Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 4 of 125
Found at i:1088555 original size:61 final size:61
Alignment explanation
Indices: 1088411--1088857 Score: 407
Period size: 61 Copynumber: 7.5 Consensus size: 61
1088401 ACAAATTGTA
* * *
1088411 TTTTTGGGTGTTGGCCAT-CAAATGGCCG-CAC-CTCTTATTTCTCGAG-AAAAAAATTCAAA-
1 TTTTTTGGTGTTGGCCATGC-AATGGCCGACACTC-CCT-TTTCTCGAGAAAAAAAATTTAAAT
1088470 TTTTTTGGTGTTGGCCAT-CAAATGGCCGACACTCCCTTTTCTCGAGAAAAAAAATTTAAAT
1 TTTTTTGGTGTTGGCCATGC-AATGGCCGACACTCCCTTTTCTCGAGAAAAAAAATTTAAAT
* * * *
1088531 TTTTTTGGTATTGGCCATGCAATGGCCGACACCCCCTTTTTCTTGAGAAAAAAATTTTAAAT
1 TTTTTTGGTGTTGGCCATGCAATGGCCGACACTCCC-TTTTCTCGAGAAAAAAAATTTAAAT
* * ** ** * * *
1088593 TTTTTTTGTATTGGCC-TTAAATGATCGACACT-CC--TTAT--ATAAAAAAAA-TTACA-
1 TTTTTTGGTGTTGGCCATGCAATGGCCGACACTCCCTTTTCTCGAGAAAAAAAATTTAAAT
* * *
1088646 TTTTTGGGTGTTGGCCATTGC-ATGGCCGACAC-CCCTATT-TC-AAAAAAAAAATTGT--AT
1 TTTTTTGGTGTTGGCCA-TGCAATGGCCGACACTCCCTTTTCTCGAGAAAAAAAATT-TAAAT
* * * *
1088703 TTTTTGGGTGTTGGCCATTGC-ATAGCCGACACCCCCTATTTCTCGAGAAAAAAATTTTAAAT
1 TTTTTTGGTGTTGGCCA-TGCAATGGCCGACACTCCCT-TTTCTCGAGAAAAAAAATTTAAAT
* * *
1088765 TTTTTTTGTGTTGGCCATACAATGGCCGACACTCTCCTTTTCTCGAG-AAAAAAATTCAAAT
1 TTTTTTGGTGTTGGCCATGCAATGGCCGACACTC-CCTTTTCTCGAGAAAAAAAATTTAAAT
*
1088826 TTTTTTTGTGTTGGCCATGCAATGGCCGACAC
1 TTTTTTGGTGTTGGCCATGCAATGGCCGACAC
1088858 AATTCAAATT
Statistics
Matches: 328, Mismatches: 37, Indels: 44
0.80 0.09 0.11
Matches are distributed among these distances:
53 13 0.04
54 15 0.05
55 10 0.03
56 12 0.04
57 35 0.11
58 5 0.02
59 38 0.12
60 22 0.07
61 99 0.30
62 76 0.23
63 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (61 bp):
TTTTTTGGTGTTGGCCATGCAATGGCCGACACTCCCTTTTCTCGAGAAAAAAAATTTAAAT
Found at i:1088753 original size:172 final size:177
Alignment explanation
Indices: 1088457--1088857 Score: 476
Period size: 172 Copynumber: 2.3 Consensus size: 177
1088447 ATTTCTCGAG
* * *
1088457 AAAAAAATTCAAATTTTTTGGTGTTGGCCATCAAATGGCCGACACTCCCTTTTCTCGAGAAAAAA
1 AAAAAAATTCAAATTTTTGGGTGTTGGCCATCAAATGGCCGACACTCCCTATTCTCGAAAAAAAA
* * * *
1088522 AATTTAAATTTTTTTGGTATTGGCCATGCAATGGCCGACACCCCCTTTTTCTTGAGAAAAAAATT
66 AATTT-AATTTTTTGGGTATTGGCCATGCAATAGCCGACACCCCCTATTTCTCGAGAAAAAAATT
* *
1088587 TTAAATTTTTTTTGTATTGGCCTTA-AATGATCGACACTCCTTATATA
130 TTAAATTTTTTTTGTATTGGCCATACAATGACCGACACTCCTTATATA
* ***
1088634 AAAAAAATT-ACATTTTTGGGTGTTGGCCATTGCATGGCCGACAC-CCCTATT-TC-AAAAAAAA
1 AAAAAAATTCAAATTTTTGGGTGTTGGCCATCAAATGGCCGACACTCCCTATTCTCGAAAAAAAA
*
1088695 AATTGT-ATTTTTTGGGTGTTGGCCATTGC-ATAGCCGACACCCCCTATTTCTCGAGAAAAAAAT
66 AATT-TAATTTTTTGGGTATTGGCCA-TGCAATAGCCGACACCCCCTATTTCTCGAGAAAAAAAT
* * * *
1088758 TTTAAATTTTTTTTGTGTTGGCCATACAATGGCCGACACTCTCCTTTTCTCGA
129 TTTAAATTTTTTTTGTATTGGCCATACAATGACCGACA--CTCCTTATAT--A
**
1088811 GAAAAAAATTCAAATTTTTTTTGTGTTGGCCATGC-AATGGCCGACAC
1 -AAAAAAATTCAAA-TTTTTGGGTGTTGGCCAT-CAAATGGCCGACAC
1088858 AATTCAAATT
Statistics
Matches: 190, Mismatches: 23, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
172 72 0.38
173 23 0.12
174 3 0.02
175 14 0.07
176 30 0.16
177 10 0.05
178 9 0.05
179 2 0.01
180 27 0.14
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (177 bp):
AAAAAAATTCAAATTTTTGGGTGTTGGCCATCAAATGGCCGACACTCCCTATTCTCGAAAAAAAA
AATTTAATTTTTTGGGTATTGGCCATGCAATAGCCGACACCCCCTATTTCTCGAGAAAAAAATTT
TAAATTTTTTTTGTATTGGCCATACAATGACCGACACTCCTTATATA
Found at i:1088878 original size:41 final size:41
Alignment explanation
Indices: 1088817--1088898 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
1088807 TCGAGAAAAA
* *
1088817 AATTCAAATTTTTTTTGTGTTGGCCATGC-AATGGCCGACAC
1 AATTCAAATTTTTTTGGTGTTAGCCAT-CAAATGGCCGACAC
1088858 AATTCAAATTTTTTTGGTGTTAGCCATCAAATGGCCGACAC
1 AATTCAAATTTTTTTGGTGTTAGCCATCAAATGGCCGACAC
1088899 TCCCTTTTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 1 0.03
41 37 0.97
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (41 bp):
AATTCAAATTTTTTTGGTGTTAGCCATCAAATGGCCGACAC
Found at i:1088946 original size:62 final size:60
Alignment explanation
Indices: 1088858--1088994 Score: 213
Period size: 61 Copynumber: 2.3 Consensus size: 60
1088848 TGGCCGACAC
*
1088858 AATTCAAATTTTTTT-GGTGTTAGCCATCAAATGGCCGACACTCCCTTTTCTGGAGAAAAAA
1 AATTCAAATTTTTTTGGGTGTTAGCCATCAAATGGCCGACAC-CCCTTTTCTCGA-AAAAAA
* *
1088919 AATTCAAATTTTTTTGGGTGTTGGCCATCAAATGGCCGACACCCCTTTTCTCGAATAAAA
1 AATTCAAATTTTTTTGGGTGTTAGCCATCAAATGGCCGACACCCCTTTTCTCGAAAAAAA
*
1088979 AATTCCAATTTTTTTG
1 AATTCAAATTTTTTTG
1088995 TTTTGAAGTA
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
60 20 0.28
61 26 0.37
62 25 0.35
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (60 bp):
AATTCAAATTTTTTTGGGTGTTAGCCATCAAATGGCCGACACCCCTTTTCTCGAAAAAAA
Found at i:1088959 original size:103 final size:102
Alignment explanation
Indices: 1088761--1088960 Score: 307
Period size: 102 Copynumber: 2.0 Consensus size: 102
1088751 AAAAAATTTT
* *
1088761 AAATTTTTTTTGTGTTGGCCATACAATGGCCGACACTCTCCTTTTCTCGAGAAAAAAATTCAAAT
1 AAATTTTTTTGGTGTTAGCCATACAATGGCCGACACTCTCCTTTTCTCGAGAAAAAAATTCAAAT
*
1088826 TTTTTTTGTGTTGGCCATGCAATGGCCGACACAATTC
66 TTTTTTGGTGTTGGCCATGCAATGGCCGACACAATTC
*
1088863 AAATTTTTTTGGTGTTAGCCAT-CAAATGGCCGACACTC-CCTTTTCTGGAGAAAAAAAATTCAA
1 AAATTTTTTTGGTGTTAGCCATAC-AATGGCCGACACTCTCCTTTTCTCGAG-AAAAAAATTCAA
1088926 ATTTTTTTGGGTGTTGGCCAT-CAAATGGCCGACAC
64 ATTTTTTT-GGTGTTGGCCATGC-AATGGCCGACAC
1088961 CCCTTTTCTC
Statistics
Matches: 90, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
101 12 0.13
102 55 0.61
103 23 0.26
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (102 bp):
AAATTTTTTTGGTGTTAGCCATACAATGGCCGACACTCTCCTTTTCTCGAGAAAAAAATTCAAAT
TTTTTTGGTGTTGGCCATGCAATGGCCGACACAATTC
Found at i:1092464 original size:16 final size:17
Alignment explanation
Indices: 1092430--1092465 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
1092420 TGTGTAAAAA
*
1092430 TTAATTTGATAATTAAT
1 TTAAGTTGATAATTAAT
1092447 TTAAGTTGA-AATTAAT
1 TTAAGTTGATAATTAAT
1092463 TTA
1 TTA
1092466 GAAATTAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (17 bp):
TTAAGTTGATAATTAAT
Found at i:1092817 original size:82 final size:83
Alignment explanation
Indices: 1092605--1093209 Score: 842
Period size: 82 Copynumber: 7.3 Consensus size: 83
1092595 AAAAAGATAG
* * * * * * *
1092605 TTATTATATTACAATTTATATCAAATATTGTATTAATTTGACAATACATTATTTATCAAATTTTC
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTAT-TAATTTT-
* *
1092670 ATA--TTTAAAGTACAAATTA
64 ATATCTTTAAA-TAAAAATTT
* * * * *
1092689 TTATTATAATATAATTTTTATCATATAATGTATTAATTTAACAATACAATATTTATTAATTTTAT
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
**
1092754 ATCTTTAAAT-AATTTTT
66 ATCTTTAAATAAAAATTT
* *
1092771 TTATTATATTATAATTTTTATCATATAATGTGTTGATTTGATAATACAATATTTATTAATTTTAT
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
*
1092836 ATCTTTAAATAAAAATCT
66 ATCTTTAAATAAAAATTT
* * *
1092854 TTATTATATTACAATTTTTATCGTATAATGTGTTGATTTGATAATATAATATTTATTAATTTTAT
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
*
1092919 ATCTTTCAATAAAAATTT
66 ATCTTTAAATAAAAATTT
1092937 TTATTATATTACAA-TTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
**
1093001 ATCTTTAAATAAAAAAAT
66 ATCTTTAAATAAAAATTT
* * *
1093019 TTATTATATTACAATTTTTATAATATAAT-TGTTGATTTGATAATATAATATTTATTAATTTTAT
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
**
1093083 ATCTTTAAATAAAAAAAT
66 ATCTTTAAATAAAAATTT
* *
1093101 TTATTATATTATAATTTTTATCATATAATGTGTTGATTTGACAATATAATATTTATTAATTTTAT
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
*
1093166 ATCTTTAAATAAAAAATT
66 ATCTTTAAATAAAAATTT
*
1093184 TTATTGTATTACAATTTTTATCATAT
1 TTATTATATTACAATTTTTATCATAT
1093210 TTTATATTTA
Statistics
Matches: 476, Mismatches: 40, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
82 230 0.48
83 191 0.40
84 55 0.12
ACGTcount: A:0.40, C:0.05, G:0.04, T:0.51
Consensus pattern (83 bp):
TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
ATCTTTAAATAAAAATTT
Found at i:1092875 original size:165 final size:165
Alignment explanation
Indices: 1092605--1093209 Score: 860
Period size: 165 Copynumber: 3.7 Consensus size: 165
1092595 AAAAAGATAG
* * * * * * *
1092605 TTATTATATTACAATTTATATCAAATATTGTATTAATTTGACAATACATTATTTATCAAATTTTC
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTAT-TAATTTT-
* * * * * * *
1092670 ATA--TTTAAAGTACAAATTATTATTATAATATAATTTTTATCATATAATGTATTAATTTAACAA
64 ATATCTTTAAA-TAAAAATT-TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGATAA
* **
1092733 TACAATATTTATTAATTTTATATCTTTAAAT-AATTTTT
127 TATAATATTTATTAATTTTATATCTTTAAATAAAAATTT
* *
1092771 TTATTATATTATAATTTTTATCATATAATGTGTTGATTTGATAATACAATATTTATTAATTTTAT
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
*
1092836 ATCTTTAAATAAAAATCTTTATTATATTACAATTTTTATCGTATAATGTGTTGATTTGATAATAT
66 ATCTTTAAATAAAAAT-TTTATTATATTACAATTTTTATCATATAATGTGTTGATTTGATAATAT
*
1092901 AATATTTATTAATTTTATATCTTTCAATAAAAATTT
130 AATATTTATTAATTTTATATCTTTAAATAAAAATTT
1092937 TTATTATATTACAA-TTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
* *
1093001 ATCTTTAAATAAAAAAATTTATTATATTACAATTTTTATAATATAAT-TGTTGATTTGATAATAT
66 ATCTTTAAAT-AAAAATTTTATTATATTACAATTTTTATCATATAATGTGTTGATTTGATAATAT
**
1093065 AATATTTATTAATTTTATATCTTTAAATAAAAAAAT
130 AATATTTATTAATTTTATATCTTTAAATAAAAATTT
* *
1093101 TTATTATATTATAATTTTTATCATATAATGTGTTGATTTGACAATATAATATTTATTAATTTTAT
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
*
1093166 ATCTTTAAATAAAAAATTTTATTGTATTACAATTTTTATCATAT
66 ATCTTTAAAT-AAAAATTTTATTATATTACAATTTTTATCATAT
1093210 TTTATATTTA
Statistics
Matches: 399, Mismatches: 34, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
164 66 0.17
165 255 0.64
166 78 0.20
ACGTcount: A:0.40, C:0.05, G:0.04, T:0.51
Consensus pattern (165 bp):
TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATACAATATTTATTAATTTTAT
ATCTTTAAATAAAAATTTTATTATATTACAATTTTTATCATATAATGTGTTGATTTGATAATATA
ATATTTATTAATTTTATATCTTTAAATAAAAATTT
Found at i:1093054 original size:247 final size:248
Alignment explanation
Indices: 1092605--1093209 Score: 876
Period size: 247 Copynumber: 2.4 Consensus size: 248
1092595 AAAAAGATAG
* * * * * * * *
1092605 TTATTATATTACAATTTATATCAAATATTGTATTAATTTGACAATACATTATTTATCAAATTTTC
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATATAATATTTAT-TAATTTT-
* * * *
1092670 ATA--TTTAAAGTACAAATTATTATTATAATATAATTTTTATCATATAATGTATTAATTTAACAA
64 ATATCTTTAAA-TAAAAATTTTTATTATATTACAATTTTTATCATATAATGTATTAATTTAACAA
**** * *
1092733 TACAATATTTATTAATTTTATATCTTTAAATAATTTTTTTATTATATTATAATTTTTATCATATA
128 TACAATATTTATTAATTTTATATCTTTAAATAAAAAATTTATTATATTACAATTTTTATAATATA
**
1092798 ATGTGTTGATTTGATAATACAATATTTATTAATTTTATATCTTTAAATAAAAATCT
193 ATGTGTTGATTTGATAATACAATATTTATTAATTTTATATCTTTAAATAAAAAAAT
* *
1092854 TTATTATATTACAATTTTTATCGTATAATGTGTTGATTTGATAATATAATATTTATTAATTTTAT
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATATAATATTTATTAATTTTAT
* * * *
1092919 ATCTTTCAATAAAAATTTTTATTATATTACAA-TTTTATCATATAATGTGTTGATTTGACAATAC
66 ATCTTTAAATAAAAATTTTTATTATATTACAATTTTTATCATATAATGTATTAATTTAACAATAC
1092983 AATATTTATTAATTTTATATCTTTAAATAAAAAAATTTATTATATTACAATTTTTATAATATAAT
131 AATATTTATTAATTTTATATCTTTAAAT-AAAAAATTTATTATATTACAATTTTTATAATATAAT
*
1093048 -TGTTGATTTGATAATATAATATTTATTAATTTTATATCTTTAAATAAAAAAAT
195 GTGTTGATTTGATAATACAATATTTATTAATTTTATATCTTTAAATAAAAAAAT
*
1093101 TTATTATATTATAATTTTTATCATATAATGTGTTGATTTGACAATATAATATTTATTAATTTTAT
1 TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATATAATATTTATTAATTTTAT
* *
1093166 ATCTTTAAATAAAAAATTTTATTGTATTACAATTTTTATCATAT
66 ATCTTTAAATAAAAATTTTTATTATATTACAATTTTTATCATAT
1093210 TTTATATTTA
Statistics
Matches: 319, Mismatches: 33, Indels: 9
0.88 0.09 0.02
Matches are distributed among these distances:
247 201 0.63
248 66 0.21
249 52 0.16
ACGTcount: A:0.40, C:0.05, G:0.04, T:0.51
Consensus pattern (248 bp):
TTATTATATTACAATTTTTATCATATAATGTGTTGATTTGACAATATAATATTTATTAATTTTAT
ATCTTTAAATAAAAATTTTTATTATATTACAATTTTTATCATATAATGTATTAATTTAACAATAC
AATATTTATTAATTTTATATCTTTAAATAAAAAATTTATTATATTACAATTTTTATAATATAATG
TGTTGATTTGATAATACAATATTTATTAATTTTATATCTTTAAATAAAAAAAT
Found at i:1095659 original size:29 final size:30
Alignment explanation
Indices: 1095610--1095674 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
1095600 CCCCTTTACT
** *
1095610 TTTTAAATTTAATTTGTAATTTCGTT-TTTA
1 TTTTAAATTTAATTTCAAATTTC-TTGTATA
1095640 TTTTAAA-TTAATTTCAAATTTCTTGTATA
1 TTTTAAATTTAATTTCAAATTTCTTGTATA
1095669 TTTTAA
1 TTTTAA
1095675 TTTTTCTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 2 0.06
29 22 0.71
30 7 0.23
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.60
Consensus pattern (30 bp):
TTTTAAATTTAATTTCAAATTTCTTGTATA
Found at i:1096340 original size:31 final size:31
Alignment explanation
