695522 AATATATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 16 0.73
12 5 0.23
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:11695677 original size:30 final size:30
Alignment explanation
Indices: 11695643--11695705 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
11695633 ACTTAACGAG
*
11695643 CAAATA-CTTCTAAAATAACAATAAAATTAA
1 CAAATACCTT-TAAAATAACAACAAAATTAA
*
11695673 CAAATACCTTTAAAATAATAACAAAATTAA
1 CAAATACCTTTAAAATAACAACAAAATTAA
11695703 CAA
1 CAA
11695706 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 27 0.90
31 3 0.10
ACGTcount: A:0.60, C:0.14, G:0.00, T:0.25
Consensus pattern (30 bp):
CAAATACCTTTAAAATAACAACAAAATTAA
Found at i:11696299 original size:29 final size:30
Alignment explanation
Indices: 11696254--11696320 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
11696244 AAGTATATTT
* *
11696254 TTAAATCTATAAAGTT-GAGAGATTAAATTC
1 TTAAATGTATAAAGTTGGA-AGACTAAATTC
11696284 TTAAATGTA-AAAGTTGGAAGACTAAATTC
1 TTAAATGTATAAAGTTGGAAGACTAAATTC
*
11696313 -CAAATGTA
1 TTAAATGTA
11696321 CGAAGTGTAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 7 0.21
29 16 0.48
30 10 0.30
ACGTcount: A:0.45, C:0.07, G:0.15, T:0.33
Consensus pattern (30 bp):
TTAAATGTATAAAGTTGGAAGACTAAATTC
Found at i:11703071 original size:23 final size:23
Alignment explanation
Indices: 11703027--11703072 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
11703017 TTAATGTCCG
* *
11703027 TGAACATGTTCGATTAAGTTAAA
1 TGAACATGTTCGATGAAATTAAA
11703050 TGAACATGTTCG-TGAACATTAAA
1 TGAACATGTTCGATGAA-ATTAAA
11703073 CAAATGAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (23 bp):
TGAACATGTTCGATGAAATTAAA
Found at i:11706041 original size:61 final size:61
Alignment explanation
Indices: 11705938--11706063 Score: 184
Period size: 61 Copynumber: 2.1 Consensus size: 61
11705928 GAAGAACACA
* * * *
11705938 ATAAACACTAATAAGAAAATGGTCTTGATCTTAACTCTAATATATCTTTCATACTCAAAAC
1 ATAAACACTAACAAGAAAATGATCTTGATCTCAACTCTAATATACCTTTCATACTCAAAAC
*
11705999 ATAAACACTAACAAGAAAATGATCTTGATCTCAACT-TCAATATACCTTTCATACTGAAAAC
1 ATAAACACTAACAAGAAAATGATCTTGATCTCAACTCT-AATATACCTTTCATACTCAAAAC
11706060 -TAAA
1 ATAAA
11706064 AGTTATTTAT
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
60 5 0.08
61 54 0.92
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.30
Consensus pattern (61 bp):
ATAAACACTAACAAGAAAATGATCTTGATCTCAACTCTAATATACCTTTCATACTCAAAAC
Found at i:11712172 original size:42 final size:42
Alignment explanation
Indices: 11712113--11712197 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
11712103 GATTTAATTC
*
11712113 TATATATTATTCACTCTCTAATTCATTTTATACTATCCTTGG
1 TATATATCATTCACTCTCTAATTCATTTTATACTATCCTTGG
11712155 TATATATCATTCACTCTCTAATTCATTTTATACTATCCTTGG
1 TATATATCATTCACTCTCTAATTCATTTTATACTATCCTTGG
11712197 T
1 T
11712198 GATTTTTCAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.26, C:0.20, G:0.05, T:0.49
Consensus pattern (42 bp):
TATATATCATTCACTCTCTAATTCATTTTATACTATCCTTGG
Found at i:11713053 original size:49 final size:49
Alignment explanation
Indices: 11712901--11713064 Score: 224
Period size: 49 Copynumber: 3.3 Consensus size: 49
11712891 ATATCCGGAC
*
11712901 ATGGTCTTACATGGGATGTTTCTTGTACTGCCAATGCCATATCCCAAAT
