Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold56
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: 1793205
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 19648 characters in sequence are not A, C, G, or T
File 10 of 11
Found at i:1597952 original size:13 final size:13
Alignment explanation
Indices: 1597934--1597959 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1597924 TACACCAAGT
1597934 ATGTATCGATACA
1 ATGTATCGATACA
1597947 ATGTATCGATACA
1 ATGTATCGATACA
1597960 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1597957 original size:32 final size:33
Alignment explanation
Indices: 1597916--1597979 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
1597906 TAGCCAAACT
**
1597916 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
1597948 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
1597980 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:1599986 original size:13 final size:13
Alignment explanation
Indices: 1599968--1599992 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1599958 CATTTTATGG
1599968 TGTATCGATACAA
1 TGTATCGATACAA
1599981 TGTATCGATACA
1 TGTATCGATACA
1599993 TACTTTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1600008 original size:32 final size:33
Alignment explanation
Indices: 1599945--1600013 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
1599935 CGTTGCAAGC
*
1599945 CAATGAATCGATACATTTTATGGTGTATCGATA
1 CAATGAATCGATACATCTTATGGTGTATCGATA
*
1599978 CAATGTATCGATACATACTT-T-GTGTATCGATA
1 CAATGAATCGATACAT-CTTATGGTGTATCGATA
1600010 CAAT
1 CAAT
1600014 TTTGGCTATT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
32 15 0.45
33 16 0.48
34 2 0.06
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36
Consensus pattern (33 bp):
CAATGAATCGATACATCTTATGGTGTATCGATA
Found at i:1602911 original size:18 final size:17
Alignment explanation
Indices: 1602884--1602918 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1602874 TATTCGTAGC
*
1602884 TTTTTTTTTCTTTTTGT
1 TTTTTTTTTCGTTTTGT
1602901 TTTTGTTTTTCGTTTTGT
1 TTTT-TTTTTCGTTTTGT
1602919 CCTTTAAGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.00, C:0.06, G:0.11, T:0.83
Consensus pattern (17 bp):
TTTTTTTTTCGTTTTGT
Found at i:1604078 original size:13 final size:13
Alignment explanation
Indices: 1604057--1604088 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1604047 ATCAATGGTT
*
1604057 AATGGTCAAAGTC
1 AATGATCAAAGTC
1604070 AATGATCAAAGTC
1 AATGATCAAAGTC
1604083 AATGAT
1 AATGAT
1604089 AAATAATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (13 bp):
AATGATCAAAGTC
Found at i:1605374 original size:44 final size:44
Alignment explanation
Indices: 1605293--1605388 Score: 140
Period size: 44 Copynumber: 2.2 Consensus size: 44
1605283 CAAACCAAGA
*
1605293 CTAACCTTAAGCAACTAATTTAGTTTTTAGTAGTCTTTAAATTC
1 CTAACCTTAAGCAACTAATTTAGTTTATAGTAGTCTTTAAATTC
* * *
1605337 CTAAGCTTGAGCAACTAATTTAGTTTATAGT-GTTCTTTAATTTC
1 CTAACCTTAAGCAACTAATTTAGTTTATAGTAG-TCTTTAAATTC
1605381 CTAACCTT
1 CTAACCTT
1605389 TCAAAACTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 1 0.02
44 45 0.98
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.44
Consensus pattern (44 bp):
CTAACCTTAAGCAACTAATTTAGTTTATAGTAGTCTTTAAATTC
Found at i:1606379 original size:17 final size:15
Alignment explanation
Indices: 1606345--1606376 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1606335 TATTAATTTT
1606345 TTAAAAATTTAATAA
1 TTAAAAATTTAATAA
1606360 TTAAAAA-TTAAT-A
1 TTAAAAATTTAATAA
1606373 TTAA
1 TTAA
1606377 TTAGTTTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.29
14 5 0.29
15 7 0.41
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAAAAATTTAATAA
Found at i:1606625 original size:55 final size:55
Alignment explanation