Indices: 1096302--1096389 Score: 149
Period size: 31 Copynumber: 2.8 Consensus size: 31
1096292 TTGCCGCTTC
*
1096302 ACATGACAGTATATAATTCAACCCCGGTAAT
1 ACATGACAGTATATAATTCAACCCCGGCAAT
1096333 ACATGACAGTATATAATTCAACCCCGGCAAT
1 ACATGACAGTATATAATTCAACCCCGGCAAT
* *
1096364 ACATGACAATATATAGTTCAACCCCG
1 ACATGACAGTATATAATTCAACCCCG
1096390 AAATTCGATT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 54 1.00
ACGTcount: A:0.39, C:0.25, G:0.12, T:0.24
Consensus pattern (31 bp):
ACATGACAGTATATAATTCAACCCCGGCAAT
Found at i:1096750 original size:61 final size:61
Alignment explanation
Indices: 1096617--1096979 Score: 439
Period size: 61 Copynumber: 6.1 Consensus size: 61
1096607 GAGGAAAATA
1096617 GCCAACACCAAAAAAATTTGAATTTTTTTTCTCGAGAACAGGGGGTGTCGGCCATTTGATG
1 GCCAACACCAAAAAAATTTGAATTTTTTTTCTCGAGAACAGGGGGTGTCGGCCATTTGATG
* * * *
1096678 GCCAACACAAAAAAAAATTGAA-TTTTTTTCTTGAGAACAGGGGGTGTCGGCTATTTGATG
1 GCCAACACCAAAAAAATTTGAATTTTTTTTCTCGAGAACAGGGGGTGTCGGCCATTTGATG
*
1096738 GCCAACATCAAAAAAATTTGAATTTTTTTTCTCGAGAA-AGGGCGGTGTCGGCCATTTGATG
1 GCCAACACCAAAAAAATTTGAATTTTTTTTCTCGAGAACAGGG-GGTGTCGGCCATTTGATG
*
1096799 GCCAACACCAAAAAAATTTGAATATTTTTTCTCGAGAACAGGGGGTGTCGGCCATTTGATG
1 GCCAACACCAAAAAAATTTGAATTTTTTTTCTCGAGAACAGGGGGTGTCGGCCATTTGATG
* ** * * * * ***
1096860 GCCAACACCCAAAAAA-TACAATTTTTTTT-TGGA-AATAGGAGGTGTCGACCATACAATG
1 GCCAACACCAAAAAAATTTGAATTTTTTTTCTCGAGAACAGGGGGTGTCGGCCATTTGATG
* *
1096918 TG-CAACACC-CAAAAA--TGCAA-TTTTTTT-T--A-AATAGGGGGTGTCGGCCATTTGATG
1 -GCCAACACCAAAAAAATTTG-AATTTTTTTTCTCGAGAACAGGGGGTGTCGGCCATTTGATG
1096972 GCCAACAC
1 GCCAACAC
1096980 TCCAAAATTT
Statistics
Matches: 266, Mismatches: 30, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
53 1 0.00
54 27 0.10
56 8 0.03
57 7 0.03
58 26 0.10
59 4 0.02
60 69 0.26
61 120 0.45
62 4 0.02
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (61 bp):
GCCAACACCAAAAAAATTTGAATTTTTTTTCTCGAGAACAGGGGGTGTCGGCCATTTGATG
Found at i:1096883 original size:121 final size:118
Alignment explanation
Indices: 1096617--1096979 Score: 447
Period size: 121 Copynumber: 3.1 Consensus size: 118
1096607 GAGGAAAATA
1096617 GCCAACACCAAAAAAATTTGAATTTTTTTTCTCGAGAACAGGGGGTGTCGGCCATTTGATGGCCA
1 GCCAACACCAAAAAAATTTGAATTTTTTTTCTCGAGAA-AGGGGGTGTCGGCCATTTGATGGCCA
* *
1096682 ACACAAAAAAAAATTGAATTTTTTTCTTGAGAACAGGGGGTGTCGGCTATTTGATG
65 ACAC-CAAAAAAATTGAATTTTTTTC-TGAGAACAGGGGGTGTCGGCCATTTGATG
*
1096738 GCCAACATCAAAAAAATTTGAATTTTTTTTCTCGAGAAAGGGCGGTGTCGGCCATTTGATGGCCA
1 GCCAACACCAAAAAAATTTGAATTTTTTTTCTCGAGAAAGGG-GGTGTCGGCCATTTGATGGCCA
1096803 ACACCAAAAAAATTTGAATATTTTTTCTCGAGAACAGGGGGTGTCGGCCATTTGATG
65 ACACCAAAAAAA-TTGAAT-TTTTTTCT-GAGAACAGGGGGTGTCGGCCATTTGATG
* ** * * * ***
1096860 GCCAACACCCAAAAAA-TACAATTTTTTTT-TGGA-AATAGGAGGTGTCGACCATACAATGTG-C
1 GCCAACACCAAAAAAATTTGAATTTTTTTTCTCGAGAA-AGGGGGTGTCGGCCATTTGATG-GCC
* *
1096921 AACACC-CAAAAA-TGCAATTTTTTT-T-A-AATAGGGGGTGTCGGCCATTTGATG
64 AACACCAAAAAAATTG-AATTTTTTTCTGAGAACAGGGGGTGTCGGCCATTTGATG
1096972 GCCAACAC
1 GCCAACAC
1096980 TCCAAAATTT
Statistics
Matches: 220, Mismatches: 15, Indels: 23
0.85 0.06 0.09
Matches are distributed among these distances:
112 32 0.15
113 1 0.00
115 1 0.00
116 8 0.04
117 3 0.01
118 5 0.02
119 23 0.10
120 18 0.08
121 81 0.37
122 48 0.22
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (118 bp):
GCCAACACCAAAAAAATTTGAATTTTTTTTCTCGAGAAAGGGGGTGTCGGCCATTTGATGGCCAA
CACCAAAAAAATTGAATTTTTTTCTGAGAACAGGGGGTGTCGGCCATTTGATG
Found at i:1097493 original size:59 final size:59
Alignment explanation
Indices: 1097421--1097826 Score: 231
Period size: 59 Copynumber: 6.8 Consensus size: 59
1097411 GTGTCGGCCA
*
1097421 TTTATCAGATAAAAAATTTAAATATTTTGGTGTTGGCCATTGCATGG-CTGACAC-TCCTT
1 TTTATCAGATAAAAAATTTAAATTTTTTGGTGTTGGCCATTGCATGGTC-GACACAT-CTT
* * * *
1097480 TTTATCATG-TAAAAAA-TCAATTTTTTTTTGTGTTGGCCATTGCATGGTCGACACATTTT
1 TTTATCA-GATAAAAAATTTAA-ATTTTTTGGTGTTGGCCATTGCATGGTCGACACATCTT
* ** * * *
1097539 TTTGTCAGATAAAAAATTTAAATTTTTTGGTGTTGGTTATTGTATGATCGACACCTCTTTT
1 TTTATCAGATAAAAAATTTAAATTTTTTGGTGTTGGCCATTGCATGGTCGACACATC--TT
* * * * * * * ** *
1097600 TTTATCTGGT-AAAAA--TCAATTTTTTTGCGTTGGTCATTACATGACCGACACCTCCTT
1 TTTATCAGATAAAAAATTTAAATTTTTTGGTGTTGGCCATTGCATGGTCGACACAT-CTT
* * * * * * * *
1097657 TTTGTTAGATAAAAAATTCAATTTTTTTTTGTGTTGGTCATTGCATAGTCGACACCA-CGT
1 TTTATCAGATAAAAAATTTAA-ATTTTTTGGTGTTGGCCATTGCATGGTCGACA-CATCTT
* * * * * * *
1097717 TTTATCTGATTAAAAAAATTCAAATTTTTTTAGTGTTGGTCA-TGCATTGGCCGACTCCA-CCT
1 TTTATCAGA-T-AAAAAATTTAAA-TTTTTTGGTGTTGGCCATTGCA-TGGTCGAC-ACATCTT
* * * *
1097779 ATTATCTA-ATAAAAAAAATTAATTTTTTTAGTGTTGGCCATTGCATGG
1 TTTATC-AGAT-AAAAAATTTAAATTTTTTGGTGTTGGCCATTGCATGG
1097827 ACCACCTTTC
Statistics
Matches: 272, Mismatches: 54, Indels: 41
0.74 0.15 0.11
Matches are distributed among these distances:
57 8 0.03
58 40 0.15
59 86 0.32
60 39 0.14
61 55 0.20
62 44 0.16
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.43
Consensus pattern (59 bp):
TTTATCAGATAAAAAATTTAAATTTTTTGGTGTTGGCCATTGCATGGTCGACACATCTT
Found at i:1097560 original size:118 final size:118
Alignment explanation
Indices: 1097425--1097712 Score: 318
Period size: 118 Copynumber: 2.4 Consensus size: 118
1097415 CGGCCATTTA
* * *
1097425 TCAGATAAAAAATTTAAATATTTTGGTGTTGGCCATTGCATG-GCTGACA-CTC-CTTTTTATCA
1 TCAGATAAAAAATTTAAATTTTTTGGTGTTGGTCATTGCATGATC-GACACCTCTCTTTTTATC-
* * ** *
1097487 T-GTAAAAAATCAATTTTTTTTTGTGTTGGCCATTGCATGGTCGACACAT-TTTTTTG
64 TGGT-AAAAATCAA--TTTTTTTGCGTTGGCCATTACATGACCGACACATCCTTTTTG
* * *
1097543 TCAGATAAAAAATTTAAATTTTTTGGTGTTGGTTATTGTATGATCGACACCTCTTTTTTTATCTG
1 TCAGATAAAAAATTTAAATTTTTTGGTGTTGGTCATTGCATGATCGACACCTCTCTTTTTATCTG
* *
1097608 GTAAAAATCAATTTTTTTGCGTTGGTCATTACATGACCGACACCTCCTTTTTG
66 GTAAAAATCAATTTTTTTGCGTTGGCCATTACATGACCGACACATCCTTTTTG
* * * *
1097661 TTAGATAAAAAATTCAATTTTTTTTTGTGTTGGTCATTGCAT-AGTCGACACC
1 TCAGATAAAAAATTTAA-ATTTTTTGGTGTTGGTCATTGCATGA-TCGACACC
1097713 ACGTTTTATC
Statistics
Matches: 144, Mismatches: 19, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
117 28 0.19
118 64 0.44
119 42 0.29
120 10 0.07
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.43
Consensus pattern (118 bp):
TCAGATAAAAAATTTAAATTTTTTGGTGTTGGTCATTGCATGATCGACACCTCTCTTTTTATCTG
GTAAAAATCAATTTTTTTGCGTTGGCCATTACATGACCGACACATCCTTTTTG
Found at i:1097672 original size:58 final size:59
Alignment explanation
Indices: 1097427--1097763 Score: 237
Period size: 59 Copynumber: 5.7 Consensus size: 59
1097417 GCCATTTATC
* * * * * * * *
1097427 AGATAAAAAATTTAAATATTTTGGTGTTGGCCATTGCATG-GCTGACA-CTCCTTTTTATC
1 AGATAAAAAATTCAATTTTTTTTGTGTTGGTCATTGCATGATC-GACACCT-CTTTTTGTT
* * * * *
1097486 ATG-TAAAAAA-TCAATTTTTTTTTGTGTTGGCCATTGCATGGTCGACACATTTTTTTGTC
1 A-GATAAAAAATTCAA-TTTTTTTTGTGTTGGTCATTGCATGATCGACACCTCTTTTTGTT
* * * * *
1097545 AGATAAAAAATTTAAATTTTTTGGTGTTGGTTATTGTATGATCGACACCTCTTTTT-TT
1 AGATAAAAAATTCAATTTTTTTTGTGTTGGTCATTGCATGATCGACACCTCTTTTTGTT
* * * *
1097603 ATCTGGT-AAAAA-TCAA-TTTTTTTGCGTTGGTCATTACATGACCGACACCTCCTTTTTGTT
1 A---GATAAAAAATTCAATTTTTTTTGTGTTGGTCATTGCATGATCGACACCT-CTTTTTGTT
* * *
1097663 AGATAAAAAATTCAATTTTTTTTTGTGTTGGTCATTGCAT-AGTCGACACCACGTTTTATCT
1 AGATAAAAAATTCAA-TTTTTTTTGTGTTGGTCATTGCATGA-TCGACACCTCTTTTTGT-T
*
1097724 -GATTAAAAAAATTCAAATTTTTTTAGTGTTGGTCA-TGCAT
1 AGA-T-AAAAAATTC-AATTTTTTTTGTGTTGGTCATTGCAT
1097764 TGGCCGACTC
Statistics
Matches: 224, Mismatches: 34, Indels: 38
0.76 0.11 0.13
Matches are distributed among these distances:
57 2 0.01
58 39 0.17
59 95 0.42
60 23 0.10
61 37 0.17
62 26 0.12
63 2 0.01
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (59 bp):
AGATAAAAAATTCAATTTTTTTTGTGTTGGTCATTGCATGATCGACACCTCTTTTTGTT
Found at i:1097733 original size:119 final size:117
Alignment explanation
Indices: 1097425--1097759 Score: 315
Period size: 118 Copynumber: 2.8 Consensus size: 117
1097415 CGGCCATTTA
* * * *
1097425 TCAGATAAAAAATTTAAATATTTTGGTGTTGGCCATTGCATG-GCTGACACTC-CT-TTTTATCA
1 TCAGATAAAAAATTCAAATTTTTTGGTGTTGGTCATTGCATGATC-GACAC-CACTGTTTTATC-
* * ** *
1097487 T-GTAAAAAATCAATTTTTTTTTGTGTTGGCCATTGCATGGTCGACACATTTTTTTG
63 TGGTAAAAAATCAA--TTTTTTTGTGTTGGTCATTACATGACCGACACATCTTTTTG
* * * * *
1097543 TCAGATAAAAAATTTAAATTTTTTGGTGTTGGTTATTGTATGATCGACACCTCTTTTTTTATCTG
1 TCAGATAAAAAATTCAAATTTTTTGGTGTTGGTCATTGCATGATCGACACCAC-TGTTTTATCTG
* *
1097608 GT-AAAAATCAATTTTTTTGCGTTGGTCATTACATGACCGACACCTCCTTTTTG
65 GTAAAAAATCAATTTTTTTGTGTTGGTCATTACATGACCGACACAT-CTTTTTG
* * *
1097661 TTAGATAAAAAATTCAATTTTTTTTTGTGTTGGTCATTGCAT-AGTCGACACCAC-GTTTTATCT
1 TCAGATAAAAAATTCAA-ATTTTTTGGTGTTGGTCATTGCATGA-TCGACACCACTGTTTTATCT
*
1097724 GATTAAAAAAATTCAAATTTTTTTAGTGTTGGTCAT
64 G-GT-AAAAAA-TC-AATTTTTTT-GTGTTGGTCAT
1097760 GCATTGGCCG
Statistics
Matches: 181, Mismatches: 22, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
117 38 0.21
118 67 0.37
119 41 0.23
120 14 0.08
121 2 0.01
122 9 0.05
123 10 0.06
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.44
Consensus pattern (117 bp):
TCAGATAAAAAATTCAAATTTTTTGGTGTTGGTCATTGCATGATCGACACCACTGTTTTATCTGG
TAAAAAATCAATTTTTTTGTGTTGGTCATTACATGACCGACACATCTTTTTG
Found at i:1097805 original size:60 final size:59
Alignment explanation
Indices: 1097610--1097886 Score: 229
Period size: 62 Copynumber: 4.7 Consensus size: 59
1097600 TTTATCTGGT
* * * * *
1097610 AAAAA-TCAATTTTTTT-GCGTTGGTCATTACATGACCGACACCTCCTTTT-TGTTAGAT-A
1 AAAAATTCAATTTTTTTAGTGTTGGTCATTGCATGGCCGAC-CCACCTTTTAT-CTA-ATAA
* * * * *
1097668 AAAAATTCAATTTTTTTTTGTGTTGGTCATTGCATAGTCGACACCACGTTTTATCTGATTAA
1 AAAAATTCAA-TTTTTTTAGTGTTGGTCATTGCATGGCCGAC-CCACCTTTTATCT-AATAA
*
1097730 AAAAATTCAAATTTTTTTAGTGTTGGTCA-TGCATTGGCCGACTCCACCTATTATCTAATAAA
1 AAAAATTC-AATTTTTTTAGTGTTGGTCATTGCA-TGGCCGAC-CCACCTTTTATCTAAT-AA
*
1097792 AAAAATT-AATTTTTTTAGTGTTGGCCATTGCAT-G--GA-CCACCTTTCTATCTAATAA
1 AAAAATTCAATTTTTTTAGTGTTGGTCATTGCATGGCCGACCCACCTTT-TATCTAATAA
*
1097847 AAAAATTCAAATATTTTT--TGTTGGTCA-TGCATTGGCCGAC
1 AAAAATTC-AATTTTTTTAGTGTTGGTCATTGCA-TGGCCGAC
1097887 ACTAACTTTC
Statistics
Matches: 181, Mismatches: 20, Indels: 35
0.77 0.08 0.15
Matches are distributed among these distances:
54 4 0.02
55 25 0.14
56 9 0.05
57 10 0.06
58 7 0.04
59 5 0.03
60 27 0.15
61 38 0.21
62 54 0.30
63 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.40
Consensus pattern (59 bp):
AAAAATTCAATTTTTTTAGTGTTGGTCATTGCATGGCCGACCCACCTTTTATCTAATAA
Found at i:1097869 original size:55 final size:53
Alignment explanation
Indices: 1097773--1097878 Score: 126
Period size: 55 Copynumber: 1.9 Consensus size: 53
1097763 TTGGCCGACT
*
1097773 CCACCTATTATCTAATAAAAAAAATTAATTTTTTTAGTGTTGGCCATTGCATGGA
1 CCACCTATTATCTAATAAAAAAAATTAATATTTTTA-TGTTGGCCA-TGCATGGA
* *
1097828 CCACCTTTCTATCTAAT-AAAAAAATTCAAATATTTTT-TGTTGGTCATGCAT
1 CCACCTAT-TATCTAATAAAAAAAATT--AATATTTTTATGTTGGCCATGCAT
1097879 TGGCCGACAC
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
54 5 0.11
55 24 0.53
56 8 0.18
57 8 0.18
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (53 bp):
CCACCTATTATCTAATAAAAAAAATTAATATTTTTATGTTGGCCATGCATGGA
Found at i:1098135 original size:35 final size:35
Alignment explanation
Indices: 1098089--1098160 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
1098079 TTGTCGGAGT
1098089 TGAATTATATACTGTCATGTGAAGCGGCAAATATA
1 TGAATTATATACTGTCATGTGAAGCGGCAAATATA
*
1098124 TGAATTATATACTGTCATGTGAAGTGGCAAATATA
1 TGAATTATATACTGTCATGTGAAGCGGCAAATATA
1098159 TG
1 TG
1098161 TCTTCAATGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.33
Consensus pattern (35 bp):
TGAATTATATACTGTCATGTGAAGCGGCAAATATA
Found at i:1098778 original size:24 final size:24
Alignment explanation
Indices: 1098742--1098799 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
1098732 ATTATTGACA
*
1098742 AATTAAGAATATATTGAAAAATAAT
1 AATTAA-AATATATTAAAAAATAAT
*
1098767 AATTAAAATATATTAAAAAATGAT
1 AATTAAAATATATTAAAAAATAAT
1098791 AATTAAAAT
1 AATTAAAAT
1098800 TAATTTTAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 25 0.81
25 6 0.19
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (24 bp):
AATTAAAATATATTAAAAAATAAT
Found at i:1103425 original size:97 final size:96
Alignment explanation
Indices: 1103318--1103757 Score: 692
Period size: 97 Copynumber: 4.6 Consensus size: 96
1103308 ATTACATTTA
*
1103318 AAATTATGTTAAACTTATTTAAATAAAAAATTATTATTATATTACAATTTTTATCAAATAATGTG
1 AAATTATGTTAAA-TTATTTAAATAAAAAACTATTATTATATTACAATTTTTATCAAATAATGTG
*
1103383 TTGATTTGACAATACATTATTTACTAATTTTT
65 TTGATTTGACAATACATTATTTACCAATTTTT
* *
1103415 AAATTATGTTAAAATTATTTAAATAAAAAACTATTATTATATTATAATTTTTATCAAATAATATG
1 AAATTATGTT-AAATTATTTAAATAAAAAACTATTATTATATTACAATTTTTATCAAATAATGTG
* *
1103480 TTGATTTGATAATACATTATTTACTAATTTTT
65 TTGATTTGACAATACATTATTTACCAATTTTT
* * *