1 ATGGTCTTACACGGGATGTTTCTTGTACTGCCAATGCCATATCCCAAAT
* * * * *
11712950 ATGGTCTTACACGGGA-G-TTCTTATATCGGTGCCCATGCCATGTCCCAGAC
1 ATGGTCTTACACGGGATGTTTCTTGTA-C--TGCCAATGCCATATCCCAAAT
*
11713000 ATGGTCTTACATGGGATGTTTCTTGTACTGCCAATGCCATATCCCAAAT
1 ATGGTCTTACACGGGATGTTTCTTGTACTGCCAATGCCATATCCCAAAT
11713049 ATGGTCTTACACGGGA
1 ATGGTCTTACACGGGA
11713065 GTTCTTATAT
Statistics
Matches: 97, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
47 7 0.07
48 2 0.02
49 47 0.48
50 32 0.33
51 2 0.02
52 7 0.07
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (49 bp):
ATGGTCTTACACGGGATGTTTCTTGTACTGCCAATGCCATATCCCAAAT
Found at i:11713069 original size:99 final size:99
Alignment explanation
Indices: 11712898--11713103 Score: 412
Period size: 99 Copynumber: 2.1 Consensus size: 99
11712888 ACCATATCCG
11712898 GACATGGTCTTACATGGGATGTTTCTTGTACTGCCAATGCCATATCCCAAATATGGTCTTACACG
1 GACATGGTCTTACATGGGATGTTTCTTGTACTGCCAATGCCATATCCCAAATATGGTCTTACACG
11712963 GGAGTTCTTATATCGGTGCCCATGCCATGTCCCA
66 GGAGTTCTTATATCGGTGCCCATGCCATGTCCCA
11712997 GACATGGTCTTACATGGGATGTTTCTTGTACTGCCAATGCCATATCCCAAATATGGTCTTACACG
1 GACATGGTCTTACATGGGATGTTTCTTGTACTGCCAATGCCATATCCCAAATATGGTCTTACACG
11713062 GGAGTTCTTATATCGGTGCCCATGCCATGTCCCA
66 GGAGTTCTTATATCGGTGCCCATGCCATGTCCCA
11713096 GACATGGT
1 GACATGGT
11713104 TTTATGGGGG
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 107 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (99 bp):
GACATGGTCTTACATGGGATGTTTCTTGTACTGCCAATGCCATATCCCAAATATGGTCTTACACG
GGAGTTCTTATATCGGTGCCCATGCCATGTCCCA
Found at i:11713216 original size:50 final size:50
Alignment explanation
Indices: 11712929--11713275 Score: 302
Period size: 50 Copynumber: 6.8 Consensus size: 50
11712919 TTTCTTGTAC
* * * * ** * *
11712929 TGCCAATGCCATATCCCAAATATGGTCTTACACGGGAGTTCTTATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* ** * * *
11712979 TGCCCATGCCATGTCCCAGACATGGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * * ** * *
11713028 TGCCAATGCCATATCCCAAATATGGTCTTACACGGGAGTTCTTATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * ***
11713078 TGCCCATGCCATGTCCCAGACATGGTTTTATGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
** *
11713128 TGCCAACACCATGTCCCAGACATGGTCTTCCATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
11713178 TGCCAACGCCATGTCCCAGACATGGTCTTACATAGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---GG
* *
11713234 CGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
11713276 TTACCCAAAT
Statistics
Matches: 238, Mismatches: 50, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
48 1 0.00
49 36 0.15
50 156 0.66
51 1 0.00
53 5 0.02
56 39 0.16
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:11713216 original size:100 final size:99
Alignment explanation
Indices: 11712898--11713222 Score: 319
Period size: 99 Copynumber: 3.3 Consensus size: 99
11712888 ACCATATCCG
** * * * ** *
11712898 GACATGGTCTTACATGGGATGTTTCTTGTACTGCCAATGCCATATCCCAAATATGGTCTTACACG
1 GACATGGTCTTACATGGGACCTCTCATCTACTGCCAACACCATATCCCAAACATGGTCTTACACG
** *
11712963 GGAGTTCTTATATCGGTGCCCATGCCATGTCCCA
66 GGACCTCTCATATCGGTGCCCATGCCATGTCCCA
** * * * ** *
11712997 GACATGGTCTTACATGGGATGTTTCTTGTACTGCCAATGCCATATCCCAAATATGGTCTTACACG