Indices: 1606564--1606673 Score: 177
Period size: 55 Copynumber: 2.0 Consensus size: 55
1606554 CTTCCACTAT
* *
1606564 GGCCACGCTATTGGCTAAAGCTTGGTGTCGTTGG-AAGCGCTAGAGGGAATAGCGC
1 GGCCACGCTATTGGCTAAAGCTTGGTGGCG-TGGAAAGCGCCAGAGGGAATAGCGC
*
1606619 GGCCACGCTATTGGCTACAGCTTGGTGGCGTGGAAAGCGCCAGAGGGAATAGCGC
1 GGCCACGCTATTGGCTAAAGCTTGGTGGCGTGGAAAGCGCCAGAGGGAATAGCGC
1606674 TTGATTGGCA
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
54 3 0.06
55 48 0.94
ACGTcount: A:0.22, C:0.22, G:0.37, T:0.19
Consensus pattern (55 bp):
GGCCACGCTATTGGCTAAAGCTTGGTGGCGTGGAAAGCGCCAGAGGGAATAGCGC
Found at i:1608908 original size:24 final size:24
Alignment explanation
Indices: 1608875--1608922 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
1608865 AATCGCCCTG
*
1608875 AAAATGCGGATGTAGTCGAATGGT
1 AAAATACGGATGTAGTCGAATGGT
1608899 AAAATACGGATGTAGTCGAATGGT
1 AAAATACGGATGTAGTCGAATGGT
1608923 TAATTGATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.35, C:0.08, G:0.31, T:0.25
Consensus pattern (24 bp):
AAAATACGGATGTAGTCGAATGGT
Found at i:1610156 original size:4 final size:4
Alignment explanation
Indices: 1610142--1610186 Score: 81
Period size: 4 Copynumber: 11.2 Consensus size: 4
1610132 TTGTTTAAGG
*
1610142 ACAT GCAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
1610187 TATATATATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.49, C:0.24, G:0.02, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:1611872 original size:29 final size:28
Alignment explanation
Indices: 1611827--1611881 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 28
1611817 CTCAATGTGG
1611827 TTTTTAATCTATAAACATGTAGATTTTT
1 TTTTTAATCTATAAACATGTAGATTTTT
1611855 TTTTTAATAC-ATATAACATGTAGATTT
1 TTTTTAAT-CTATA-AACATGTAGATTT
1611882 AACTAATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
28 11 0.44
29 14 0.56
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.51
Consensus pattern (28 bp):
TTTTTAATCTATAAACATGTAGATTTTT
Found at i:1612039 original size:22 final size:20
Alignment explanation
Indices: 1612004--1612073 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 20
1611994 TAATATAAAA
* *
1612004 TTTTAAAAAGATTAATCTTAT
1 TTTTAAAAAAATTAATATT-T
1612025 TTTTAAAAGAAATT-ATATTT
1 TTTTAAAA-AAATTAATATTT
1612045 TTTTAAATAATAATTAATATTT
1 TTTTAAA-AA-AATTAATATTT
1612067 TTTTAAA
1 TTTTAAA
1612074 TGAAATCGAT
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
20 9 0.21
21 17 0.40
22 17 0.40
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.51
Consensus pattern (20 bp):
TTTTAAAAAAATTAATATTT
Found at i:1612048 original size:21 final size:21
Alignment explanation
Indices: 1612024--1612096 Score: 55
Period size: 22 Copynumber: 3.4 Consensus size: 21
1612014 ATTAATCTTA
1612024 TTTTTAAAAGAAATTATA-TT
1 TTTTTAAAAGAAATTATATTT
1612044 TTTTTAAATA-ATAATTA-ATATT
1 TTTTTAAA-AGA-AATTATAT-TT
* *
1612066 TTTTTAAATGAAATCGAT-TTT
1 TTTTTAAAAGAAAT-TATATTT
1612087 TTATTTAAAA
1 TT-TTTAAAA
1612097 AATTAGATGA
Statistics
Matches: 42, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
20 10 0.24
21 13 0.31
22 19 0.45
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (21 bp):
TTTTTAAAAGAAATTATATTT
Found at i:1612074 original size:22 final size:22
Alignment explanation
Indices: 1612014--1612079 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
1612004 TTTTAAAAAG
*
1612014 ATTAATCTTATTTTTAAA-AGAA
1 ATTAATATT-TTTTTAAATAGAA
1612036 ATT-ATATTTTTTTAAATA-ATA
1 ATTAATATTTTTTTAAATAGA-A
1612057 ATTAATATTTTTTTAAAT-GAA
1 ATTAATATTTTTTTAAATAGAA
1612078 AT
1 AT
1612080 CGATTTTTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
20 9 0.23
21 12 0.31
22 18 0.46
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (22 bp):
ATTAATATTTTTTTAAATAGAA
Found at i:1612264 original size:27 final size:27
Alignment explanation