1103512 AAATTATGATAAAATTATTTAAATAAAAAACTATTATTATATTATAATTTTTATCAAATAATGCG
1 AAATTATG-TTAAATTATTTAAATAAAAAACTATTATTATATTACAATTTTTATCAAATAATGTG
1103577 TTGATTTGACAATACATTATTTACCAATTTTT
65 TTGATTTGACAATACATTATTTACCAATTTTT
* *
1103609 AAA--ATTTTAAATTATTTAAAT-AAAAACTATTATTATTTTACAATTTTTATCAAATAATGTGT
1 AAATTATGTTAAATTATTTAAATAAAAAACTATTATTATATTACAATTTTTATCAAATAATGTGT
1103671 TGATTTGACAATACATTATTTACCAATTTTT
66 TGATTTGACAATACATTATTTACCAATTTTT
* * *
1103702 AAA--ATTTTAAATTATTTAAATCAAAAACTATTATTATTTTACAATTTTTATCAAAT
1 AAATTATGTTAAATTATTTAAATAAAAAACTATTATTATATTACAATTTTTATCAAAT
1103758 TTTATATTTA
Statistics
Matches: 326, Mismatches: 14, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
93 90 0.28
94 48 0.15
95 2 0.01
97 182 0.56
98 4 0.01
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (96 bp):
AAATTATGTTAAATTATTTAAATAAAAAACTATTATTATATTACAATTTTTATCAAATAATGTGT
TGATTTGACAATACATTATTTACCAATTTTT
Found at i:1105214 original size:170 final size:171
Alignment explanation
Indices: 1104916--1105272 Score: 517
Period size: 170 Copynumber: 2.1 Consensus size: 171
1104906 TGTGAGATAT
**
1104916 ATTTTCGAATTTTTTATAATATTTTTTTCTATTCTCGAAATATTTTTATATATTTTTGAATTTTT
1 ATTTTCGAATTTTTTATAATATTTTTTTCTATTCTCGAAATATTTTTATATATTTTCAAATTTTT
* * * *
1104981 AAAAAAATAAAAATATGATATTTTTTACAAATATTTTTTATATTTTTAAATATAAAAATACATTT
66 AAAAAAATAAAAATATAATATTTTTTACAAATATTTTGTACATTTTGAAATATAAAAATACATTT
1105046 TCAAAATATTTTTTTA-AAATAAAAAATTTGATA-TTTTTTAC
131 TCAAAATA-TTTTTTACAAA-AAAAAATTTGATATTTTTTTAC
* * *
1105087 ATTTTCGAATTTTTTATAATA-TTTTTTCTATTTTTGAAATATTTTT-TTTATTTTCAAATTTTT
1 ATTTTCGAATTTTTTATAATATTTTTTTCTATTCTCGAAATATTTTTATATATTTTCAAATTTTT
*
1105150 -AAAAAATAAAAATCTAATATTTTTTACAAATATTTTGTACATTTTCGAAATATAAAAAATACAT
66 AAAAAAATAAAAATATAATATTTTTTACAAATATTTTGTACATTTT-GAAATAT-AAAAATACAT
** * *
1105214 TTTCGGAATATTTTTTACAAAAAAAATTTTGATATTTTTTTAT
129 TTTCAAAATATTTTTTACAAAAAAAAATTTGATATTTTTTTAC
1105257 ATTTTCGAATTTTTTA
1 ATTTTCGAATTTTTTA
1105273 ACTAAACTCG
Statistics
Matches: 168, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
168 41 0.24
169 39 0.23
170 67 0.40
171 21 0.12
ACGTcount: A:0.38, C:0.05, G:0.04, T:0.53
Consensus pattern (171 bp):
ATTTTCGAATTTTTTATAATATTTTTTTCTATTCTCGAAATATTTTTATATATTTTCAAATTTTT
AAAAAAATAAAAATATAATATTTTTTACAAATATTTTGTACATTTTGAAATATAAAAATACATTT
TCAAAATATTTTTTACAAAAAAAAATTTGATATTTTTTTAC
Found at i:1106350 original size:30 final size:29
Alignment explanation
Indices: 1106303--1106418 Score: 151
Period size: 30 Copynumber: 3.9 Consensus size: 29
1106293 TTTTTATTTT
* *
1106303 TTTATTTTTTAATTTAATTTGTACTTTCG
1 TTTATATTTTAATTTAATTTGTAATTTCG
* *
1106332 TTTATATTTTAGATTTAATTTCTAATTTCC
1 TTTATATTTTA-ATTTAATTTGTAATTTCG
1106362 TTTATATTTTAATTTTAATTTGTAATTTCG
1 TTTATATTTTAA-TTTAATTTGTAATTTCG
* *
1106392 TTTATATTTTAAATTTTATTTCTAATT
1 TTTATATTTT-AATTTAATTTGTAATT
1106419 ATTATTTTTT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
29 11 0.14
30 63 0.83
31 2 0.03
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (29 bp):
TTTATATTTTAATTTAATTTGTAATTTCG
Found at i:1106365 original size:23 final size:23
Alignment explanation
Indices: 1106339--1106382 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
1106329 TCGTTTATAT
1106339 TTTAGA-TTTAATTTCTAATTTCC
1 TTTAGATTTTAATTT-TAATTTCC
*
1106362 TTTATATTTTAATTTTAATTT
1 TTTAGATTTTAATTTTAATTT
1106383 GTAATTTCGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.27, C:0.07, G:0.02, T:0.64
Consensus pattern (23 bp):
TTTAGATTTTAATTTTAATTTCC
Found at i:1106391 original size:60 final size:59
Alignment explanation
Indices: 1106303--1106418 Score: 187
Period size: 60 Copynumber: 1.9 Consensus size: 59
1106293 TTTTTATTTT
* * *
1106303 TTTATTTTTTAATTTAATTTGTACTTTCGTTTATATTTTAGATTTAATTTCTAATTTCC
1 TTTATATTTTAATTTAATTTGTAATTTCGTTTATATTTTAAATTTAATTTCTAATTTCC
*
1106362 TTTATATTTTAATTTTAATTTGTAATTTCGTTTATATTTTAAATTTTATTTCTAATT
1 TTTATATTTTAA-TTTAATTTGTAATTTCGTTTATATTTTAAATTTAATTTCTAATT
1106419 ATTATTTTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
59 11 0.21
60 41 0.79
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (59 bp):
TTTATATTTTAATTTAATTTGTAATTTCGTTTATATTTTAAATTTAATTTCTAATTTCC
Found at i:1107430 original size:60 final size:61
Alignment explanation
Indices: 1107220--1107851 Score: 356
Period size: 60 Copynumber: 10.6 Consensus size: 61
1107210 AGAAATGAGG
* * *
1107220 AAAAGTTGGTGTCGGCCAA-GCAATGACCAACACCAAAAAAATTG-A-TTTTTT-TCAGAT
1 AAAAGGTGGTGTCGGCCAATGCAATGACCAACACCAAAAAATTTGAATTTTTTTATCAAAT
** * * * *
1107277 AAAAATATGGTGTCGGCCAATGC-ATGGCTAATACAAAAAATATTTGAATTTTTTTATCAAAT
1 -AAAAGGTGGTGTCGGCCAATGCAATGACCAACACCAAAAA-ATTTGAATTTTTTTATCAAAT
** * *
1107339 AGAAAGGTGGTGTCAACC-ATGCAAT-AGCCAACACCCAAAAATTTGATTTTTTTTATCAAAT
1 A-AAAGGTGGTGTCGGCCAATGCAATGA-CCAACACCAAAAAATTTGAATTTTTTTATCAAAT
* * * * * *
1107400 AATAGGTGGAGTCGGCCAATGC-ATGACCAACACAAAAAAAATTG-ATTTTTTTATTAGAT
1 AAAAGGTGGTGTCGGCCAATGCAATGACCAACACCAAAAAATTTGAATTTTTTTATCAAAT
* * * *
1107459 AAAACGTGGTGTCGACC-ATGCAATGGCCAACACCAAAAAAATTTGAATTTTTTTATCAGATT
1 AAAAGGTGGTGTCGGCCAATGCAATGACCAACACC-AAAAAATTTGAATTTTTTTATCA-AAT
* * * * * * **
1107521 AAAAAGATGGTATCGACC-ATACAATGGCCAACACCAAAAAATTTGAA-TTTTTTATCTGACG
1 -AAAAGGTGGTGTCGGCCAATGCAATGACCAACACCAAAAAATTTGAATTTTTTTATC-AAAT
* * * * * * *
1107582 AAAAGGGGGTGTTGGCC-ATGCAACGACCAGCA-CAAAAAAATT-AA-TTTTTTAGCAGATAA
1 AAAAGGTGGTGTCGGCCAATGCAATGACCAACACCAAAAAATTTGAATTTTTTTATCA-A-AT
* * * *
1107641 AAAAGG-GCTGTCGGCC-ATG----G-CCAACACCAAAAAAATT-AA-TTTTTTACCAGATAA
1 AAAAGGTGGTGTCGGCCAATGCAATGACCAACACCAAAAAATTTGAATTTTTTTATCA-A-AT
* ** * * ** * *
1107695 AAAAGGAGGTGTCAACC-ATGCAATAACCAATACCAAAAAATTAAAAATTTTTTATCTGACA-
1 AAAAGGTGGTGTCGGCCAATGCAATGACCAACACCAAAAAATTTGAATTTTTTTATC--AAAT
** * *
1107756 AAAAGG-GGTGTCGATC-ATGCAATGGCCAACACCAAAAAATTT-AAATTTTTTATCTAACA-
1 AAAAGGTGGTGTCGGCCAATGCAATGACCAACACCAAAAAATTTGAATTTTTTTATC-AA-AT
* ** * *
1107815 AAAAGGAGGTGTCAACC-ATACAATGGCCAACACCAAA
1 AAAAGGTGGTGTCGGCCAATGCAATGACCAACACCAAA
1107852 TTTTTTTTTA
Statistics
Matches: 460, Mismatches: 83, Indels: 60
0.76 0.14 0.10
Matches are distributed among these distances:
53 5 0.01
54 33 0.07
55 10 0.02
58 57 0.12
59 75 0.16
60 133 0.29
61 66 0.14
62 50 0.11
63 30 0.07
64 1 0.00
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.26
Consensus pattern (61 bp):
AAAAGGTGGTGTCGGCCAATGCAATGACCAACACCAAAAAATTTGAATTTTTTTATCAAAT
Found at i:1107489 original size:59 final size:59
Alignment explanation
Indices: 1107220--1107964 Score: 512
Period size: 59 Copynumber: 12.6 Consensus size: 59
1107210 AGAAATGAGG
* * *
1107220 AAAAGTTGGTGTCGGCCAAGCAATGACCAACACCAAAAAAATTG-ATTTTTT-TCAGATA
1 AAAAG-TGGTGTCGACCATGCAATGGCCAACACCAAAAAAATTGAATTTTTTATCAGATA
* * * * *
1107278 AAAATATGGTGTCGGCCAATGC-ATGGCTAATA-CAAAAAATATTTGAATTTTTTTATCAAATA
1 AAAA-GTGGTGTCGACC-ATGCAATGGCCAACACCAAAAAA-A-TTGAA-TTTTTTATCAGATA
* * * * * * *
1107340 GAAAGGTGGTGTCAACCATGCAATAGCCAACACCCAAAAATTTGATTTTTTTTATCAAATA
1 -AAAAGTGGTGTCGACCATGCAATGGCCAACACCAAAAAAATTGA-ATTTTTTATCAGATA
* * * * * * * *
1107401 ATAGGTGGAGTCGGCCAATGC-ATGACCAACACAAAAAAAATTGATTTTTTTATTAGATA
1 AAAAGTGGTGTCGACC-ATGCAATGGCCAACACCAAAAAAATTGAATTTTTTATCAGATA
*
1107460 AAACGTGGTGTCGACCATGCAATGGCCAACACCAAAAAAATTTGAATTTTTTTATCAGATTA
1 AAAAGTGGTGTCGACCATGCAATGGCCAACACCAAAAAAA-TTGAA-TTTTTTATCAGA-TA
* * * * *
1107522 AAAAGATGGTATCGACCATACAATGGCCAACACCAAAAAATTTGAATTTTTTATCTGACGA
1 AAAAG-TGGTGTCGACCATGCAATGGCCAACACCAAAAAAATTGAATTTTTTATCAGA-TA
* * * * * * * *
1107583 AAAGGGGGTGTTGGCCATGCAACGACCAGCA-CAAAAAAATT-AATTTTTTAGCAGATAA
1 AAAAGTGGTGTCGACCATGCAATGGCCAACACCAAAAAAATTGAATTTTTTATCAGAT-A
* *
1107641 AAAAG-GGCTGTCG-----GCCATGGCCAACACCAAAAAAATT-AATTTTTTACCAGATAA
1 AAAAGTGG-TGTCGACCATGCAATGGCCAACACCAAAAAAATTGAATTTTTTATCAGAT-A
* * ** * * * *
1107695 AAAAGGAGGTGTCAACCATGCAATAACCAATACC-AAAAAATTAAAAATTTTTTATCTGACA
1 AAAA-GTGGTGTCGACCATGCAATGGCCAACACCAAAAAAATT--GAATTTTTTATCAGATA
* * * * *
1107756 AAAAGGGGTGTCGATCATGCAATGGCCAACACCAAAAAATTTAAATTTTTTATCTA-ACA
1 AAAAGTGGTGTCGACCATGCAATGGCCAACACCAAAAAAATTGAATTTTTTATC-AGATA
* * * *
1107815 AAAAGGAGGTGTCAACCATACAATGGCCAACACC----AAATT--TTTTTTTA-CTAGATA
1 AAAA-GTGGTGTCGACCATGCAATGGCCAACACCAAAAAAATTGAATTTTTTATC-AGATA
* * * * * *
1107869 AAAAG-GAGTGTCAACCATGCAATGGCCAACACAAAAAAAAATAAATTTTTTATCTGACA
1 AAAAGTG-GTGTCGACCATGCAATGGCCAACACCAAAAAAATTGAATTTTTTATCAGATA
* * * *
1107928 AAAAGGGGTGTCGGCCATACAATGGCCAACGCCAAAA
1 AAAAGTGGTGTCGACCATGCAATGGCCAACACCAAAA
1107965 TTTATTTTTT
Statistics
Matches: 548, Mismatches: 96, Indels: 85
0.75 0.13 0.12
Matches are distributed among these distances:
52 1 0.00
53 37 0.07
54 43 0.08
55 5 0.01
56 6 0.01
57 13 0.02
58 48 0.09
59 124 0.23
60 114 0.21
61 71 0.13
62 45 0.08
63 41 0.07
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.26
Consensus pattern (59 bp):
AAAAGTGGTGTCGACCATGCAATGGCCAACACCAAAAAAATTGAATTTTTTATCAGATA
Found at i:1107714 original size:113 final size:114
Alignment explanation
Indices: 1107542--1107833 Score: 286
Period size: 113 Copynumber: 2.5 Consensus size: 114
1107532 ATCGACCATA
* * * * * *** *
1107542 CAATGGCCAACACCAAAAAATTTGAATTTTTTATCTGACGAAAAGGGGGTGTTGGCCATGCAACG
1 CAATGGCCAACACCAAAAAATTTAAATTTTTTACCAGACAAAAAGGAGGTGTCAACCATGCAACA
*
1107607 ACCAGCACAAAAAAATT-AATTTTTTAGCAGATAAAAAAGGGCTGTCG-G
66 ACCAACACAAAAAAATTAAATTTTTTAGCAGA-AAAAAAGGGCTGTCGAG
* * * *
1107655 CCATGGCCAACACCAAAAAAATT-AATTTTTTACCAGATAAAAAAGGAGGTGTCAACCATGCAAT
1 CAATGGCCAACACCAAAAAATTTAAATTTTTTACCAGA-CAAAAAGGAGGTGTCAACCATGCAAC
* * * * * *
1107719 AACCAATACCAAAAAATTAAAAATTTTTTATCTGACAAAAAGGGGTGTCGATCATG
65 AACCAACACAAAAAAATT--AAATTTTTTAGCAGAAAAAAAGGGCTGTCG---A-G
*
1107775 CAATGGCCAACACCAAAAAATTTAAATTTTTTATCTA-ACAAAAAGGAGGTGTCAACCAT
1 CAATGGCCAACACCAAAAAATTTAAATTTTTTA-CCAGACAAAAAGGAGGTGTCAACCAT
1107834 ACAATGGCCA
Statistics
Matches: 145, Mismatches: 23, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
112 12 0.08
113 54 0.37
115 13 0.09
116 12 0.08
120 42 0.29
121 10 0.07
122 2 0.01
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.24
Consensus pattern (114 bp):
CAATGGCCAACACCAAAAAATTTAAATTTTTTACCAGACAAAAAGGAGGTGTCAACCATGCAACA
ACCAACACAAAAAAATTAAATTTTTTAGCAGAAAAAAAGGGCTGTCGAG
Found at i:1107777 original size:173 final size:177
Alignment explanation
Indices: 1107326--1107964 Score: 485
Period size: 173 Copynumber: 3.6 Consensus size: 177
1107316 ATATTTGAAT
* * * * * * ** **
1107326 TTTTTTATCAAATAGAAAGGTGGTGTCAACCATGCAATAGCCAACACCCAAAAATTTGATTTTTT
1 TTTTTTACCAGATAAAAAGGAGGTGTCAACCATGCAATGGCCAACACCAAAAAATTAAAAATTTT
* * * * * *
1107391 TTATC--A-AATAATAGGTGGAGTCGGCCAATGC-ATGACCAACACAAAAAAAATTGATTTTTTT
66 TTATCTGACAA-AA-AGG-GGTGTCGACC-ATGCAACGACCAACACCAAAAAAATTAAATTTTTT
* * * * * * *
1107452 A-TTAGATAAAACGTGGTGTCGACCATGCAATGGCCAACACCAAAAAAATTTGAA
127 AGCTAAAAAAAAGGAGCTGTCAACCA--CAATGGCCAACACCAAAAAAA-TT-AA
* * * * **
1107506 TTTTTTTATCAGATTAAAAA-GATGGTATCGACCATACAATGGCCAACACCAAAAAATT-TGAAT
1 -TTTTTTACCAGA-TAAAAAGGA-GGTGTCAACCATGCAATGGCCAACACCAAAAAATTAAAAAT
* * * *
1107569 TTTTTATCTGACGAAAAGGGGGTGTTGGCCATGCAACGACCAGCA-CAAAAAAATT-AATTTTTT
63 TTTTTATCTGAC-AAAAAGGGGTGTCGACCATGCAACGACCAACACCAAAAAAATTAAATTTTTT
**
1107632 AGC-AGATAAAAAAGG-GCTGTC-GGC-C-ATGGCCAACACCAAAAAAATTAA
127 AGCTA-A-AAAAAAGGAGCTGTCAACCACAATGGCCAACACCAAAAAAATTAA
** *
1107680 TTTTTTACCAGATAAAAAAGGAGGTGTCAACCATGCAATAACCAATACCAAAAAATTAAAAATTT
1 TTTTTTACCAGAT-AAAAAGGAGGTGTCAACCATGCAATGGCCAACACCAAAAAATTAAAAATTT
* * * * *
1107745 TTTATCTGACAAAAAGGGGTGTCGATCATGCAATGGCCAACACCAAAAAATTTAAATTTTTTATC
65 TTTATCTGACAAAAAGGGGTGTCGACCATGCAACGACCAACACCAAAAAAATTAAATTTTTTAGC
* * *
1107810 TAACAAAAAGGAGGTGTCAACCATACAATGGCCAACACC----AAATT-T
130 TAAAAAAAAGGAGCTGTCAACC--ACAATGGCCAACACCAAAAAAATTAA
* *
1107855 TTTTTTACTAGATAAAAAGGA-GTGTCAACCATGCAATGGCCAACA-CAAAAAA-AAATAAATTT
1 TTTTTTACCAGATAAAAAGGAGGTGTCAACCATGCAATGGCCAACACCAAAAAATTAA-AAATTT
* * * * *
1107917 TTTATCTGACAAAAAGGGGTGTCGGCCATACAATGGCCAACGCCAAAA
65 TTTATCTGACAAAAAGGGGTGTCGACCATGCAACGACCAACACCAAAA
1107965 TTTATTTTTT
Statistics
Matches: 377, Mismatches: 58, Indels: 55
0.77 0.12 0.11
Matches are distributed among these distances:
171 2 0.01
172 58 0.15
173 91 0.24
174 43 0.11
175 30 0.08
176 26 0.07
177 1 0.00
179 1 0.00
180 22 0.06
181 39 0.10
182 57 0.15
183 3 0.01
184 2 0.01
185 2 0.01
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.26
Consensus pattern (177 bp):
TTTTTTACCAGATAAAAAGGAGGTGTCAACCATGCAATGGCCAACACCAAAAAATTAAAAATTTT
TTATCTGACAAAAAGGGGTGTCGACCATGCAACGACCAACACCAAAAAAATTAAATTTTTTAGCT
AAAAAAAAGGAGCTGTCAACCACAATGGCCAACACCAAAAAAATTAA
Found at i:1107963 original size:112 final size:114
Alignment explanation
Indices: 1107657--1107985 Score: 353
Period size: 113 Copynumber: 2.9 Consensus size: 114
1107647 GCTGTCGGCC