1 GACATGGTCTTACATGGGACCTCTCATCTACTGCCAACACCATATCCCAAACATGGTCTTACACG
** *
11713062 GGAGTTCTTATATCGGTGCCCATGCCATGTCCCA
66 GGACCTCTCATATCGGTGCCCATGCCATGTCCCA
* *** * * *
11713096 GACATGGTTTTATGGGGGACCTCTCATCT-CGGTGCCAACACCATGTCCCAGACATGGTCTTCCA
1 GACATGGTCTTACATGGGACCTCTCATCTAC--TGCCAACACCATATCCCAAACATGGTCTTACA
* * * *
11713160 TGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCA
64 CGGGACCTCTCATATCGGTGCCCATGCCATGTCCCA
*
11713196 GACATGGTCTTACATAGGACCTCTCAT
1 GACATGGTCTTACATGGGACCTCTCAT
11713223 AATCTCAATG
Statistics
Matches: 197, Mismatches: 27, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
98 1 0.01
99 119 0.60
100 77 0.39
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.29
Consensus pattern (99 bp):
GACATGGTCTTACATGGGACCTCTCATCTACTGCCAACACCATATCCCAAACATGGTCTTACACG
GGACCTCTCATATCGGTGCCCATGCCATGTCCCA
Found at i:11713895 original size:21 final size:21
Alignment explanation
Indices: 11713869--11713912 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
11713859 ATAGCTTCAT
11713869 ATTCTACCATAAAACACCAAA
1 ATTCTACCATAAAACACCAAA
*
11713890 ATTCTACCATAAAACATCAAA
1 ATTCTACCATAAAACACCAAA
11713911 AT
1 AT
11713913 AAACATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.52, C:0.25, G:0.00, T:0.23
Consensus pattern (21 bp):
ATTCTACCATAAAACACCAAA
Found at i:11714388 original size:13 final size:13
Alignment explanation
Indices: 11714370--11714415 Score: 60
Period size: 13 Copynumber: 3.5 Consensus size: 13
11714360 GCCCAAACGT
11714370 CGAAATTTTCAAA
1 CGAAATTTTCAAA
11714383 CGAAATTTTCACAA
1 CGAAATTTTCA-AA
11714397 --AATATTTTCAAA
1 CGAA-ATTTTCAAA
11714409 CGAAATT
1 CGAAATT
11714416 GTAGACCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
12 4 0.14
13 21 0.72
14 4 0.14
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.33
Consensus pattern (13 bp):
CGAAATTTTCAAA
Found at i:11714990 original size:91 final size:91
Alignment explanation
Indices: 11714666--11714990 Score: 427
Period size: 91 Copynumber: 3.6 Consensus size: 91
11714656 TCTCTTCAAA
* * * *
11714666 CTGGTGTGTTATTGGTTGGAAAGCTCTTATGAGCAAATTGGCGTGTTATCAGGGAAGAATACTTA
1 CTGGTGTGTTATCGATTGGAAAGCTCTTATGAGCAAACTGGCGTGTTATCGGGGAAGAATACTTA
11714731 GCCTACGAGCTTTGCACCATGTGCAT
66 GCCTACGAGCTTTGCACCATGTGCAT
* * * * * **
11714757 CTGGTGTGTTATCGATTGGAAAGCTGTTATAAGTAAACTGACATGTTATCGAAGAAGAATACTTA
1 CTGGTGTGTTATCGATTGGAAAGCTCTTATGAGCAAACTGGCGTGTTATCGGGGAAGAATACTTA
* *
11714822 GCCTACGAGCTTTTCACTATGTGCAT
66 GCCTACGAGCTTTGCACCATGTGCAT
* *
11714848 CTGGTGTGTTATCGATTGGAAAGCTCTTATGAG-ATAACTAGCGTGTTATCGGGGGAGAATACTT
1 CTGGTGTGTTATCGATTGGAAAGCTCTTATGAGCA-AACTGGCGTGTTATCGGGGAAGAATACTT
*
11714912 GGCCTACGAGCTTTGCACCATGTGCAT
65 AGCCTACGAGCTTTGCACCATGTGCAT
* * * * * * *
11714939 TTGGCGTGTTATTGATTGGTAAGCCCTTATGAGCAATCTGGGGTGTTATCGG
1 CTGGTGTGTTATCGATTGGAAAGCTCTTATGAGCAAACTGGCGTGTTATCGG
11714991 ATGGTTACCC
Statistics
Matches: 200, Mismatches: 32, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
90 1 0.00
91 198 0.99
92 1 0.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (91 bp):
CTGGTGTGTTATCGATTGGAAAGCTCTTATGAGCAAACTGGCGTGTTATCGGGGAAGAATACTTA
GCCTACGAGCTTTGCACCATGTGCAT
Found at i:11717124 original size:30 final size:30
Alignment explanation