Indices: 1612228--1612296 Score: 75
Period size: 31 Copynumber: 2.4 Consensus size: 27
1612218 TAAATTTATT
* * *
1612228 TAAATTTAATATAGCTCGATCACTGAA
1 TAAATCTAATATAACTCGATCACTAAA
1612255 TAAATCTAATAAAAATAACTCGATCACTAAA
1 TAAATCTAAT----ATAACTCGATCACTAAA
1612286 TAAATCTAATA
1 TAAATCTAATA
1612297 AAAAAATATT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
27 10 0.29
31 25 0.71
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.30
Consensus pattern (27 bp):
TAAATCTAATATAACTCGATCACTAAA
Found at i:1612280 original size:31 final size:31
Alignment explanation
Indices: 1612242--1612300 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
1612232 TTTAATATAG
*
1612242 CTCGATCACTGAATAAATCTAATAAAAATAA
1 CTCGATCACTAAATAAATCTAATAAAAATAA
1612273 CTCGATCACTAAATAAATCTAATAAAAA
1 CTCGATCACTAAATAAATCTAATAAAAA
1612301 AATATTACGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.53, C:0.17, G:0.05, T:0.25
Consensus pattern (31 bp):
CTCGATCACTAAATAAATCTAATAAAAATAA
Found at i:1612452 original size:2 final size:2
Alignment explanation
Indices: 1612447--1612478 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1612437 CTACAATTCT
1612447 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1612479 GAGAGAGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1612483 original size:2 final size:2
Alignment explanation
Indices: 1612478--1612519 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1612468 ATATATATAT
1612478 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1612520 TCTATAATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1612974 original size:28 final size:29
Alignment explanation
Indices: 1612943--1613000 Score: 100
Period size: 28 Copynumber: 2.0 Consensus size: 29
1612933 GTTTTAATAT
*
1612943 AAATTAAAAATTAATAACTT-TTTGAACA
1 AAATAAAAAATTAATAACTTATTTGAACA
1612971 AAATAAAAAATTAATAACTTATTTGAACA
1 AAATAAAAAATTAATAACTTATTTGAACA
1613000 A
1 A
1613001 TACAAAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 19 0.68
29 9 0.32
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (29 bp):
AAATAAAAAATTAATAACTTATTTGAACA
Found at i:1613007 original size:29 final size:28
Alignment explanation
Indices: 1612948--1613008 Score: 95
Period size: 28 Copynumber: 2.1 Consensus size: 28
1612938 AATATAAATT
*
1612948 AAAAATTAATAACTTTTTGAACAAAATA
1 AAAAATTAATAACTTTTTGAACAAAACA
*
1612976 AAAAATTAATAACTTATTTGAACAATACA
1 AAAAATTAATAACTT-TTTGAACAAAACA
1613005 AAAA
1 AAAA
1613009 TTTAGGTGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.30
Consensus pattern (28 bp):
AAAAATTAATAACTTTTTGAACAAAACA
Found at i:1613260 original size:49 final size:51
Alignment explanation
Indices: 1613188--1613287 Score: 159
Period size: 49 Copynumber: 2.0 Consensus size: 51
1613178 AAAATAGATT
*
1613188 AAATGTTTATTCATTTTAAAATTCAAACACATTTTCAATAAATTAATTAAA
1 AAATGTTTATCCATTTTAAAATTCAAACACATTTTCAATAAATTAATTAAA
* *
1613239 AAAT-TTTATCCA-TTTAAAATTCAAACTCATTTTCAATAAGTTAATTAAA
1 AAATGTTTATCCATTTTAAAATTCAAACACATTTTCAATAAATTAATTAAA
1613288 GATAAAAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
49 35 0.76
50 7 0.15
51 4 0.09
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (51 bp):
AAATGTTTATCCATTTTAAAATTCAAACACATTTTCAATAAATTAATTAAA
Found at i:1614159 original size:24 final size:21
Alignment explanation
Indices: 1614115--1614156 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1614105 ATTAGTAGAG
*
1614115 GTGAGATTTATTATTATAATA
1 GTGAGATTGATTATTATAATA
*
1614136 GTGAGATTGATTATTGTAATA
1 GTGAGATTGATTATTATAATA
1614157 ATAAGATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.19, T:0.45
Consensus pattern (21 bp):
GTGAGATTGATTATTATAATA
Found at i:1614163 original size:21 final size:21
Alignment explanation
Indices: 1614118--1614164 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