* * * * * *
1107657 ATGGCCAACAC-CAAAAAAATTAATTTTTTA-CCAGATAAAAAAGGAGGTGTCAACCATGCAATA
1 ATGGCCAACACAAAAAAAAATAAATTTTTTATCTA-A-CAAAAAGGAGGTGTCAACCATACAATG
* * * * * * *
1107720 ACCAATACCAAAAAATTAAAAATTTTTTATCTGACAAAAAGGGGTGTCGATCATGCA
64 GCCAACACC--AAAATT---TATTTTTTA-CTGATAAAAAGGAGTGTCAACCATGCA
* **
1107777 ATGGCCAACACCAAAAAATTTAAATTTTTTATCTAACAAAAAGGAGGTGTCAACCATACAATGGC
1 ATGGCCAACACAAAAAAAAATAAATTTTTTATCTAACAAAAAGGAGGTGTCAACCATACAATGGC
1107842 CAACACC-AAATTT-TTTTTTACTAGATAAAAAGGAGTGTCAACCATGCA
66 CAACACCAAAATTTATTTTTTACT-GATAAAAAGGAGTGTCAACCATGCA
* **
1107890 ATGGCCAACACAAAAAAAAATAAATTTTTTATCTGACAAAAAGG-GGTGTCGGCCATACAATGGC
1 ATGGCCAACACAAAAAAAAATAAATTTTTTATCTAACAAAAAGGAGGTGTCAACCATACAATGGC
* *
1107954 CAACGCCAAAATTTATTTTTTTCTGATAAAAA
66 CAACACCAAAATTTATTTTTTACTGATAAAAA
1107986 AATACTGGTG
Statistics
Matches: 181, Mismatches: 23, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
112 26 0.14
113 82 0.45
114 8 0.04
117 5 0.03
120 42 0.23
121 16 0.09
122 2 0.01
ACGTcount: A:0.43, C:0.17, G:0.14, T:0.26
Consensus pattern (114 bp):
ATGGCCAACACAAAAAAAAATAAATTTTTTATCTAACAAAAAGGAGGTGTCAACCATACAATGGC
CAACACCAAAATTTATTTTTTACTGATAAAAAGGAGTGTCAACCATGCA
Found at i:1119010 original size:57 final size:59
Alignment explanation
Indices: 1118889--1119013 Score: 182
Period size: 57 Copynumber: 2.1 Consensus size: 59
1118879 TGAAGGTGAA
* * *
1118889 GAAAGTGGTGAAGATGCATATTTTGATGATTGGATGAGGTCTAAACTTTGTAGCAACCATG
1 GAAA-TGGTGAAGATGCATATTTTGATGATT-GAGGAGGTCTAAACTTAGTAGCAACAATG
*
1118950 GAAATGGTGAAGATGCATATTTTGATGA-T-AGGAGGTCTAAACTTAGTGGCAACAATG
1 GAAATGGTGAAGATGCATATTTTGATGATTGAGGAGGTCTAAACTTAGTAGCAACAATG
1119007 GAAATGG
1 GAAATGG
1119014 GCTTAGTGGC
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
57 31 0.52
59 1 0.02
60 24 0.40
61 4 0.07
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.29
Consensus pattern (59 bp):
GAAATGGTGAAGATGCATATTTTGATGATTGAGGAGGTCTAAACTTAGTAGCAACAATG
Found at i:1119076 original size:81 final size:81
Alignment explanation
Indices: 1118941--1119091 Score: 241
Period size: 81 Copynumber: 1.9 Consensus size: 81
1118931 AAACTTTGTA
* * *
1118941 GCAACCATGGAAATGGTGAAGATGCATATTTTGATGATAGGAGGTCTAAACTTAGTGGCAA-CAA
1 GCAACCATGGAAATAGTGAAGATGCATATGTTGATGATAGGAGGTCTAAACTTAGTAGCAAGC-A
1119005 TGGAAATGGGCTTAGTG
65 TGGAAATGGGCTTAGTG
* *
1119022 GCAACCATGGAAATAGTGAAGATGCATATGTTGATGATTGGAGGTCTAAGCTTAGTAGCAAGCAT
1 GCAACCATGGAAATAGTGAAGATGCATATGTTGATGATAGGAGGTCTAAACTTAGTAGCAAGCAT
1119087 GGAAA
66 GGAAA
1119092 CGAAGAATTT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
81 63 0.98
82 1 0.02
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.25
Consensus pattern (81 bp):
GCAACCATGGAAATAGTGAAGATGCATATGTTGATGATAGGAGGTCTAAACTTAGTAGCAAGCAT
GGAAATGGGCTTAGTG
Found at i:1120426 original size:2 final size:2
Alignment explanation
Indices: 1120419--1120443 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1120409 AACAAGCTTC
1120419 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1120444 GGGTTACACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1123115 original size:20 final size:20
Alignment explanation
Indices: 1123090--1123129 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1123080 GTTTGTTTTT
1123090 ATTGTCATAATGCTCTTTGC
1 ATTGTCATAATGCTCTTTGC
1123110 ATTGTCATAATGCTCTTTGC
1 ATTGTCATAATGCTCTTTGC
1123130 CACTCTTGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.45
Consensus pattern (20 bp):
ATTGTCATAATGCTCTTTGC
Found at i:1132411 original size:31 final size:31
Alignment explanation
Indices: 1132375--1132512 Score: 101
Period size: 31 Copynumber: 4.6 Consensus size: 31
1132365 AAAAGATTAG
*
1132375 GTACCAAATTAGGAAAAAGAGTCAAGTTTAT
1 GTACCAAATTAGGAAAAAGAGTCAAGTTTAA
**
1132406 GTACCAAATT-GGACCCCAA-A---AAGTTTAA
1 GTACCAAATTAGGA--AAAAGAGTCAAGTTTAA
* * * * *
1132434 ATACCAACTTA-AAAAAAAATGTCAAGTTTAG
1 GTACCAAATTAGGAAAAAGA-GTCAAGTTTAA
* *
1132465 GTACCAAATTAGAAAAAAGTGTCAAGTTTAA
1 GTACCAAATTAGGAAAAAGAGTCAAGTTTAA
*
1132496 GTATCAAATT-GGAAAAA
1 GTACCAAATTAGGAAAAA
1132513 AAAATTAAGT
Statistics
Matches: 82, Mismatches: 16, Indels: 19
0.70 0.14 0.16
Matches are distributed among these distances:
26 2 0.02
27 1 0.01
28 16 0.20
30 9 0.11
31 46 0.56
32 8 0.10
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.25
Consensus pattern (31 bp):
GTACCAAATTAGGAAAAAGAGTCAAGTTTAA
Found at i:1132513 original size:31 final size:31
Alignment explanation
Indices: 1132426--1132514 Score: 115
Period size: 31 Copynumber: 2.9 Consensus size: 31
1132416 GGACCCCAAA
* * *
1132426 AAGTTTAAATACCAACTTAAAAAAAAATGTC
1 AAGTTTAAGTACCAAATTAGAAAAAAATGTC
* *
1132457 AAGTTTAGGTACCAAATTAGAAAAAAGTGTC
1 AAGTTTAAGTACCAAATTAGAAAAAAATGTC
* *
1132488 AAGTTTAAGTATCAAATTGGAAAAAAA
1 AAGTTTAAGTACCAAATTAGAAAAAAA
1132515 AATTAAGTAC
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.52, C:0.09, G:0.13, T:0.26
Consensus pattern (31 bp):
AAGTTTAAGTACCAAATTAGAAAAAAATGTC
Found at i:1139039 original size:41 final size:41
Alignment explanation
Indices: 1138982--1139077 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
1138972 TTATTCGTAG
* *
1138982 AGAATTCTTGTCAAGGTGGAGATTGTTAGAATTGGGTGACT
1 AGAATTCTTGTTAAGGTGGAGATTGTTAGAATTGGGTAACT
1139023 AGAATTCTTGTTAAGGTGGAGATTGTTAGAATTGGGTAACT
1 AGAATTCTTGTTAAGGTGGAGATTGTTAGAATTGGGTAACT
1139064 AGAATTCTTGTTAA
1 AGAATTCTTGTTAA
1139078 AATAAAATTC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.29, C:0.06, G:0.28, T:0.36
Consensus pattern (41 bp):
AGAATTCTTGTTAAGGTGGAGATTGTTAGAATTGGGTAACT
Found at i:1140677 original size:14 final size:15
Alignment explanation
Indices: 1140658--1140694 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
1140648 ATTTATGAAT
1140658 TTATAAATTA-TATA
1 TTATAAATTACTATA
*
1140672 TTATAAAATACTATA
1 TTATAAATTACTATA
1140687 TT-TAAATT
1 TTATAAATT
1140695 TTTTCCAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 14 0.70
15 6 0.30
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (15 bp):
TTATAAATTACTATA
Found at i:1165138 original size:16 final size:18
Alignment explanation
Indices: 1165117--1165152 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
1165107 TTGTATGTGT
1165117 TATAAAA-T-ACATAATA
1 TATAAAACTAACATAATA
1165133 TATAAAACTAACATAATA
1 TATAAAACTAACATAATA
1165151 TA
1 TA
1165153 CAACATTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 1 0.06
18 10 0.56
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (18 bp):
TATAAAACTAACATAATA
Found at i:1165501 original size:16 final size:15
Alignment explanation
Indices: 1165461--1165505 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
1165451 CCCCCTAAAA
*
1165461 TTATAAAATTTTAAT
1 TTATAACATTTTAAT
* *
1165476 TTAGATCATTTATAAT
1 TTATAACATTT-TAAT
1165492 TTATAACATTTTAA
1 TTATAACATTTTAA
1165506 ATTAATAATG
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.51
Consensus pattern (15 bp):
TTATAACATTTTAAT
Found at i:1175016 original size:25 final size:24
Alignment explanation
Indices: 1174959--1175017 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
1174949 AAAAATAGGT
* *
1174959 TATA-TATTATTTTTCTAATATTA
1 TATATTATAATTTTTCTAATATCA
1174982 TATATTATAATTTTTACTAAT-TCA
1 TATATTATAATTTTT-CTAATATCA
*
1175006 TATTTTAATAAT
1 TATATT-ATAAT
1175018 AATTATATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 4 0.13
24 16 0.53
25 10 0.33
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (24 bp):
TATATTATAATTTTTCTAATATCA
Found at i:1175039 original size:58 final size:56
Alignment explanation
Indices: 1174977--1175136 Score: 175
Period size: 58 Copynumber: 2.8 Consensus size: 56
1174967 ATTTTTCTAA
*
1174977 TATTATATATTATA-ATTTTTACT-AATTCATATTTTAATAATAATTATATTAAAAATAT
1 TATTA-ATATTATATATTTTTATTAAATT-ATA-TTTAATAATAATTATATT-AAAATAT
* *
1175035 TATTAA-ATTATATATTATTTTATTAAATTGTATTTAATAATAATTATGTTAAAATAT
1 TATTAATATTATATA-T-TTTTATTAAATTATATTTAATAATAATTATATTAAAATAT
*
1175092 AATTAA-ATTAATTAATATTTTTATTAAATTATATTTAATAATAAT
1 TATTAATATT-A-T-ATATTTTTATTAAATTATATTTAATAATAAT
1175137 CATTAAATTT
Statistics
Matches: 90, Mismatches: 5, Indels: 14
0.83 0.05 0.13
Matches are distributed among these distances:
56 6 0.07
57 17 0.19
58 50 0.56
59 10 0.11
60 7 0.08
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (56 bp):
TATTAATATTATATATTTTTATTAAATTATATTTAATAATAATTATATTAAAATAT
Found at i:1177422 original size:75 final size:75
Alignment explanation
Indices: 1177199--1177430 Score: 279
Period size: 75 Copynumber: 3.1 Consensus size: 75
1177189 TAGTAACCGG
* * * * **
1177199 ATTGGGTGCTACAACAGGGGACATAG-CTGGAGCCAGCGAAGAAACCGAATCCTCACTGGTTTTT
1 ATTGGTTGCTAAAACAGGGGACATTGAC-GGAGCCGGCGAAGAAACCGAATCCTCACCAGTTTTT
*
1177263 ACAGCAGAATC
65 ACAGCGGAATC
* * **
1177274 ATTGGTTGCTAAAACAGGGGACATTGCCGGAACCGGCGAAGAAACCGAATCCTCACCCTTTTTTA
1 ATTGGTTGCTAAAACAGGGGACATTGACGGAGCCGGCGAAGAAACCGAATCCTCACCAGTTTTTA
*
1177339 CAACGGAATC
66 CAGCGGAATC
* * *
1177349 ATTGGTTGCTAAAGCAGGGGGA-ATTGACGGAGCCGGCGAAGAAACCAAATCCTCACCAGTTTTA
1 ATTGGTTGCTAAAACA-GGGGACATTGACGGAGCCGGCGAAGAAACCGAATCCTCACCAGTTTTT
*
1177413 ACAGTGGAATC
65 ACAGCGGAATC
*
1177424 ATCGGTT
1 ATTGGTT
1177431 TCAGTAATGG
Statistics
Matches: 135, Mismatches: 20, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
75 129 0.96
76 6 0.04
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.21
Consensus pattern (75 bp):
ATTGGTTGCTAAAACAGGGGACATTGACGGAGCCGGCGAAGAAACCGAATCCTCACCAGTTTTTA
CAGCGGAATC
Found at i:1181450 original size:28 final size:27
Alignment explanation
Indices: 1181388--1181448 Score: 122
Period size: 27 Copynumber: 2.3 Consensus size: 27
1181378 TACAATAATA
1181388 AAAATTTAATTTTTAAAAAATTAAATC
1 AAAATTTAATTTTTAAAAAATTAAATC
1181415 AAAATTTAATTTTTAAAAAATTAAATC
1 AAAATTTAATTTTTAAAAAATTAAATC
1181442 AAAATTT
1 AAAATTT
1181449 TATCATTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (27 bp):
AAAATTTAATTTTTAAAAAATTAAATC
Found at i:1192755 original size:19 final size:19
Alignment explanation
Indices: 1192733--1192777 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
1192723 TTATATTAGG
1192733 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
1192752 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
1192771 ATTTAAT
1 ATTTAAT
1192778 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:1199032 original size:24 final size:24
Alignment explanation
Indices: 1198987--1199032 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
1198977 TTGAATTTGT
* *
1198987 ATTAAATATTTTAATTATTTAAGC
1 ATTAAATATTTTAATAAATTAAGC
* *
1199011 ATTAAGTATTTTACTAAATTAA
1 ATTAAATATTTTAATAAATTAA
1199033 TATTTAGATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.48
Consensus pattern (24 bp):
ATTAAATATTTTAATAAATTAAGC
Found at i:1199352 original size:27 final size:27
Alignment explanation
Indices: 1199321--1199377 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
1199311 AGTCGTCGTA
1199321 TATTTAATTGATAATTTAAATTTAATT
1 TATTTAATTGATAATTTAAATTTAATT
*
1199348 TATTTAATTGATAATTTAAATTTAGTT
1 TATTTAATTGATAATTTAAATTTAATT
1199375 TAT
1 TAT
1199378 AAACAATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (27 bp):
TATTTAATTGATAATTTAAATTTAATT
Found at i:1201054 original size:29 final size:29
Alignment explanation
Indices: 1201022--1201130 Score: 80
Period size: 29 Copynumber: 3.7 Consensus size: 29
1201012 TATGGATACC
*
1201022 CGGGGGCAAAATGGTAATTTTGGTGTAAT
1 CGGGGGAAAAATGGTAATTTTGGTGTAAT
* * *** *
1201051 CGGGGTTAAAAATGG-GATTTTAAAAG-ATT
1 CGGGG-GAAAAATGGTAATTTT-GGTGTAAT
*
1201080 CGGGGGTAAAATGGTAATTTTTGGTGTAAT
1 CGGGGGAAAAATGGTAA-TTTTGGTGTAAT
*
1201110 CGGGGTTAAAAATGG-AATTTT
1 CGGGG-GAAAAATGGTAATTTT
1201131 AGAAGCTTCG
Statistics
Matches: 58, Mismatches: 16, Indels: 12
0.67 0.19 0.14
Matches are distributed among these distances:
28 7 0.12
29 23 0.40
30 21 0.36
31 7 0.12
ACGTcount: A:0.31, C:0.05, G:0.31, T:0.33
Consensus pattern (29 bp):
CGGGGGAAAAATGGTAATTTTGGTGTAAT
Found at i:1201062 original size:58 final size:59
Alignment explanation
Indices: 1200990--1201218 Score: 198
Period size: 59 Copynumber: 3.9 Consensus size: 59
1200980 TAAATAATGA
* **
1200990 AATCGGGGTGAAAAACGGGA-CTT-ATGGATACCCGGGGGCAAAATGGTAA-TTTTGGTGT
1 AATCGGGGTTAAAAACGGGATCTTAAAAGAT--CCGGGGGCAAAATGGTAATTTTTGGTGT
* * * *
1201048 AATCGGGGTTAAAAATGGGATTTTAAAAGATTCGGGGGTAAAATGGTAATTTTTGGTGT
1 AATCGGGGTTAAAAACGGGATCTTAAAAGATCCGGGGGCAAAATGGTAATTTTTGGTGT
* * * * * * * * *
1201107 AATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGGTAAAATGATAATTTTTGGTGA
1 AATCGGGGTTAAAAACGGGATCTTAAAAGATCCGGGGGCAAAATGGTAATTTTTGGTGT
** * * * * *
1201166 AATTAGGGTT-AAAATGGAATTTTAAAAGATTC-GGGGTAAAATGGTAATTTTTG
1 AATCGGGGTTAAAAACGGGATCTTAAAAGATCCGGGGGCAAAATGGTAATTTTTG
1201219 AAAGTTTCGG
Statistics