Indices: 11717067--11717131 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
11717057 TTGCTCAAAT
* * *
11717067 AAGCTGACATTATATTAGGGTTGCTCACAC
1 AAGCTGACATTATATCAAGGTTCCTCACAC
11717097 AAGCTGACATTATATCAAGGTTCCTCACAC
1 AAGCTGACATTATATCAAGGTTCCTCACAC
11717127 AAGCT
1 AAGCT
11717132 TGTTGGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (30 bp):
AAGCTGACATTATATCAAGGTTCCTCACAC
Found at i:11720588 original size:16 final size:16
Alignment explanation
Indices: 11720567--11720611 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 16
11720557 TCAAAATTTT
11720567 GTGAGTTAAAAGCATG
1 GTGAGTTAAAAGCATG
*
11720583 GTGAGTGTTAAAAGCATT
1 GTGA--GTTAAAAGCATG
11720601 GTGAG-TAAAAG
1 GTGAGTTAAAAG
11720612 AATGAAAGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 6 0.23
16 5 0.19
18 15 0.58
ACGTcount: A:0.38, C:0.04, G:0.31, T:0.27
Consensus pattern (16 bp):
GTGAGTTAAAAGCATG
Found at i:11720594 original size:18 final size:18
Alignment explanation
Indices: 11720571--11720606 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
11720561 AATTTTGTGA
11720571 GTTAAAAGCATGGTGAGT
1 GTTAAAAGCATGGTGAGT
*
11720589 GTTAAAAGCATTGTGAGT
1 GTTAAAAGCATGGTGAGT
11720607 AAAAGAATGA
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:0.33, C:0.06, G:0.31, T:0.31
Consensus pattern (18 bp):
GTTAAAAGCATGGTGAGT
Found at i:11720632 original size:20 final size:23
Alignment explanation
Indices: 11720593--11720633 Score: 61
Period size: 20 Copynumber: 1.9 Consensus size: 23
11720583 GTGAGTGTTA
11720593 AAAGCATTGTGAGTAAAAGAATG
1 AAAGCATTGTGAGTAAAAGAATG
11720616 AAAG-ATTGT-AG-AAAAGAA
1 AAAGCATTGTGAGTAAAAGAA
11720634 AGCTCAAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
22 5 0.28
23 4 0.22
ACGTcount: A:0.54, C:0.02, G:0.24, T:0.20
Consensus pattern (23 bp):
AAAGCATTGTGAGTAAAAGAATG
Found at i:11726037 original size:23 final size:23
Alignment explanation
Indices: 11726009--11726052 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
11725999 GGTACCTGAC
* *
11726009 ACGACACATAAATTTCCTGATGT
1 ACGACACATAAAGTGCCTGATGT
11726032 ACGACACATAAAGTGCCTGAT
1 ACGACACATAAAGTGCCTGAT
11726053 CGGCAAAGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.25
Consensus pattern (23 bp):
ACGACACATAAAGTGCCTGATGT
Found at i:11726273 original size:18 final size:18
Alignment explanation
Indices: 11726250--11726290 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
11726240 ATACTTTTCA
*
11726250 AATTCATATTTCA-AATTC
1 AATTCAT-TATCATAATTC
11726268 AATTCATTATCATAATTC
1 AATTCATTATCATAATTC
11726286 AATTC
1 AATTC
11726291 CAATTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.39, C:0.17, G:0.00, T:0.44
Consensus pattern (18 bp):
AATTCATTATCATAATTC
Found at i:11726586 original size:6 final size:6
Alignment explanation
Indices: 11726575--11726611 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
11726565 TAGTTTTTCC
11726575 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT T
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT T
11726612 CTTTCTTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTCTT
Found at i:11726589 original size:18 final size:17
Alignment explanation
Indices: 11726568--11726615 Score: 71