1614108 AGTAGAGGTG
* * *
1614118 AGATTTATTATTATAATAGTG
1 AGATTGATTATTATAATAATA
*
1614139 AGATTGATTATTGTAATAATA
1 AGATTGATTATTATAATAATA
1614160 AGATT
1 AGATT
1614165 AAAATTAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.15, T:0.45
Consensus pattern (21 bp):
AGATTGATTATTATAATAATA
Found at i:1617155 original size:20 final size:20
Alignment explanation
Indices: 1617130--1617177 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
1617120 TAATTAATTT
*
1617130 TAAATAAAAATTTTATTAAA
1 TAAATAAAAATTTAATTAAA
*
1617150 TAAATAATAATTTAATTAAA
1 TAAATAAAAATTTAATTAAA
*
1617170 TTAATAAA
1 TAAATAAA
1617178 TTAAAAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TAAATAAAAATTTAATTAAA
Found at i:1617176 original size:17 final size:17
Alignment explanation
Indices: 1617145--1617208 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 17
1617135 AAAAATTTTA
*
1617145 TTAAATAAA-TAATAAT
1 TTAATTAAATTAATAAT
*
1617161 TTAATTAAATTAATAAA
1 TTAATTAAATTAATAAT
* *
1617178 TTAA-AAAATATCATAGAT
1 TTAATTAAAT-TAATA-AT
*
1617196 TTAATTCAATTAA
1 TTAATTAAATTAA
1617209 AATCAAATTT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
16 12 0.33
17 14 0.39
18 7 0.19
19 3 0.08
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (17 bp):
TTAATTAAATTAATAAT
Found at i:1617207 original size:35 final size:33
Alignment explanation
Indices: 1617144--1617208 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 33
1617134 TAAAAATTTT
1617144 ATTAAATAAATAATAATTTAATTAAATTAATAA
1 ATTAAATAAATAATAATTTAATTAAATTAATAA
*
1617177 ATTAAA-AAATATCATAGATTTAATTCAATTAA
1 ATTAAATAAATA--ATA-ATTTAATTAAATTAA
1617209 AATCAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 5 0.18
33 6 0.21
34 3 0.11
35 14 0.50
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (33 bp):
ATTAAATAAATAATAATTTAATTAAATTAATAA
Found at i:1617992 original size:5 final size:5
Alignment explanation
Indices: 1617975--1618050 Score: 52
Period size: 5 Copynumber: 15.0 Consensus size: 5
1617965 AGATTAAACT
*
1617975 TTTAA TTTAAA TTTAA TTT-T TTTAA TTT-A TTTGAA TTTAAA TTTAAA
1 TTTAA TTT-AA TTTAA TTTAA TTTAA TTTAA TTT-AA TTT-AA TTT-AA
* *
1618022 TATTAA --TAA TTCAA ATTAA TTTAA TTTAA
1 T-TTAA TTTAA TTTAA TTTAA TTTAA TTTAA
1618051 ACTTAAACAT
Statistics
Matches: 57, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
3 3 0.05
4 7 0.12
5 25 0.44
6 20 0.35
7 2 0.04
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (5 bp):
TTTAA
Found at i:1620275 original size:10 final size:10
Alignment explanation
Indices: 1620260--1620284 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1620250 TTTGAAAATA
1620260 TAGCCGTTAC
1 TAGCCGTTAC
1620270 TAGCCGTTAC
1 TAGCCGTTAC
1620280 TAGCC
1 TAGCC
1620285 AATGTATCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.32, G:0.20, T:0.28
Consensus pattern (10 bp):
TAGCCGTTAC
Found at i:1620322 original size:13 final size:13
Alignment explanation
Indices: 1620304--1620329 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1620294 ATACATTTGG
1620304 ATGTATCGATACA
1 ATGTATCGATACA
1620317 ATGTATCGATACA
1 ATGTATCGATACA
1620330 TATTATGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1620322 original size:31 final size:32
Alignment explanation
Indices: 1620284--1620349 Score: 100
Period size: 31 Copynumber: 2.1 Consensus size: 32
1620274 CGTTACTAGC
1620284 CAATGTATCGATACAT-TT-GGATGTATCGATA
1 CAATGTATCGATACATATTAGG-TGTATCGATA
*
1620315 CAATGTATCGATACATATTATGTGTATCGATA
1 CAATGTATCGATACATATTAGGTGTATCGATA
1620347 CAA
1 CAA
1620350 ACAGTTAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
31 16 0.50
32 15 0.47
33 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATATTAGGTGTATCGATA
Found at i:1621079 original size:16 final size:16
Alignment explanation