Matches: 151, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
57 20 0.13
58 54 0.36
59 73 0.48
60 4 0.03
ACGTcount: A:0.33, C:0.06, G:0.30, T:0.31
Consensus pattern (59 bp):
AATCGGGGTTAAAAACGGGATCTTAAAAGATCCGGGGGCAAAATGGTAATTTTTGGTGT
Found at i:1201065 original size:30 final size:29
Alignment explanation
Indices: 1201029--1201130 Score: 100
Period size: 30 Copynumber: 3.4 Consensus size: 29
1201019 ACCCGGGGGC
1201029 AAAATGGTAATTTTGGTGTAATCGGGGTTA
1 AAAATGG-AATTTTGGTGTAATCGGGGTTA
* *** * *
1201059 AAAATGGGATTTTAAAAG-ATTCGGGGGT-
1 AAAATGGAATTTT-GGTGTAATCGGGGTTA
1201087 AAAATGGTAATTTTTGGTGTAATCGGGGTTA
1 AAAATGG-AA-TTTTGGTGTAATCGGGGTTA
1201118 AAAATGGAATTTT
1 AAAATGGAATTTT
1201131 AGAAGCTTCG
Statistics
Matches: 55, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
28 7 0.13
29 19 0.35
30 22 0.40
31 7 0.13
ACGTcount: A:0.33, C:0.03, G:0.28, T:0.35
Consensus pattern (29 bp):
AAAATGGAATTTTGGTGTAATCGGGGTTA
Found at i:1201120 original size:59 final size:59
Alignment explanation
Indices: 1201022--1201218 Score: 301
Period size: 59 Copynumber: 3.4 Consensus size: 59
1201012 TATGGATACC
* *
1201022 CGGGGGCAAAATGGTAA-TTTTGGTGTAATCGGGGTTAAAAATGGGATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTTGGTGTAATCGGGGTTAAAAATGGAATTTTAAAAGATT
* *
1201080 CGGGGGTAAAATGGTAATTTTTGGTGTAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTTGGTGTAATCGGGGTTAAAAATGGAATTTTAAAAGATT
* * **
1201139 CGGGGGTAAAATGATAATTTTTGGTGAAATTAGGGTT-AAAATGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTTGGTGTAATCGGGGTTAAAAATGGAATTTTAAAAGATT
1201197 C-GGGGTAAAATGGTAATTTTTG
1 CGGGGGTAAAATGGTAATTTTTG
1201219 AAAGTTTCGG
Statistics
Matches: 127, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
57 20 0.16
58 36 0.28
59 71 0.56
ACGTcount: A:0.33, C:0.04, G:0.29, T:0.34
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTTGGTGTAATCGGGGTTAAAAATGGAATTTTAAAAGATT
Found at i:1201247 original size:30 final size:30
Alignment explanation
Indices: 1201068--1201357 Score: 158
Period size: 30 Copynumber: 9.8 Consensus size: 30
1201058 AAAAATGGGA
* *
1201068 TTTTAAAAGATTCGGGGGTAAAATGGTAAT
1 TTTTGAAAGTTTCGGGGGTAAAATGGTAAT
** * *
1201098 TTTTG-GTGTAATCGGGGTTAAAAATGG-AAT
1 TTTTGAAAGT-TTCGGGGGT-AAAATGGTAAT
* * *
1201128 TTTAG-AAGCTTCGGGGGTAAAATGATAATT
1 TTTTGAAAGTTTCGGGGGTAAAATGGTAA-T
* *
1201158 TTTGGTGAAA--TT-AGGGTTAAAATGG-AA-
1 TTT--TGAAAGTTTCGGGGGTAAAATGGTAAT
* *
1201185 TTTTAAAAGATTC-GGGGTAAAATGGTAAT
1 TTTTGAAAGTTTCGGGGGTAAAATGGTAAT
1201214 TTTTGAAAGTTTCGGGGGTAAAATGGTAAT
1 TTTTGAAAGTTTCGGGGGTAAAATGGTAAT
* *
1201244 TTTTGAAAGTTT-TGGGGTCAAAAT-ATAAT
1 TTTTGAAAGTTTCGGGGGT-AAAATGGTAAT
* * *
1201273 TTTGGAAAAGTTT-TGGGGTCAAAAT-ATAAT
1 TTTTG-AAAGTTTCGGGGGT-AAAATGGTAAT
* * * * *
1201303 TTTGGAAAAGTTTTGAGGTTAAAAT-ATAAT
1 TTTTG-AAAGTTTCGGGGGTAAAATGGTAAT
* * *
1201333 TTTGGAAAAGTTTTGGGGTTAAAAT
1 TTTTG-AAAGTTTCGGGGGTAAAAT
1201358 ATGATTTTGG
Statistics
Matches: 216, Mismatches: 28, Indels: 32
0.78 0.10 0.12
Matches are distributed among these distances:
25 4 0.02
27 16 0.07
28 8 0.04
29 36 0.17
30 137 0.63
31 12 0.06
32 1 0.00
33 2 0.01
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.37
Consensus pattern (30 bp):
TTTTGAAAGTTTCGGGGGTAAAATGGTAAT
Found at i:1201261 original size:29 final size:29
Alignment explanation
Indices: 1201141--1201394 Score: 184
Period size: 30 Copynumber: 8.6 Consensus size: 29
1201131 AGAAGCTTCG
*
1201141 GGGGTAAAATGATAATTTTTGGTGAAA--TTA
1 GGGGTAAAATGATAA-TTTT--TGAAAGTTTT
* * * * *
1201171 GGGTTAAAATG-GAA-TTTTAAAAGATTC
1 GGGGTAAAATGATAATTTTTGAAAGTTTT
* *
1201198 GGGGTAAAATGGTAATTTTTGAAAGTTTCG
1 GGGGTAAAATGATAATTTTTGAAAGTTT-T
*
1201228 GGGGTAAAATGGTAATTTTTGAAAGTTTT
1 GGGGTAAAATGATAATTTTTGAAAGTTTT
*
1201257 GGGGTCAAAAT-ATAATTTTGGAAAAGTTTT
1 GGGGT-AAAATGATAATTTTTG-AAAGTTTT
*
1201287 GGGGTCAAAAT-ATAATTTTGGAAAAGTTTT
1 GGGGT-AAAATGATAATTTTTG-AAAGTTTT
* *
1201317 GAGGTTAAAAT-ATAATTTTGGAAAAGTTTT
1 G-GGGTAAAATGATAATTTTTG-AAAGTTTT
* *
1201347 GGGGTTAAAAT-ATGATTTTGGAAAAGTTTT
1 GGGG-TAAAATGATAATTTTTG-AAAGTTTT
*
1201377 AGGGTCAAAAT-ATAATTT
1 GGGGT-AAAATGATAATTT
1201395 CTGGATAATT
Statistics
Matches: 197, Mismatches: 17, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
25 4 0.02
27 15 0.08
28 2 0.01
29 28 0.14
30 145 0.74
31 3 0.02
ACGTcount: A:0.36, C:0.02, G:0.24, T:0.37
Consensus pattern (29 bp):
GGGGTAAAATGATAATTTTTGAAAGTTTT
Found at i:1201358 original size:30 final size:30
Alignment explanation
Indices: 1201171--1201399 Score: 252
Period size: 30 Copynumber: 7.7 Consensus size: 30
1201161 GGTGAAATTA
** * *
1201171 GGGTTAAAATGGAATTTT--AAAAGATTCG
1 GGGTTAAAATATAATTTTGGAAAAGTTTTG
* * *
1201199 GGG-TAAAATGGTAATTTTTG-AAAGTTTCG
1 GGGTTAAAAT-ATAATTTTGGAAAAGTTTTG
* * *
1201228 GGGGTAAAATGGTAATTTTTG-AAAGTTTTG
1 GGGTTAAAAT-ATAATTTTGGAAAAGTTTTG
*
1201258 GGGTCAAAATATAATTTTGGAAAAGTTTTG
1 GGGTTAAAATATAATTTTGGAAAAGTTTTG
*
1201288 GGGTCAAAATATAATTTTGGAAAAGTTTTG
1 GGGTTAAAATATAATTTTGGAAAAGTTTTG
*
1201318 AGGTTAAAATATAATTTTGGAAAAGTTTTG
1 GGGTTAAAATATAATTTTGGAAAAGTTTTG
* *
1201348 GGGTTAAAATATGATTTTGGAAAAGTTTTA
1 GGGTTAAAATATAATTTTGGAAAAGTTTTG
*
1201378 GGGTCAAAATATAATTTCTGGA
1 GGGTTAAAATATAATTT-TGGA
1201400 TAATTTAGGG
Statistics
Matches: 181, Mismatches: 14, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
27 6 0.03
28 10 0.06
29 19 0.10
30 142 0.78
31 4 0.02
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.37
Consensus pattern (30 bp):
GGGTTAAAATATAATTTTGGAAAAGTTTTG
Found at i:1203125 original size:16 final size:13
Alignment explanation
Indices: 1203091--1203122 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
1203081 TGGCAGGGCA
1203091 TGGTGGATGGAGC
1 TGGTGGATGGAGC
1203104 TGGTGGATGGAGC
1 TGGTGGATGGAGC
1203117 TGGTGG
1 TGGTGG
1203123 TGGCAGTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.12, C:0.06, G:0.56, T:0.25
Consensus pattern (13 bp):
TGGTGGATGGAGC
Found at i:1203300 original size:6 final size:6
Alignment explanation
Indices: 1203291--1203345 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
1203281 TATAATAACA
** *
1203291 TTAAAT TTAAA- TTAAAT TCGAAT TTAAAT TTAAA- TTGAAT TTAAA-
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
1203336 ATAAAT TTAA
1 TTAAAT TTAA
1203346 TATTAAAATA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
5 13 0.34
6 25 0.66
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (6 bp):
TTAAAT
Found at i:1203306 original size:11 final size:11
Alignment explanation
Indices: 1203290--1203352 Score: 72
Period size: 11 Copynumber: 5.5 Consensus size: 11
1203280 TTATAATAAC
1203290 ATTAAATTTAA
1 ATTAAATTTAA
*
1203301 ATTAAATTCGAA
1 ATTAAATT-TAA
*
1203313 TTTAAATTTAA
1 ATTAAATTTAA
*
1203324 ATTGAATTTAA
1 ATTAAATTTAA
*
1203335 AATAAATTTAA
1 ATTAAATTTAA
1203346 TATTAAA
1 -ATTAAA
1203353 ATAAATTTGA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
11 28 0.67
12 14 0.33
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (11 bp):
ATTAAATTTAA
Found at i:1203360 original size:17 final size:16
Alignment explanation
Indices: 1203277--1203365 Score: 79
Period size: 17 Copynumber: 5.3 Consensus size: 16
1203267 TTTCTTTTTA
* *
1203277 AATTTATAATAACATTA
1 AATTTAAAATAA-ATTT
* *
1203294 AATTTAAATTAAATTCG
1 AATTTAAAATAAATT-T
* *
1203311 AATTTAAATTTAAATTG
1 AATTTAAA-ATAAATTT
1203328 AATTTAAAATAAATTT
1 AATTTAAAATAAATTT
1203344 AATATTAAAATAAATTT
1 AAT-TTAAAATAAATTT
*
1203361 GATTT
1 AATTT
1203366 TCAAATGGTT
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
16 14 0.22
17 42 0.67
18 7 0.11
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (16 bp):
AATTTAAAATAAATTT
Found at i:1203824 original size:31 final size:31
Alignment explanation
Indices: 1203786--1204102 Score: 133
Period size: 31 Copynumber: 9.4 Consensus size: 31
1203776 TATCCAACTC
*
1203786 TACTTCAATTTCAAGAGGACGACGTTGCTCT
1 TACTTCAATTTCAAGAGGATGACGTTGCTCT
** * *
1203817 TACTTCAATTTCAGAGATAAAGAC-TTGATAACCAACT
1 TACTTCAATTTCA-AGAGGATGACGTTG-----C-TCT
* *
1203854 CTACTTCAATTTCAAGAGGATAACATTGCTCT
1 -TACTTCAATTTCAAGAGGATGACGTTGCTCT
* * *
1203886 TACTTCAATTTCAGAGATGGA-AACGTGTTATCCACT
1 TACTTCAATTTCA-AGA-GGATGAC--G-T-TGCTCT
* *
1203922 CTACTTCAATTTCAAGGGGATGACATTGCTCT
1 -TACTTCAATTTCAAGAGGATGACGTTGCTCT
* * ** * *
1203954 TACTTCAATTTCAGATATGAAAACGTGTTATCCACT
1 TACTTCAATTTCA-AGAGGATGAC--G-T-TGCTCT
1203990 CTACTTCAATTTCAAG-GGAATGACGTTGCTCT
1 -TACTTCAATTTCAAGAGG-ATGACGTTGCTCT
* *
1204022 TACTTCAATTTC-AGAGG-TGAAAACGTGTTATCCACT
1 TACTTCAATTTCAAGAGGATG---AC--G-T-TGCTCT
1204058 CTACTTCAATTTCAAG-GGAATGACGTTGCTCT
1 -TACTTCAATTTCAAGAGG-ATGACGTTGCTCT
1204090 TACTTCAATTTCA
1 TACTTCAATTTCA
1204103 GAGATGGAAA
Statistics
Matches: 215, Mismatches: 35, Indels: 72
0.67 0.11 0.22
Matches are distributed among these distances:
29 2 0.01
30 2 0.01
31 69 0.32
32 34 0.16
33 7 0.03
34 3 0.01
35 7 0.03
36 23 0.11
37 48 0.22
38 18 0.08
39 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (31 bp):
TACTTCAATTTCAAGAGGATGACGTTGCTCT
Found at i:1203949 original size:68 final size:68
Alignment explanation
Indices: 1203715--1204153 Score: 623
Period size: 68 Copynumber: 6.4 Consensus size: 68
1203705 TACTTCAATT
* ** **
1203715 TCTATTTCAATTTCGAA-GGGATGACGTTGCTCTTACTTCAATTTCAGAGAT-AAAGATTTAATA
1 TCTACTTCAATTTC-AAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAA-ACGTGTTA
1203778 TCCAAC
64 TCC-AC
* * * * *
1203784 TCTACTTCAATTTCAAGAGGACGACGTTGCTCTTACTTCAATTTCAGAGAT-AAAGACTTGATAA
1 TCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAA-ACGTGTTAT
1203848 CCAAC
65 CC-AC
* * * *
1203853 TCTACTTCAATTTCAAGAGGATAACATTGCTCTTACTTCAATTTCAGAGATGGAAACGTGTTATC
1 TCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAAACGTGTTATC
1203918 CAC
66 CAC
* *
1203921 TCTACTTCAATTTCAAGGGGATGACATTGCTCTTACTTCAATTTCAGATATGAAAACGTGTTATC
1 TCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAAACGTGTTATC
1203986 CAC
66 CAC
* *
1203989 TCTACTTCAATTTCAAGGGAATGACGTTGCTCTTACTTCAATTTCAGAGGTGAAAACGTGTTATC
1 TCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAAACGTGTTATC
1204054 CAC
66 CAC
* *
1204057 TCTACTTCAATTTCAAGGGAATGACGTTGCTCTTACTTCAATTTCAGAGATGGAAACGTGTTATC
1 TCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAAACGTGTTATC
1204122 CAC
66 CAC
*
1204125 TCTACTTCAATTTCAAGGGGATGATGTTG
1 TCTACTTCAATTTCAAGGGGATGACGTTG
1204154 AGATCTGCAA
Statistics
Matches: 343, Mismatches: 25, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
68 225 0.66
69 116 0.34
70 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (68 bp):
TCTACTTCAATTTCAAGGGGATGACGTTGCTCTTACTTCAATTTCAGAGATGAAAACGTGTTATC
CAC
Found at i:1216139 original size:58 final size:59
Alignment explanation
Indices: 1216067--1216297 Score: 189
Period size: 59 Copynumber: 3.9 Consensus size: 59
1216057 TAAATAATGA
* ** *
1216067 AATCGGGGTGAAAAACGGGA-CTT-ATGGATACCCGGGGGCAAAATGGTAA-TTTTGGTGT
1 AATCGGGGTTAAAAACGGGATCTTAAAAGAT--CCAGGGGCAAAATGGTAATTTTTGGTGT
* * * *
1216125 AATCGGGGTTAAAAATGGGATTTTAAAAGATTCAGGGGTAAAATGGTAATTTTTGGTGT
1 AATCGGGGTTAAAAACGGGATCTTAAAAGATCCAGGGGCAAAATGGTAATTTTTGGTGT
* * * * * * * * * *
1216184 AATCGGGGTTAAAAATGGAATTTTAGAAGCTTCGGGGGTAAAATGATAATTTTTGGTGA
1 AATCGGGGTTAAAAACGGGATCTTAAAAGATCCAGGGGCAAAATGGTAATTTTTGGTGT
** * * * * * *
1216243 AATTAGGGTTAAAAATGGAATTTTAAAAGATTCGGGGGTAAAATGGTAATTTTTG
1 AATCGGGGTTAAAAACGGGATCTTAAAAGATCCAGGGGCAAAATGGTAATTTTTG
1216298 AAAGTTTTGG
Statistics
Matches: 151, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
58 33 0.22
59 114 0.75
60 4 0.03
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (59 bp):
AATCGGGGTTAAAAACGGGATCTTAAAAGATCCAGGGGCAAAATGGTAATTTTTGGTGT
Found at i:1216147 original size:29 final size:30
Alignment explanation
Indices: 1216106--1216266 Score: 97
Period size: 30 Copynumber: 5.5 Consensus size: 30
1216096 ACCCGGGGGC
1216106 AAAATGGTAATTTTGGTGTAATCGGGGTTA
1 AAAATGGTAATTTTGGTGTAATCGGGGTTA
* *** *
1216136 AAAATGG-GATTTTAAAAG-ATTCAGGGG-T-
1 AAAATGGTAATTTT-GGTGTAATC-GGGGTTA
1216164 AAAATGGTAATTTTTGGTGTAATCGGGGTTA
1 AAAATGGTAA-TTTTGGTGTAATCGGGGTTA
** *
1216195 AAAATGG-AATTTTAGAAGCT--TCGGGGGT-
1 AAAATGGTAATTTT-GGTG-TAATCGGGGTTA
* * **
1216223 AAAATGATAATTTTTGGTGAAATTAGGGTTA
1 AAAATGGTAA-TTTTGGTGTAATCGGGGTTA
1216254 AAAATGG-AATTTT
1 AAAATGGTAATTTT
1216267 AAAAGATTCG
Statistics
Matches: 96, Mismatches: 21, Indels: 29
0.66 0.14 0.20
Matches are distributed among these distances:
28 13 0.14
29 34 0.35
30 35 0.36
31 14 0.15
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.35
Consensus pattern (30 bp):
AAAATGGTAATTTTGGTGTAATCGGGGTTA
Found at i:1216193 original size:59 final size:59
Alignment explanation
Indices: 1216099--1216297 Score: 310
Period size: 59 Copynumber: 3.4 Consensus size: 59
1216089 TATGGATACC
* *