Period size: 18 Copynumber: 2.8 Consensus size: 17
11726558 TAAACCCTAG
11726568 TTTTTCCTTTCTTTTTC
1 TTTTTCCTTTCTTTTTC
*
11726585 TTTTTCTTTTTCTTTTTC
1 TTTTTC-CTTTCTTTTTC
11726603 TTTTT-CTTTCTTT
1 TTTTTCCTTTCTTT
11726616 CTTTCTCCCA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 7 0.25
17 6 0.21
18 15 0.54
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTCCTTTCTTTTTC
Found at i:11726620 original size:18 final size:17
Alignment explanation
Indices: 11726568--11726621 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
11726558 TAAACCCTAG
11726568 TTTTTCCTTTC-TTTTTC
1 TTTTT-CTTTCTTTTTTC
*
11726585 TTTTTCTTTTTCTTTTTC
1 TTTTTCTTTCT-TTTTTC
11726603 TTTTTCTTTCTTTCTTTC
1 TTTTTCTTTCTTT-TTTC
11726621 T
1 T
11726622 CCCATGTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 4 0.12
17 7 0.22
18 21 0.66
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTTCTTTCTTTTTTC
Found at i:11728150 original size:17 final size:17
Alignment explanation
Indices: 11728128--11728179 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
11728118 ATATAATACT
11728128 ATTAAAATAAGTATTAA-
1 ATTAAAATAA-TATTAAC
*
11728145 ATTAAATTAAATATTAACC
1 ATTAAAAT-AATATTAA-C
11728164 TATTAAAATAATATTA
1 -ATTAAAATAATATTA
11728180 TTTTTGGAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
17 13 0.45
18 2 0.07
19 7 0.24
20 7 0.24
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (17 bp):
ATTAAAATAATATTAAC
Found at i:11728151 original size:36 final size:36
Alignment explanation
Indices: 11728111--11728179 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 36
11728101 ACTTTAATAG
11728111 TAAATT-AATA-TAATACTATTAAAATAAGTATTAAAT
1 TAAATTAAATATTAA-ACTATTAAAATAA-TATTAAAT
*
11728147 TAAATTAAATATTAACCTATTAAAATAATATTA
1 TAAATTAAATATTAAACTATTAAAATAATATTA
11728180 TTTTTGGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
36 11 0.37
37 16 0.53
38 3 0.10
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.39
Consensus pattern (36 bp):
TAAATTAAATATTAAACTATTAAAATAATATTAAAT
Found at i:11736027 original size:19 final size:19
Alignment explanation
Indices: 11736005--11736095 Score: 76
Period size: 19 Copynumber: 4.7 Consensus size: 19
11735995 CACGTAAAGT
*
11736005 GCATACTGGCACTCGAAGC
1 GCATACTGGCACACGAAGC
** * *
11736024 GCATCACTGGTGCACAAAAC
1 GCAT-ACTGGCACACGAAGC
* *
11736044 GCATATTGGCACACGAAGT
1 GCATACTGGCACACGAAGC
* *
11736063 GCAT-CTTGAAGCACGAAGC
1 GCATACTGGCA-CACGAAGC
11736082 GCATACTGGCACAC
1 GCATACTGGCACAC
11736096 TAAGTTCTTA
Statistics
Matches: 52, Mismatches: 17, Indels: 6
0.69 0.23 0.08
Matches are distributed among these distances:
18 3 0.06
19 31 0.60
20 18 0.35
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (19 bp):
GCATACTGGCACACGAAGC
Found at i:11736094 original size:38 final size:39
Alignment explanation
Indices: 11736005--11736100 Score: 104
Period size: 38 Copynumber: 2.5 Consensus size: 39
11735995 CACGTAAAGT
* * **
11736005 GCATACTGGCACTCGAAGCGCATCACTGGTGCACAAAAC
1 GCATACTGGCACACGAAGTGCATCACTGAAGCACAAAAC
* * * *
11736044 GCATATTGGCACACGAAGTGCATC-TTGAAGCACGAAGC
1 GCATACTGGCACACGAAGTGCATCACTGAAGCACAAAAC
*
11736082 GCATACTGGCACACTAAGT
1 GCATACTGGCACACGAAGT
11736101 TCTTACTAGC
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
38 26 0.55
39 21 0.45
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.18
Consensus pattern (39 bp):
GCATACTGGCACACGAAGTGCATCACTGAAGCACAAAAC
Found at i:11740035 original size:41 final size:41
Alignment explanation
Indices: 11739990--11740068 Score: 140
Period size: 41 Copynumber: 1.9 Consensus size: 41
11739980 ACTGGCACTT
11739990 AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCGGCATCA
1 AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCGGCATCA
* *
11740031 AGCCTTCTAGACTTAAAGTCTGAAATGTTTCACCGGCA
1 AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCGGCA
11740069 ATAAACCTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (41 bp):
AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCGGCATCA
Found at i:11740456 original size:74 final size:74
Alignment explanation
Indices: 11740372--11740524 Score: 193
Period size: 74 Copynumber: 2.1 Consensus size: 74
11740362 AATATACATA
* ** * *
11740372 CATAATCGAACCTCCCTTATACA-TATATAAATTTCATACTTAAACTCATTAC-AGAACATATAC
1 CATAATCGAACCT--CATATACACTATATAAATGGCATACCTAAACTCAATACAAGAACATATAC
11740435 ATGCATATTTG
64 ATGCATATTTG
* *
11740446 CATAATCGAACCTCATATACACTTGTATAAATGGCATACCTAAATTCAATACAAGAACATATACA
1 CATAATCGAACCTCATATACAC-TATATAAATGGCATACCTAAACTCAATACAAGAACATATACA
*
11740511 TGTATATTTG
65 TGCATATTTG
11740521 CATA
1 CATA
11740525 TTATAGATCC
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
72 7 0.10
74 36 0.53
75 25 0.37
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (74 bp):
CATAATCGAACCTCATATACACTATATAAATGGCATACCTAAACTCAATACAAGAACATATACAT
GCATATTTG
Found at i:11741480 original size:20 final size:20
Alignment explanation
Indices: 11741443--11741480 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
11741433 CAAAGCAACG
*
11741443 ATCACAAAAACGTAAAAATT
1 ATCACAAAAACGAAAAAATT
11741463 ATCA-AAAAACGAACAAAA
1 ATCACAAAAACGAA-AAAA
11741481 GACTAATCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.66, C:0.16, G:0.05, T:0.13
Consensus pattern (20 bp):
ATCACAAAAACGAAAAAATT
Found at i:11747044 original size:28 final size:26
Alignment explanation
Indices: 11746983--11747051 Score: 68
Period size: 25 Copynumber: 2.6 Consensus size: 26
11746973 TTTAATAATT
*
11746983 TTTATAATTTTTTT-TAAAATATAAA
1 TTTAAAATTTTTTTATAAAATATAAA
** *
11747008 TTTTCAATTTTTTTATAAATATTCTAAA
1 TTTAAAATTTTTTTATAAA-A-TATAAA
11747036 TTTAAAATTATTTTTA
1 TTTAAAATT-TTTTTA
11747052 ATTTTTGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 12 0.34
26 4 0.11
27 1 0.03
28 12 0.34
29 6 0.17
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (26 bp):
TTTAAAATTTTTTTATAAAATATAAA
Found at i:11747077 original size:20 final size:20
Alignment explanation
Indices: 11747039--11747076 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11747029 TTCTAAATTT
*
11747039 AAAATTATTTTTAATTTTTG
1 AAAATTATTTTGAATTTTTG
11747059 AAAATTATTTTG-ATTTTT
1 AAAATTATTTTGAATTTTT
11747077 TTTGTAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
AAAATTATTTTGAATTTTTG
Found at i:11747266 original size:14 final size:14
Alignment explanation
Indices: 11747247--11747276 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11747237 TGACACGAAT
11747247 AATTCGAATAACTC
1 AATTCGAATAACTC
*