1216099 CGGGGGCAAAATGGTAA-TTTTGGTGTAATCGGGGTTAAAAATGGGATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTTGGTGTAATCGGGGTTAAAAATGGAATTTTAAAAGATT
* * *
1216157 CAGGGGTAAAATGGTAATTTTTGGTGTAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
1 CGGGGGTAAAATGGTAATTTTTGGTGTAATCGGGGTTAAAAATGGAATTTTAAAAGATT
* * **
1216216 CGGGGGTAAAATGATAATTTTTGGTGAAATTAGGGTTAAAAATGGAATTTTAAAAGATT
1 CGGGGGTAAAATGGTAATTTTTGGTGTAATCGGGGTTAAAAATGGAATTTTAAAAGATT
1216275 CGGGGGTAAAATGGTAATTTTTG
1 CGGGGGTAAAATGGTAATTTTTG
1216298 AAAGTTTTGG
Statistics
Matches: 127, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
58 15 0.12
59 112 0.88
ACGTcount: A:0.34, C:0.04, G:0.29, T:0.33
Consensus pattern (59 bp):
CGGGGGTAAAATGGTAATTTTTGGTGTAATCGGGGTTAAAAATGGAATTTTAAAAGATT
Found at i:1216222 original size:30 final size:27
Alignment explanation
Indices: 1216127--1216324 Score: 78
Period size: 29 Copynumber: 6.8 Consensus size: 27
1216117 TTTGGTGTAA
* *
1216127 TCGGGGTTAAAAATGGGATTTTAAAAGAT
1 TCGGGG-TAAAAATGGAATTTTAGAAG-T
* **
1216156 TCAGGGGT-AAAATGGTAATTTTTGGTGT
1 TC-GGGGTAAAAATGG-AATTTTAGAAGT
1216184 AATCGGGGTTAAAAATGGAATTTTAGAAGCT
1 --TCGGGG-TAAAAATGGAATTTTAGAAG-T
* * *
1216215 TCGGGGGT-AAAATGATAATTTTTGGTGAAAT
1 TC-GGGGTAAAAATG-GAA-TTTT--AGAAGT
* * *
1216246 TAGGGTTAAAAATGGAATTTTAAAAGAT
1 TCGGGGTAAAAATGGAATTTTAGAAG-T
*
1216274 TCGGGGGT-AAAATGGTAATTTTTGAAAGTT
1 TC-GGGGTAAAAATGG-AATTTTAG-AAG-T
* * *
1216304 TTGGGGTCAAAATGTAATTTT
1 TCGGGGTAAAAATGGAATTTT
1216325 GGAAAAGTTT
Statistics
Matches: 127, Mismatches: 24, Indels: 36
0.68 0.13 0.19
Matches are distributed among these distances:
27 2 0.02
28 23 0.18
29 43 0.34
30 40 0.31
31 16 0.13
32 3 0.02
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.35
Consensus pattern (27 bp):
TCGGGGTAAAAATGGAATTTTAGAAGT
Found at i:1216285 original size:29 final size:28
Alignment explanation
Indices: 1216127--1216295 Score: 99
Period size: 29 Copynumber: 5.8 Consensus size: 28
1216117 TTTGGTGTAA
* * *
1216127 TCGGGGTTAAAAATGGGATTTTAAAAGAT
1 TCGGGGGT-AAAATGGAATTTTAGAAGAT
* * ** *
1216156 TCAGGGGTAAAATGGTAATTTTTGGTGTAA
1 TCGGGGGTAAAATGG-AATTTTAGAAG-AT
* *
1216186 TCGGGGTTAAAAATGGAATTTTAGAAGCT
1 TCGGGGGT-AAAATGGAATTTTAGAAGAT
* *
1216215 TCGGGGGTAAAATGATAATTTTTGGTGAA-AT
1 TCGGGGGTAAAATG-GAA-TTTT--AGAAGAT
* * *
1216246 T-AGGGTTAAAAATGGAATTTTAAAAGAT
1 TCGGGGGT-AAAATGGAATTTTAGAAGAT
1216274 TCGGGGGTAAAATGGTAATTTT
1 TCGGGGGTAAAATGG-AATTTT
1216296 TGAAAGTTTT
Statistics
Matches: 103, Mismatches: 26, Indels: 22
0.68 0.17 0.15
Matches are distributed among these distances:
27 2 0.02
28 23 0.22
29 35 0.34
30 25 0.24
31 15 0.15
32 3 0.03
ACGTcount: A:0.35, C:0.04, G:0.28, T:0.34
Consensus pattern (28 bp):
TCGGGGGTAAAATGGAATTTTAGAAGAT
Found at i:1216310 original size:118 final size:116
Alignment explanation
Indices: 1216099--1216356 Score: 304
Period size: 118 Copynumber: 2.2 Consensus size: 116
1216089 TATGGATACC
* * * *
1216099 CGGGGGCAAAATGGTAATTTTGGTGTAATCGGGGTTAAAAATGGGATTTTAAAAGATTCAGGGGT
1 CGGGGGCAAAATGATAATTTTGGTGAAATCAGGGTTAAAAATGGAATTTTAAAAGATTCAGGGGT
**
1216164 AAAATGGTAATTTTTGGTGTAATCGGGGTTAAAAATGGAATTTTAGAAGCTT
66 AAAATGGTAATTTTTGAAGTAATCGGGG-TAAAAATGGAATTTTAGAAGCTT
* * *
1216216 CGGGGGTAAAATGATAATTTTTGGTGAAATTAGGGTTAAAAATGGAATTTTAAAAGATTCGGGGG
1 CGGGGGCAAAATGATAA-TTTTGGTGAAATCAGGGTTAAAAATGGAATTTTAAAAGATTCAGGGG
* * * * * *
1216281 TAAAATGGTAATTTTTGAAAGT-TTTGGGGTCAAAATGTAATTTTGGAAAAGTTT
65 TAAAATGGTAATTTTTG-AAGTAATCGGGGTAAAAATGGAATTTT--AGAAGCTT
* *
1216335 TGGGGTCAAAAT-ATAATTTTGG
1 CGGGGGCAAAATGATAATTTTGG
1216357 AAAAGTTTTG
Statistics
Matches: 119, Mismatches: 18, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
117 34 0.29
118 68 0.57
119 17 0.14
ACGTcount: A:0.34, C:0.04, G:0.28, T:0.34
Consensus pattern (116 bp):
CGGGGGCAAAATGATAATTTTGGTGAAATCAGGGTTAAAAATGGAATTTTAAAAGATTCAGGGGT
AAAATGGTAATTTTTGAAGTAATCGGGGTAAAAATGGAATTTTAGAAGCTT
Found at i:1216332 original size:30 final size:30
Alignment explanation
Indices: 1216289--1216418 Score: 208
Period size: 30 Copynumber: 4.3 Consensus size: 30
1216279 GGTAAAATGG
* *
1216289 TAATTTTTG-AAAGTTTTGGGGTCAAAATG
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
1216318 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
*
1216348 TAATTTTGGAAAAGTTTTGGGGTTAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
*
1216378 TGATTTTGGAAAAGTTTTGGGGTCAAAATA
1 TAATTTTGGAAAAGTTTTGGGGTCAAAATA
1216408 TAATTTCTGGA
1 TAATTT-TGGA
1216419 TAATTTAGGG
Statistics
Matches: 93, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
29 8 0.09
30 81 0.87
31 4 0.04
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.39
Consensus pattern (30 bp):
TAATTTTGGAAAAGTTTTGGGGTCAAAATA
Found at i:1218118 original size:13 final size:13
Alignment explanation
Indices: 1218102--1218146 Score: 81
Period size: 13 Copynumber: 3.5 Consensus size: 13
1218092 TGGCAGGGCA
1218102 TGGTGGATGGAGC
1 TGGTGGATGGAGC
*
1218115 TGGTGGATGAAGC
1 TGGTGGATGGAGC
1218128 TGGTGGATGGAGC
1 TGGTGGATGGAGC
1218141 TGGTGG
1 TGGTGG
1218147 TGGCAATAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.16, C:0.07, G:0.53, T:0.24
Consensus pattern (13 bp):
TGGTGGATGGAGC
Found at i:1218229 original size:14 final size:14
Alignment explanation
Indices: 1218210--1218271 Score: 56
Period size: 14 Copynumber: 4.5 Consensus size: 14
1218200 TTGGGCCTAT
1218210 TTGGGCCATTGTAA
1 TTGGGCCATTGTAA
**
1218224 TTGGGCCGA--AAAA
1 TTGGGCC-ATTGTAA
* * *
1218237 ATGGGTCTTTGTAA
1 TTGGGCCATTGTAA
1218251 TTGGGCCATTGTAA
1 TTGGGCCATTGTAA
1218265 TTGGGCC
1 TTGGGCC
1218272 CTGGGCCATG
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
13 7 0.20
14 27 0.77
15 1 0.03
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.32
Consensus pattern (14 bp):
TTGGGCCATTGTAA
Found at i:1218325 original size:6 final size:6
Alignment explanation
Indices: 1218314--1218369 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
1218304 TATAATAACA
** **
1218314 TTAAAT TTAAA- TTAAAT TCGAAT TTAAAT TTAAAT TCGAAT TT-AAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
1218360 TTAAAT TTAA
1 TTAAAT TTAA
1218370 TATTAAAATA
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
5 10 0.24
6 31 0.76
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (6 bp):
TTAAAT
Found at i:1218340 original size:23 final size:22
Alignment explanation
Indices: 1218314--1218376 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 22
1218304 TATAATAACA
1218314 TTAAATTTAAATTAAATTCGAAT
1 TTAAATTTAAATTAAATT-GAAT
* *
1218337 TTAAATTTAAATTCGAATTTAAT
1 TTAAATTTAAATT-AAATTGAAT
1218360 TTAAATTTAATATTAAA
1 TTAAATTTAA-ATTAAA
1218377 ATAAATTTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 28 0.80
24 7 0.20
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (22 bp):
TTAAATTTAAATTAAATTGAAT
Found at i:1218348 original size:18 final size:18
Alignment explanation
Indices: 1218317--1218366 Score: 86
Period size: 17 Copynumber: 2.9 Consensus size: 18
1218307 AATAACATTA
1218317 AATTTAAA-TTAAATTCG
1 AATTTAAATTTAAATTCG
1218334 AATTTAAATTTAAATTCG
1 AATTTAAATTTAAATTCG
1218352 AATTT-AATTTAAATT
1 AATTTAAATTTAAATT
1218367 TAATATTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 18 0.56
18 14 0.44
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (18 bp):
AATTTAAATTTAAATTCG
Found at i:1218375 original size:17 final size:17
Alignment explanation
Indices: 1218317--1218366 Score: 82
Period size: 18 Copynumber: 2.9 Consensus size: 17
1218307 AATAACATTA
*
1218317 AATTTAAATTAAATTCG
1 AATTTAATTTAAATTCG
1218334 AATTTAAATTTAAATTCG
1 AATTT-AATTTAAATTCG
1218352 AATTTAATTTAAATT
1 AATTTAATTTAAATT
1218367 TAATATTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 15 0.48
18 16 0.52
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (17 bp):
AATTTAATTTAAATTCG
Found at i:1218383 original size:23 final size:22
Alignment explanation
Indices: 1218297--1218384 Score: 70
Period size: 23 Copynumber: 3.9 Consensus size: 22
1218287 GGACTTTCTT
* *
1218297 TTTAATTTATAATAACA-TTAAA
1 TTTAAATTAAAATAA-ATTTAAA
* *
1218319 TTTAAATTAAATTCGAATTTAAA
1 TTTAAATTAAAAT-AAATTTAAA
* * *
1218342 TTTAAATTCGAATTTAATTTAAA
1 TTTAAATT-AAAATAAATTTAAA
1218365 TTTAATATTAAAATAAATTT
1 TTTAA-ATTAAAATAAATTT
1218385 GATTTTCAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
22 11 0.21
23 35 0.66
24 7 0.13
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.47
Consensus pattern (22 bp):
TTTAAATTAAAATAAATTTAAA
Found at i:1222153 original size:16 final size:16
Alignment explanation
Indices: 1222132--1222171 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
1222122 AATTAAAATA
1222132 AAATTTTAT-TATTTT
1 AAATTTTATATATTTT
1222147 AATATTTTATATATTTT
1 AA-ATTTTATATATTTT
1222164 AAATTTTA
1 AAATTTTA
1222172 AAAAGATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 2 0.09
16 13 0.57
17 8 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
AAATTTTATATATTTT
Found at i:1222368 original size:15 final size:16
Alignment explanation
Indices: 1222348--1222377 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1222338 TTTTTATAAA
1222348 AAATAA-TATAAAAAC
1 AAATAATTATAAAAAC
1222363 AAATAATTATAAAAA
1 AAATAATTATAAAAA
1222378 TAGGGTGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATAATTATAAAAAC
Found at i:1232328 original size:23 final size:22
Alignment explanation
Indices: 1232275--1232341 Score: 62
Period size: 23 Copynumber: 3.0 Consensus size: 22
1232265 GATTAAAATT
* **
1232275 AAATTATAATTTTTATGATAATA
1 AAATTATAA-TTTTATAATTTTA
* *
1232298 AAAATATAATTTTATTATTTTA
1 AAATTATAATTTTATAATTTTA
*
1232320 ATAATTATATTTTTATAATTTT
1 A-AATTATAATTTTATAATTTT
1232342 TAAGATATTA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 11 0.31
23 25 0.69
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (22 bp):
AAATTATAATTTTATAATTTTA
Found at i:1238257 original size:36 final size:36
Alignment explanation
Indices: 1238210--1238283 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 36
1238200 TACCCATGTC
*
1238210 CTATGCATATTTGGAAGCATGTACCGAGATATGACT
1 CTATGCATATTTGGAAGCATGTACCAAGATATGACT
* * *
1238246 CTATGCATATTTGGACGTATGTGCCAAGATATGACT
1 CTATGCATATTTGGAAGCATGTACCAAGATATGACT
1238282 CT
1 CT
1238284 CTGAGGACTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (36 bp):
CTATGCATATTTGGAAGCATGTACCAAGATATGACT
Found at i:1255438 original size:24 final size:25
Alignment explanation
Indices: 1255393--1255457 Score: 64
Period size: 24 Copynumber: 2.7 Consensus size: 25
1255383 AATAATCTTC
* * *
1255393 ATAATACTTTTATCTGTTTATATTT
1 ATAATACTTTTATATATATATATTT
1255418 ATAATA-TTTTATATATATATATTT
1 ATAATACTTTTATATATATATATTT
* *
1255442 -GAACACTTTTAT-TATA
1 ATAATACTTTTATATATA
1255458 AGTTTTATCA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
23 7 0.21
24 21 0.62
25 6 0.18
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.55
Consensus pattern (25 bp):
ATAATACTTTTATATATATATATTT
Found at i:1255976 original size:16 final size:16
Alignment explanation
Indices: 1255949--1255988 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
1255939 TTAAATCTTT
1255949 TAAAATTA-TAAAT-A
1 TAAAATTATTAAATAA
1255963 TATAAATTATTAAATAA
1 TA-AAATTATTAAATAA
1255980 TAAAATTAT
1 TAAAATTAT
1255989 ATATTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 2 0.09
15 6 0.26
16 12 0.52
17 3 0.13
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TAAAATTATTAAATAA
Found at i:1266476 original size:31 final size:30
Alignment explanation
Indices: 1266436--1266536 Score: 91
Period size: 31 Copynumber: 3.3 Consensus size: 30
1266426 TCCATTTGCT
1266436 TTTGAATTTTGTAATTAGATTTATTTTGATA
1 TTTGAATTTTGTAATTA-ATTTATTTTGATA
* ** * *
1266467 TTTGTATTTTTTGTGGTTAA-TAATTTTAATA
1 TTTG-A-ATTTTGTAATTAATTTATTTTGATA
1266498 TTTGAA-TTTGATAATTAAATTTATTTTGAT-
1 TTTGAATTTTG-TAATT-AATTTATTTTGATA
1266528 TTTGAATTT
1 TTTGAATTT
1266537 GGATTTCGTA
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
28 4 0.07
29 3 0.06
30 9 0.17
31 27 0.50
32 2 0.04
33 9 0.17
ACGTcount: A:0.29, C:0.00, G:0.12, T:0.59
Consensus pattern (30 bp):
TTTGAATTTTGTAATTAATTTATTTTGATA
Found at i:1267142 original size:106 final size:106
Alignment explanation
Indices: 1266957--1267170 Score: 428
Period size: 106 Copynumber: 2.0 Consensus size: 106
1266947 GAAAATTCCG
1266957 TGCCACATAGTCACGAGGACCTCAACAAGTTGAGTGACGGAAGTTGAGAGGGTGTTATGGTCACC
1 TGCCACATAGTCACGAGGACCTCAACAAGTTGAGTGACGGAAGTTGAGAGGGTGTTATGGTCACC
1267022 CATGTCTATGGTCAATGTAGGGTAGTGAAATTTGTGGTCGT
66 CATGTCTATGGTCAATGTAGGGTAGTGAAATTTGTGGTCGT
1267063 TGCCACATAGTCACGAGGACCTCAACAAGTTGAGTGACGGAAGTTGAGAGGGTGTTATGGTCACC
1 TGCCACATAGTCACGAGGACCTCAACAAGTTGAGTGACGGAAGTTGAGAGGGTGTTATGGTCACC
1267128 CATGTCTATGGTCAATGTAGGGTAGTGAAATTTGTGGTCGT