11747261 AATTCGATTAACTC
1 AATTCGAATAACTC
11747275 AA
1 AA
11747277 AATTTGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (14 bp):
AATTCGAATAACTC
Found at i:11750030 original size:43 final size:42
Alignment explanation
Indices: 11749961--11750082 Score: 120
Period size: 43 Copynumber: 2.9 Consensus size: 42
11749951 TGATCACTCC
** * *
11749961 ACACGACCATGTGACCTATTTCGAATTGTACACGGTCTAGCG
1 ACACGACTGTGTGACCTATTTTGAATTGTACACGGTCTAGCA
* * * ** *
11750003 ACATGA-TCGTGTGACTCTATTTTGAATTATAGACGACCTGGCA
1 ACACGACT-GTGTGAC-CTATTTTGAATTGTACACGGTCTAGCA
11750046 ACACGACTGTGTGACCCTATTTTGAATTGTACACGGT
1 ACACGACTGTGTGA-CCTATTTTGAATTGTACACGGT
11750083 TTGGCCACAC
Statistics
Matches: 61, Mismatches: 15, Indels: 7
0.73 0.18 0.08
Matches are distributed among these distances:
42 11 0.18
43 48 0.79
44 2 0.03
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.30
Consensus pattern (42 bp):
ACACGACTGTGTGACCTATTTTGAATTGTACACGGTCTAGCA
Found at i:11755981 original size:20 final size:21
Alignment explanation
Indices: 11755956--11755995 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11755946 TTCACATTTC
*
11755956 TATCTTC-TTTTTTCTTTGTT
1 TATCTTCATTTTTACTTTGTT
11755976 TATCTTCATTTTTACTTTGT
1 TATCTTCATTTTTACTTTGT
11755996 GTTAAGTGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.10, C:0.15, G:0.05, T:0.70
Consensus pattern (21 bp):
TATCTTCATTTTTACTTTGTT
Found at i:11756402 original size:23 final size:21
Alignment explanation
Indices: 11756360--11756420 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
11756350 GCTATCTACA
*
11756360 AAATCAAATCTCTAAGATTAC
1 AAATCATATCTCTAAGATTAC
*
11756381 ATAATCATATCTTCTAATATTAC
1 A-AATCATATC-TCTAAGATTAC
*
11756404 AAGTCATATC-C-AAGATT
1 AAATCATATCTCTAAGATT
11756421 GCATATCCTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 5 0.15
20 1 0.03
21 1 0.03
22 16 0.47
23 11 0.32
ACGTcount: A:0.43, C:0.18, G:0.05, T:0.34
Consensus pattern (21 bp):
AAATCATATCTCTAAGATTAC
Found at i:11756410 original size:22 final size:23
Alignment explanation
Indices: 11756356--11756413 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
11756346 AAAAGCTATC
* *
11756356 TACAAAATCAAATC-TCTAAGAT
1 TACATAATCATATCTTCTAAGAT
*
11756378 TACATAATCATATCTTCTAATAT
1 TACATAATCATATCTTCTAAGAT
*
11756401 TACA-AGTCATATC
1 TACATAATCATATC
11756414 CAAGATTGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 20 0.65
23 11 0.35
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.34
Consensus pattern (23 bp):
TACATAATCATATCTTCTAAGAT
Found at i:11761657 original size:68 final size:68
Alignment explanation
Indices: 11761581--11761714 Score: 250
Period size: 68 Copynumber: 2.0 Consensus size: 68
11761571 ATGGAATCTT
*
11761581 ATATACATATACATTTTGAAAGTGATTTTTATTTATATAAATTGAGTGTTCAGGCTCAGTGCCTA
1 ATATACATATACATTTTGAAAGTGATTTGTATTTATATAAATTGAGTGTTCAGGCTCAGTGCCTA
11761646 GTA
66 GTA
*
11761649 ATATACATATACATTTTGAAAGTGATTTGTATTTATATAAATTGAGTGTTCAGGCTCGGTGCCTA
1 ATATACATATACATTTTGAAAGTGATTTGTATTTATATAAATTGAGTGTTCAGGCTCAGTGCCTA
11761714 G
66 G
11761715 CAGGCTTGAT
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.40
Consensus pattern (68 bp):
ATATACATATACATTTTGAAAGTGATTTGTATTTATATAAATTGAGTGTTCAGGCTCAGTGCCTA
GTA
Done.