66 CATGTCTATGGTCAATGTAGGGTAGTGAAATTTGTGGTCGT
1267169 TG
1 TG
1267171 TTTTATATTC
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
106 108 1.00
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (106 bp):
TGCCACATAGTCACGAGGACCTCAACAAGTTGAGTGACGGAAGTTGAGAGGGTGTTATGGTCACC
CATGTCTATGGTCAATGTAGGGTAGTGAAATTTGTGGTCGT
Found at i:1267306 original size:14 final size:14
Alignment explanation
Indices: 1267287--1267313 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1267277 ATTATACTCC
1267287 TATTTATGGGTCGG
1 TATTTATGGGTCGG
1267301 TATTTATGGGTCG
1 TATTTATGGGTCG
1267314 AGGAGAGACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.07, G:0.33, T:0.44
Consensus pattern (14 bp):
TATTTATGGGTCGG
Found at i:1272121 original size:30 final size:31
Alignment explanation
Indices: 1272087--1272145 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
1272077 TTATATTTTG
*
1272087 ATTCTTTAAAAATGAT-AAAATATTAATTTA
1 ATTCTTTAAAAATGATAAAAATATAAATTTA
*
1272117 ATTCTTTAAAAATTATAAAAATATAAATT
1 ATTCTTTAAAAATGATAAAAATATAAATT
1272146 ATTAAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (31 bp):
ATTCTTTAAAAATGATAAAAATATAAATTTA
Found at i:1272146 original size:15 final size:17
Alignment explanation
Indices: 1272125--1272165 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
1272115 TAATTCTTTA
1272125 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
*
1272141 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
1272157 AAAATTATA
1 AAAATTATA
1272166 TTTTTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:1286366 original size:18 final size:19
Alignment explanation
Indices: 1286343--1286381 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
1286333 TTGTTAAAAC
*
1286343 ATAAAAATTTAAT-TTATA
1 ATAAAAATATAATATTATA
1286361 AT-AAAATATAATATTATA
1 ATAAAAATATAATATTATA
1286379 ATA
1 ATA
1286382 TAAACATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
ATAAAAATATAATATTATA
Found at i:1288203 original size:31 final size:30
Alignment explanation
Indices: 1288150--1288208 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
1288140 GCAAGCTAAT
*
1288150 ATAATTTATATATATTATATAAAATTTAAAA
1 ATAATTTATATATATTAAAT-AAATTTAAAA
*
1288181 ATAATTTA-ATTTAATTAAATAAATTTAA
1 ATAATTTATATAT-ATTAAATAAATTTAA
1288209 CTATTATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (30 bp):
ATAATTTATATATATTAAATAAATTTAAAA
Found at i:1290692 original size:29 final size:29
Alignment explanation
Indices: 1290660--1290817 Score: 85
Period size: 29 Copynumber: 5.4 Consensus size: 29
1290650 TGACTTCTGA
1290660 GGGTAAAAATGTAATTTTTGGTAAAATCG
1 GGGTAAAAATGTAATTTTTGGTAAAATCG
* ** **
1290689 GGGTCAAAATGGGA-TTTTGG-AAGGTTCGG
1 GGGTAAAAATGTAATTTTTGGTAA-AATC-G
*
1290718 GGGT-AAAATGGTAATTTTTGGTGAAATCG
1 GGGTAAAAAT-GTAATTTTTGGTAAAATCG
* ** *
1290747 GAGTCAAAAATGGGA-TTTTGG-AAAGTTCGG
1 GGGT-AAAAATGTAATTTTTGGTAAA-ATC-G
* * *
1290777 GGGT-AAAATGGTAATTTTGGGTGAAATTG
1 GGGTAAAAAT-GTAATTTTTGGTAAAATCG
1290806 GGGTCAAAAATG
1 GGGT-AAAAATG
1290818 GCATTTTAGA
Statistics
Matches: 93, Mismatches: 22, Indels: 27
0.65 0.15 0.19
Matches are distributed among these distances:
27 2 0.02
28 20 0.22
29 37 0.40
30 21 0.23
31 13 0.14
ACGTcount: A:0.32, C:0.04, G:0.33, T:0.30
Consensus pattern (29 bp):
GGGTAAAAATGTAATTTTTGGTAAAATCG
Found at i:1290783 original size:59 final size:59
Alignment explanation
Indices: 1290660--1290955 Score: 380
Period size: 59 Copynumber: 5.0 Consensus size: 59
1290650 TGACTTCTGA
* * * * * *
1290660 GGGTAAAAAT-GTAATTTTTGGTAAAATCGGGGTC-AAAATGGGATTTTGGAAGGTTCGG
1 GGGT-AAAATGGTAATTTTGGGTGAAATCGGGGTCAAAAATGGAATTTTAGAAAGTTCAG
* * * * *
1290718 GGGTAAAATGGTAATTTTTGGTGAAATCGGAGTCAAAAATGGGATTTTGGAAAGTTCGG
1 GGGTAAAATGGTAATTTTGGGTGAAATCGGGGTCAAAAATGGAATTTTAGAAAGTTCAG
* * *
1290777 GGGTAAAATGGTAATTTTGGGTGAAATTGGGGTCAAAAATGGCATTTTAGAAAGTTTAG
1 GGGTAAAATGGTAATTTTGGGTGAAATCGGGGTCAAAAATGGAATTTTAGAAAGTTCAG
** * *
1290836 GGGTAAAATGGTAATTTTGGGTGAAATTAGGGTTAAAAATGGAATTTTAGAAAGTTTAG
1 GGGTAAAATGGTAATTTTGGGTGAAATCGGGGTCAAAAATGGAATTTTAGAAAGTTCAG
* * *
1290895 GGGTAAAATGGTAATTTTAGGTGAAATCGGGGTTAAAAATGGAATTTTAGAAAGTTTAG
1 GGGTAAAATGGTAATTTTGGGTGAAATCGGGGTCAAAAATGGAATTTTAGAAAGTTCAG
1290954 GG
1 GG
1290956 ACTAGAGAGC
Statistics
Matches: 220, Mismatches: 16, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
57 5 0.02
58 26 0.12
59 189 0.86
ACGTcount: A:0.34, C:0.03, G:0.31, T:0.32
Consensus pattern (59 bp):
GGGTAAAATGGTAATTTTGGGTGAAATCGGGGTCAAAAATGGAATTTTAGAAAGTTCAG
Found at i:1290853 original size:29 final size:29
Alignment explanation
Indices: 1290805--1290955 Score: 127
Period size: 30 Copynumber: 5.1 Consensus size: 29
1290795 GGGTGAAATT
*
1290805 GGGGTCAAAAATGGCATTTTAGAAAGTTTA
1 GGGGT-AAAAATGGAATTTTAGAAAGTTTA
*
1290835 GGGGT-AAAATGGTAATTTTGGGTGAAA--TTA
1 GGGGTAAAAATGG-AATTTT---AGAAAGTTTA
*
1290865 GGGTTAAAAATGGAATTTTAGAAAGTTTA
1 GGGGTAAAAATGGAATTTTAGAAAGTTTA
*
1290894 GGGGT-AAAATGGTAATTTTAGGTGAAA---TC
1 GGGGTAAAAATGG-AATTTTA---GAAAGTTTA
1290923 GGGGTTAAAAATGGAATTTTAGAAAGTTTA
1 GGGG-TAAAAATGGAATTTTAGAAAGTTTA
1290953 GGG
1 GGG
1290956 ACTAGAGAGC
Statistics
Matches: 98, Mismatches: 7, Indels: 32
0.72 0.05 0.23
Matches are distributed among these distances:
27 8 0.08
28 14 0.14
29 24 0.24
30 30 0.31
31 14 0.14
32 8 0.08
ACGTcount: A:0.36, C:0.02, G:0.30, T:0.32
Consensus pattern (29 bp):
GGGGTAAAAATGGAATTTTAGAAAGTTTA
Found at i:1292894 original size:17 final size:17
Alignment explanation
Indices: 1292872--1292934 Score: 67
Period size: 16 Copynumber: 3.8 Consensus size: 17
1292862 TCTTAAATAT
1292872 ATTTAAATTTAAAACAA
1 ATTTAAATTTAAAACAA
*
1292889 ATTTAAATTT-AAATAA
1 ATTTAAATTTAAAACAA
* **
1292905 ATTTAAAATTAATTCAA
1 ATTTAAATTTAAAACAA
*
1292922 ACTT-AATTTAAAA
1 ATTTAAATTTAAAA
1292935 TCCAAGTTGG
Statistics
Matches: 36, Mismatches: 9, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (17 bp):
ATTTAAATTTAAAACAA
Found at i:1292901 original size:33 final size:32
Alignment explanation
Indices: 1292864--1292933 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 32
1292854 TCAAATTATC
* * *
1292864 TTAAATATATTTAAATTTAAAACAAATTTAAAT
1 TTAAATAAATTTAAAATTAAAACAAACTT-AAT
**
1292897 TTAAATAAATTTAAAATTAATTCAAACTTAAT
1 TTAAATAAATTTAAAATTAAAACAAACTTAAT
1292929 TTAAA
1 TTAAA
1292934 ATCCAAGTTG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 8 0.25
33 24 0.75
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (32 bp):
TTAAATAAATTTAAAATTAAAACAAACTTAAT
Found at i:1292908 original size:16 final size:16
Alignment explanation
Indices: 1292864--1292916 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
1292854 TCAAATTATC
*
1292864 TTAAATATATTTAAAT
1 TTAAATAAATTTAAAT
*
1292880 TTAAAACAAATTTAAAT
1 TT-AAATAAATTTAAAT
*
1292897 TTAAATAAATTTAAAA
1 TTAAATAAATTTAAAT
1292913 TTAA
1 TTAA
1292917 TTCAAACTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 18 0.56
17 14 0.44
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (16 bp):
TTAAATAAATTTAAAT
Found at i:1292918 original size:27 final size:27
Alignment explanation
Indices: 1292875--1292927 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
1292865 TAAATATATT
* *
1292875 TAAATTTAAAACAAATTTAAATTTAAA
1 TAAATTTAAAACAAATTCAAACTTAAA
**
1292902 TAAATTTAAAATTAATTCAAACTTAA
1 TAAATTTAAAACAAATTCAAACTTAA
1292928 TTTAAAATCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (27 bp):
TAAATTTAAAACAAATTCAAACTTAAA
Found at i:1293359 original size:10 final size:10
Alignment explanation
Indices: 1293345--1293378 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
1293335 TTACACTAAT
*
1293345 CACCTCACCT
1 CACCTCACCC
1293355 CACCTCACCC
1 CACCTCACCC
*
1293365 CACCCCACCC
1 CACCTCACCC
1293375 CACC
1 CACC
1293379 ACCACTCTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.21, C:0.71, G:0.00, T:0.09
Consensus pattern (10 bp):
CACCTCACCC
Found at i:1296850 original size:21 final size:21
Alignment explanation
Indices: 1296826--1296865 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1296816 GAAGAAGAAA
*
1296826 CACAGAGATTGAAATGAAAGG
1 CACAGAGATTCAAATGAAAGG
1296847 CACAGAGATTCAAATGAAA
1 CACAGAGATTCAAATGAAA
1296866 AGCAGCAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.23, T:0.15
Consensus pattern (21 bp):
CACAGAGATTCAAATGAAAGG
Found at i:1297538 original size:2 final size:2
Alignment explanation
Indices: 1297531--1297561 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1297521 CCCCATTTAC
1297531 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1297562 ATTTGCAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1305858 original size:115 final size:116
Alignment explanation
Indices: 1305671--1305923 Score: 289
Period size: 114 Copynumber: 2.2 Consensus size: 116
1305661 AAAAATTGCT
* * ** * *
1305671 CATCAAATGGCCGACACCCCTTTTTCTCGAAAAAAAATTGTATTTTTGGGTGTTGGCTATCAAAT
1 CATCAAATGGCCGACACCCCCTATTCT--AAAAAAAATTACATTTTTGGGTGTTGACCATCAAAT
*
1305736 GGCTGAC-ACTTCCCTTTTCTCAAGAAAAAAATTT-AAAATTTTTTTGGTGTTGGC
64 GGCTGACAAC--CCCTTTTCTCAAGAAAAAAATTTCAAAATTTTTTT-ATGTTGGC
* ***
1305790 CATCAAATGGCCGACACCCCCTATT-T-AAAAAATTTACATTTTTGGGTGTTGACCATTGCATGG
1 CATCAAATGGCCGACACCCCCTATTCTAAAAAAAATTACATTTTTGGGTGTTGACCATCAAATGG
* * *
1305853 TTGACAACCTCTTTTCTCGAGAAAAAAATTTCAAAATTTTTTTATGTTGGC
66 CTGACAACCCCTTTTCTCAAGAAAAAAATTTCAAAATTTTTTTATGTTGGC
**
1305904 CATCAAATGATCGACACCCC
1 CATCAAATGGCCGACACCCC
1305924 TTTTTCTCGG
Statistics
Matches: 116, Mismatches: 16, Indels: 9
0.82 0.11 0.06
Matches are distributed among these distances:
114 46 0.40
115 44 0.38
116 2 0.02
118 1 0.01
119 23 0.20
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (116 bp):
CATCAAATGGCCGACACCCCCTATTCTAAAAAAAATTACATTTTTGGGTGTTGACCATCAAATGG
CTGACAACCCCTTTTCTCAAGAAAAAAATTTCAAAATTTTTTTATGTTGGC
Found at i:1307778 original size:74 final size:74
Alignment explanation
Indices: 1307656--1307804 Score: 280
Period size: 74 Copynumber: 2.0 Consensus size: 74
1307646 CGAAATATAG
*
1307656 AAACATAGTTTCGGCTCATCTACTCGACGAACAAACCGACGAATAAGAGTTATTCGTAGGACAAC
1 AAACATAGTTTCGGCTCATCTACTCGACGAACAAACCGACGAAGAAGAGTTATTCGTAGGACAAC
1307721 AATTTGAGA
66 AATTTGAGA
*
1307730 AAACATAGTTTCGGCTTATCTACTCGACGAACAAACCGACGAAGAAGAGTTATTCGTAGGACAAC
1 AAACATAGTTTCGGCTCATCTACTCGACGAACAAACCGACGAAGAAGAGTTATTCGTAGGACAAC
1307795 AATTTGAGA
66 AATTTGAGA
1307804 A
1 A
1307805 CAAGAAGTAC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (74 bp):
AAACATAGTTTCGGCTCATCTACTCGACGAACAAACCGACGAAGAAGAGTTATTCGTAGGACAAC
AATTTGAGA
Found at i:1309792 original size:12 final size:12
Alignment explanation
Indices: 1309750--1309797 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 12
1309740 ATTTGTGTAA
*
1309750 AAATTAATTTGA
1 AAATTAATTTGG
1309762 AAATTAATTTAAGTTG
1 AAATTAATTT--G--G
1309778 AAATTAATTTGG
1 AAATTAATTTGG
1309790 AAATTAAT
1 AAATTAAT
1309798 GAACATGTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
12 19 0.61
14 2 0.06
16 10 0.32
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (12 bp):
AAATTAATTTGG
Found at i:1310120 original size:86 final size:86
Alignment explanation
Indices: 1309926--1310293 Score: 521
Period size: 86 Copynumber: 4.3 Consensus size: 86
1309916 AAAAAAATAG
* * * * *
1309926 TTATTATATTACAATTTATATCAAATATTGTGTTAATTTGACAATACATTATTTATCAAATTTTC
1 TTATTATATTATAATTTTTATCAAATAATGTGTTGATTTGACAATACATTATTTAT-TAATTTT-
*
1309991 ATA--TTTAAAGT--ATAA-ATTA
64 ATATCTTTAAA-TAAAAAATATTA
* *
1310010 TTATTATATTACAATTTTTATCAAATAATATGTTGATTTGACAATACATTATTTATTAATTTTAT
1 TTATTATATTATAATTTTTATCAAATAATGTGTTGATTTGACAATACATTATTTATTAATTTTAT
1310075 ATCTTTAAATAAAAAATATTA
66 ATCTTTAAATAAAAAATATTA
* *
1310096 TTATTATATTATAATTTTTATCAAATAATGTGTTGATTTGACAATACCTTATTTATTACTTTTAT
1 TTATTATATTATAATTTTTATCAAATAATGTGTTGATTTGACAATACATTATTTATTAATTTTAT
1310161 ATCTTTAAATAAAAATTATTATTA
66 ATCTTTAAATAAAAA--A-TATTA
* * *
1310185 TTATTATCTTATAATTTTTATCATATAATGTATTGATTTGACAATACATTATTTATTAATTTTAT
1 TTATTATATTATAATTTTTATCAAATAATGTGTTGATTTGACAATACATTATTTATTAATTTTAT
*
1310250 ATCTTTAAATAAAAATTATTA
66 ATCTTTAAATAAAAAATATTA
1310271 TTATTATATTATAATTTTTATCA
1 TTATTATATTATAATTTTTATCA
1310294 TATTTTGAAT
Statistics
Matches: 259, Mismatches: 17, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
82 3 0.01
83 7 0.03
84 58 0.22
85 3 0.01
86 107 0.41
88 1 0.00
89 80 0.31
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.51
Consensus pattern (86 bp):
TTATTATATTATAATTTTTATCAAATAATGTGTTGATTTGACAATACATTATTTATTAATTTTAT
ATCTTTAAATAAAAAATATTA
Found at i:1310227 original size:175 final size:170
Alignment explanation
Indices: 1309926--1310293 Score: 535
Period size: 175 Copynumber: 2.1 Consensus size: 170
1309916 AAAAAAATAG
* * *
1309926 TTATTATATTACAATTTATATCAAATATTGTGTTAATTTGACAATACATTATTTATCAAATTTTC
1 TTATTATATTATAATTTTTATCAAATAATGTGTTAATTTGACAATACATTATTTATCAAATTTTC
* *
1309991 ATATTTAAAGTATAAATTATTATTATATTACAATTTTTATCAAATAATATGTTGATTTGACAATA
66 ATATTTAAAGTAAAAATTATTATTATATTACAATTTTTATCAAATAATATATTGATTTGACAATA
1310056 CATTATTTATTAATTTTATATCTTTAAATAAAAAATATTA
131 CATTATTTATTAATTTTATATCTTTAAATAAAAAATATTA
* * * *
1310096 TTATTATATTATAATTTTTATCAAATAATGTGTTGATTTGACAATACCTTATTTAT-TACTTTT-
1 TTATTATATTATAATTTTTATCAAATAATGTGTTAATTTGACAATACATTATTTATCAAATTTTC
* *
1310159 ATATCTTTAAA-TAAAAATTATTATTATTATTATCTTATAATTTTTATCATATAATGTATTGATT
66 ATA--TTTAAAGTAAAAATTATTATTA-TATTA-C----AATTTTTATCAAATAATATATTGATT
*
1310223 TGACAATACATTATTTATTAATTTTATATCTTTAAATAAAAATTATTA
123 TGACAATACATTATTTATTAATTTTATATCTTTAAATAAAAAATATTA
1310271 TTATTATATTATAATTTTTATCA
1 TTATTATATTATAATTTTTATCA
1310294 TATTTTGAAT
Statistics
Matches: 178, Mismatches: 12, Indels: 11
0.89 0.06 0.05
Matches are distributed among these distances:
168 3 0.02
169 19 0.11
170 62 0.35
171 1 0.01
175 93 0.52
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.51
Consensus pattern (170 bp):
TTATTATATTATAATTTTTATCAAATAATGTGTTAATTTGACAATACATTATTTATCAAATTTTC
ATATTTAAAGTAAAAATTATTATTATATTACAATTTTTATCAAATAATATATTGATTTGACAATA
CATTATTTATTAATTTTATATCTTTAAATAAAAAATATTA
Found at i:1312733 original size:30 final size:30
Alignment explanation
Indices: 1312699--1312795 Score: 122
Period size: 30 Copynumber: 3.2 Consensus size: 30
1312689 TCCGTTTACT
* * *
1312699 TTTTAAATTTAATTTGTAATTTCTTTTTTA
1 TTTTAAATTTAATTTCTAATTTCTTGTATA
1312729 TTTTAAATTTAATTTCTAATTTCTTGTATA
1 TTTTAAATTTAATTTCTAATTTCTTGTATA
* ** *
1312759 TTTTAATTTTTCTTTCTAATTTCCTGTATA
1 TTTTAAATTTAATTTCTAATTTCTTGTATA
*
1312789 TTCTAAA
1 TTTTAAA
1312796 AATTTATATC
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 58 1.00
ACGTcount: A:0.27, C:0.08, G:0.03, T:0.62
Consensus pattern (30 bp):
TTTTAAATTTAATTTCTAATTTCTTGTATA
Found at i:1313733 original size:60 final size:59
Alignment explanation
Indices: 1313600--1313868 Score: 226
Period size: 60 Copynumber: 4.5 Consensus size: 59
1313590 AGGGAAAATT
** * * * *
1313600 GGTGTCGACCATTACATGGCTAACACCAAAAAAATTTGCAATTTTTTTATTCAAGAAAAGG
1 GGTGTCGACCATTTGATGGCCAACACCAAAAAATTTTG-AATTTTTTT-CTCGAGAAAAGG
* *
1313661 GGATGTCGATCATTTGATGGCCAACACCCAAAAATTTTGAATTTTTTTCTCGAGAAAATGG
1 GG-TGTCGACCATTTGATGGCCAACACCAAAAAATTTTGAATTTTTTTCTCGAGAAAA-GG
* *** * * * *
1313722 GGTGTCGATCATGCAATGACCAACACCCAAAAA-TGT-AATTTTTTT-T--A-AATAGGG
1 GGTGTCGACCATTTGATGGCCAACACCAAAAAATTTTGAATTTTTTTCTCGAGAA-AAGG
* *
1313776 GGTGTCGGCCATTTGATGGCCAACACCAAAAAATTTTAAATTTTTTTCTCGAGAAAAGG
1 GGTGTCGACCATTTGATGGCCAACACCAAAAAATTTTGAATTTTTTTCTCGAGAAAAGG
* * ***
1313835 AGATGTCGGCCATGCAATGGCCAACATCCAAAAA
1 -GGTGTCGACCATTTGATGGCCAACA-CCAAAAA
1313869 TGTAATTTTT
Statistics
Matches: 170, Mismatches: 27, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
54 30 0.18
55 4 0.02
56 9 0.05
57 2 0.01
58 9 0.05
59 6 0.04
60 58 0.34
61 22 0.13
62 30 0.18
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (59 bp):
GGTGTCGACCATTTGATGGCCAACACCAAAAAATTTTGAATTTTTTTCTCGAGAAAAGG
Found at i:1313800 original size:114 final size:114
Alignment explanation
Indices: 1313671--1313884 Score: 349
Period size: 114 Copynumber: 1.9 Consensus size: 114
1313661 GGATGTCGAT
* * * *
1313671 CATTTGATGGCCAACACCCAAAAATTTTGAATTTTTTTCTCGAGAAAATGG-GGTGTCGATCATG
1 CATTTGATGGCCAACACCAAAAAATTTTAAATTTTTTTCTCGAGAAAA-GGAGATGTCGACCATG
1313735 CAATGACCAACACCCAAAAATGTAATTTTTTTTAAATAGGGGGTGTCGGC
65 CAATGACCAACACCCAAAAATGTAATTTTTTTTAAATAGGGGGTGTCGGC
*
1313785 CATTTGATGGCCAACACCAAAAAATTTTAAATTTTTTTCTCGAGAAAAGGAGATGTCGGCCATGC
1 CATTTGATGGCCAACACCAAAAAATTTTAAATTTTTTTCTCGAGAAAAGGAGATGTCGACCATGC
* *
1313850 AATGGCCAACATCCAAAAATGTAATTTTTTTTAAA
66 AATGACCAACACCCAAAAATGTAATTTTTTTTAAA
1313885 CAAATGGTCA
Statistics
Matches: 92, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
113 2 0.02
114 90 0.98
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (114 bp):
CATTTGATGGCCAACACCAAAAAATTTTAAATTTTTTTCTCGAGAAAAGGAGATGTCGACCATGC
AATGACCAACACCCAAAAATGTAATTTTTTTTAAATAGGGGGTGTCGGC
Found at i:1313975 original size:95 final size:96
Alignment explanation
Indices: 1313791--1313976 Score: 218
Period size: 95 Copynumber: 1.9 Consensus size: 96
1313781 CGGCCATTTG
*
1313791 ATGGCCAACACCAAAAAATTTTAAATTTTTTTCTCGAGAAAAGGAGATGTCGGCCATGCAATGGC
1 ATGGCCAACACCAAAAAAATTTAAA-TTTTTTCTCGAGAAAAGGAGATGTCGGCCATGCAATGGC
**
1313856 CAACATCCAAAAATGTAATTTTTTTTAAACAA
65 CAACATCCAAAAATGTAAAATTTTTTAAACAA
* * * * ***
1313888 ATGGTCAACACCAAAAAAATTT-GA-TTTTTCTCGAGAAAAGAGGGGTGTCGGCCATTTGATGGC
1 ATGGCCAACACCAAAAAAATTTAAATTTTTTCTCGAGAAAAG-GAGATGTCGGCCATGCAATGGC
1313951 CAACA-CCAAAAAAAT-TAAAATTTTTT
65 CAACATCC--AAAAATGTAAAATTTTTT
1313977 TTCTCGAGAA
Statistics
Matches: 76, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
94 18 0.24
95 31 0.41
96 7 0.09
97 20 0.26
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (96 bp):
ATGGCCAACACCAAAAAAATTTAAATTTTTTCTCGAGAAAAGGAGATGTCGGCCATGCAATGGCC
AACATCCAAAAATGTAAAATTTTTTAAACAA
Found at i:1314080 original size:56 final size:60
Alignment explanation
Indices: 1313903--1314081 Score: 190
Period size: 56 Copynumber: 3.0 Consensus size: 60
1313893 CAACACCAAA
** * *
1313903 AAAATTTGATTTTTCTCGAGAAAAGAGGGGTGTCGGCCATTTGATGGCCAACACCAAAAAAATT
1 AAAATTT--TTTTTCTCGAGAAAA-AAAGGTGTCGGCCATTTGATGACCAACACCTAAAAAA-T
* *
1313967 AAAATTTTTTTTCTCGAGAAAAAAAAGTGTCGGCCATTTGAT-AGCCGACACCT-AAAAAT
1 AAAATTTTTTTTCTCGAGAAAAAAAGGTGTCGGCCATTTGATGA-CCAACACCTAAAAAAT
** *
1314026 GCAA-TTTTTTT-T-GAGAAAAAAAGGTGTCGACCATTTGATGACCAACA-CTAAAAAAT
1 AAAATTTTTTTTCTCGAGAAAAAAAGGTGTCGGCCATTTGATGACCAACACCTAAAAAAT
1314082 TTTGAATTTT
Statistics
Matches: 101, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
55 2 0.02
56 36 0.36
57 2 0.02
58 7 0.07
59 3 0.03
60 5 0.05
61 24 0.24
62 15 0.15
64 7 0.07
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.28
Consensus pattern (60 bp):
AAAATTTTTTTTCTCGAGAAAAAAAGGTGTCGGCCATTTGATGACCAACACCTAAAAAAT
Found at i:1321403 original size:24 final size:22
Alignment explanation
Indices: 1321375--1321421 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
1321365 CAAATTAAAT
1321375 ATTGAAACAAAATTAAAGAACTTA
1 ATTGAAAC-AAA-TAAAGAACTTA
* *
1321399 ATTGAGACAAATAAATAACTTA
1 ATTGAAACAAATAAAGAACTTA
1321421 A
1 A
1321422 AGGATCAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 11 0.52
23 3 0.14
24 7 0.33
ACGTcount: A:0.57, C:0.09, G:0.09, T:0.26
Consensus pattern (22 bp):
ATTGAAACAAATAAAGAACTTA
Found at i:1323316 original size:16 final size:17
Alignment explanation
Indices: 1323276--1323316 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
1323266 ATTTAACCAA
*
1323276 ATCATATTAATCAAGAT
1 ATCAAATTAATCAAGAT
*
1323293 ATCGAATTAATCAA-AT
1 ATCAAATTAATCAAGAT
1323309 ATCAAATT
1 ATCAAATT
1323317 GAACAAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.34
Consensus pattern (17 bp):
ATCAAATTAATCAAGAT
Found at i:1323780 original size:15 final size:16
Alignment explanation
Indices: 1323744--1323783 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
1323734 ATCGTAAAAA
1323744 TATAATTTTATCATTTT
1 TATAA-TTTATCATTTT
*
1323761 AATAATTTAT-ATTTT
1 TATAATTTATCATTTT
1323776 TATAATTT
1 TATAATTT
1323784 TTAAAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 12 0.57
16 5 0.24
17 4 0.19
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TATAATTTATCATTTT
Found at i:1325277 original size:85 final size:85
Alignment explanation
Indices: 1325180--1325350 Score: 324
Period size: 85 Copynumber: 2.0 Consensus size: 85
1325170 CATCAAATAG
1325180 TAACCCTTTTTTTCATCTCAACTATTTCTATAATCAATCACATTCTAAATAAACCAACTTTAAGG
1 TAACCCTTTTTTTCATCTCAACTATTTCTATAATCAATCACATTCTAAATAAACCAACTTTAAGG
1325245 GCACAATTTGTGCTTTCCAA
66 GCACAATTTGTGCTTTCCAA
* *
1325265 TAACCCTTTTTTTCATCTCAACTATTTCTCTAATCAATCACATTCTAAATATACCAACTTTAAGG
1 TAACCCTTTTTTTCATCTCAACTATTTCTATAATCAATCACATTCTAAATAAACCAACTTTAAGG
1325330 GCACAATTTGTGCTTTCCAA
66 GCACAATTTGTGCTTTCCAA
1325350 T
1 T
1325351 TTAGAAGACA
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.39
Consensus pattern (85 bp):
TAACCCTTTTTTTCATCTCAACTATTTCTATAATCAATCACATTCTAAATAAACCAACTTTAAGG
GCACAATTTGTGCTTTCCAA
Found at i:1329453 original size:21 final size:21
Alignment explanation
Indices: 1329428--1329469 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1329418 AACACCAAGA
*
1329428 AAAAATCCAAATTATAAAATAT
1 AAAAA-CCAAATGATAAAATAT
*
1329450 AAAAACCAAATGCTAAAATA
1 AAAAACCAAATGATAAAATA
1329470 CCCAGAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.64, C:0.12, G:0.02, T:0.21
Consensus pattern (21 bp):
AAAAACCAAATGATAAAATAT
Found at i:1362941 original size:7 final size:7
Alignment explanation
Indices: 1362929--1362973 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
1362919 CTTTTCTTTT
1362929 CACTCTC
1 CACTCTC
1362936 CACTCTC
1 CACTCTC
1362943 CACTCTC
1 CACTCTC
1362950 CACTCTC
1 CACTCTC
*
1362957 CACTCCC
1 CACTCTC
*
1362964 CACTCCC
1 CACTCTC
1362971 CAC
1 CAC
1362974 ATTGGTTCTC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 37 1.00
ACGTcount: A:0.16, C:0.62, G:0.00, T:0.22
Consensus pattern (7 bp):
CACTCTC
Found at i:1367682 original size:31 final size:31
Alignment explanation
Indices: 1367621--1367688 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
1367611 ACTGCTAATA
* *
1367621 TAAATT-TGGATAAATTGCATTTTTAGTCAT
1 TAAATTATGGACAAATTGCATTTTGAGTCAT
*
1367651 TAAATTATGGACAAATTTTCATTTTGA-TCAT
1 TAAATTATGGACAAA-TTGCATTTTGAGTCAT
*
1367682 TTAATTA
1 TAAATTA
1367689 AAAAAAGCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 6 0.19
31 17 0.53
32 9 0.28
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.47
Consensus pattern (31 bp):
TAAATTATGGACAAATTGCATTTTGAGTCAT
Found at i:1368732 original size:2 final size:2
Alignment explanation
Indices: 1368727--1368751 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1368717 TATATATATA
1368727 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
1368752 AATTTTGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:1377036 original size:23 final size:23
Alignment explanation
Indices: 1377009--1377129 Score: 156
Period size: 23 Copynumber: 5.2 Consensus size: 23
1376999 ACACTAGCGC
1377009 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* *
1377032 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGATTAGCACTGTGT-GT
1377055 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTGTGTGT
*
1377080 GCTCTCCGATTAGCACT-TCGTGT
1 GCTCTCTGATTAGCACTGT-GTGT
*
1377103 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
1377126 GCTC
1 GCTC
1377130 AGTACTTTGT
Statistics
Matches: 86, Mismatches: 6, Indels: 12
0.83 0.06 0.12
Matches are distributed among these distances:
22 4 0.05
23 62 0.72
24 1 0.01
25 16 0.19
26 3 0.03
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.40
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:1377078 original size:48 final size:46
Alignment explanation
Indices: 1377009--1377129 Score: 172
Period size: 48 Copynumber: 2.6 Consensus size: 46
1376999 ACACTAGCGC
* *
1377009 GCTCTCTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACGTC-TCGT
1 GCTCTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGT-GT
*
1377055 GCTCTCTGTTATTAGCACTGTGTGTGCTCTCCGATTAGCACTTCGTGT
1 GCTCTCTG--ATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGTGT
*
1377103 GCTCTCTGATTAGCACTTTGTGTGCTC
1 GCTCTCTGATTAGCACTGTGTGTGCTC
1377130 AGTACTTTGT
Statistics
Matches: 68, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
46 26 0.38
48 41 0.60
49 1 0.01
ACGTcount: A:0.12, C:0.26, G:0.23, T:0.40
Consensus pattern (46 bp):
GCTCTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGTGT
Found at i:1377159 original size:39 final size:39
Alignment explanation
Indices: 1377094--1377168 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
1377084 TCCGATTAGC
* *
1377094 ACTTCGTGTGCTCTCTGATTAGCACTTTGTGTGCTCAGT
1 ACTTCGTGTACTCTCTGATTAACACTTTGTGTGCTCAGT
* *
1377133 ACTTTGTGTACTCTCTGTTTAACACTTTGTGTGCTC
1 ACTTCGTGTACTCTCTGATTAACACTTTGTGTGCTC
1377169 TCTGTTGCCC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.44
Consensus pattern (39 bp):
ACTTCGTGTACTCTCTGATTAACACTTTGTGTGCTCAGT
Found at i:1378072 original size:10 final size:10
Alignment explanation
Indices: 1378057--1378093 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
1378047 TTAAAAGTGA
1378057 GCAATTAATT
1 GCAATTAATT
1378067 GCAATTAA-T
1 GCAATTAATT
*
1378076 -CATTTAATT
1 GCAATTAATT
1378085 GCAATTAAT
1 GCAATTAAT
1378094 CTTTTTCGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
8 6 0.26
9 2 0.09
10 15 0.65
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.41
Consensus pattern (10 bp):
GCAATTAATT
Done.