Indices: 1621055--1621086 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1621045 TCTTAATAAA
*
1621055 GCAATTTAACAATTTC
1 GCAAATTAACAATTTC
1621071 GCAAATTAACAATTTC
1 GCAAATTAACAATTTC
1621087 TTTCTCTCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.06, T:0.34
Consensus pattern (16 bp):
GCAAATTAACAATTTC
Found at i:1622467 original size:21 final size:20
Alignment explanation
Indices: 1622438--1622480 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
1622428 TGTGAGTGTG
*
1622438 GGGGCTGCCCGGTTGCGACCT
1 GGGGCTG-CCGGTCGCGACCT
* *
1622459 GGGGTTGCCGGTCGTGACCT
1 GGGGCTGCCGGTCGCGACCT
1622479 GG
1 GG
1622481 TGAGTGCTGC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.05, C:0.28, G:0.47, T:0.21
Consensus pattern (20 bp):
GGGGCTGCCGGTCGCGACCT
Found at i:1622993 original size:20 final size:21
Alignment explanation
Indices: 1622968--1623007 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
1622958 AGTTTTCCAG
1622968 ATGTATCGATACATT-TGAAC
1 ATGTATCGATACATTCTGAAC
1622988 ATGTATCGATACATTCTGAA
1 ATGTATCGATACATTCTGAA
1623008 AATTTTTCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Consensus pattern (21 bp):
ATGTATCGATACATTCTGAAC
Found at i:1623153 original size:8 final size:8
Alignment explanation
Indices: 1623132--1623170 Score: 60
Period size: 8 Copynumber: 4.8 Consensus size: 8
1623122 TTTTCAACAT
1623132 CAAACATCA
1 CAAA-ATCA
1623141 CAAAATCA
1 CAAAATCA
*
1623149 AAAAATCA
1 CAAAATCA
1623157 CAAAATCA
1 CAAAATCA
1623165 CAAAAT
1 CAAAAT
1623171 TTAATCAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
8 24 0.86
9 4 0.14
ACGTcount: A:0.64, C:0.23, G:0.00, T:0.13
Consensus pattern (8 bp):
CAAAATCA
Found at i:1627495 original size:3 final size:3
Alignment explanation
Indices: 1627487--1627517 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
1627477 TTTGAGTCAC
*
1627487 CAT CAT CAT CAT CAT CAT CAT CAT CTT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1627518 GTCCTTGATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (3 bp):
CAT
Found at i:1629156 original size:33 final size:33
Alignment explanation
Indices: 1629093--1629161 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
1629083 CGTTACAAGC
*
1629093 CAATGTATCGATACATTTTGGGATGGATCGATA
1 CAATGTATCGATACATTATGGGATGGATCGATA
* *
1629126 CAATGTATCGATACATGTATGTG-TGTATCGATA
1 CAATGTATCGATACAT-TATGGGATGGATCGATA
1629159 CAA
1 CAA
1629162 ACAATTAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 28 0.88
34 4 0.12
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (33 bp):
CAATGTATCGATACATTATGGGATGGATCGATA
Found at i:1630694 original size:16 final size:17
Alignment explanation
Indices: 1630665--1630697 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1630655 CACTTAAAAA
1630665 ATCCTAACAATTGATTT
1 ATCCTAACAATTGATTT
*
1630682 ATCC-AACATTTGATTT
1 ATCCTAACAATTGATTT
1630698 TGGCCAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.33, C:0.18, G:0.06, T:0.42
Consensus pattern (17 bp):
ATCCTAACAATTGATTT
Found at i:1630738 original size:2 final size:2
Alignment explanation
Indices: 1630731--1630757 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1630721 CCGTCCAAGA
1630731 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 A
1630758 GAGAGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1631756 original size:2 final size:2
Alignment explanation
Indices: 1631749--1631778 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1631739 ATCCGTATGC
1631749 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1631779 TACATAGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1633596 original size:15 final size:15
Alignment explanation
Indices: 1633562--1633609 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
1633552 TATTTTTTAT
1633562 TATAATATATAATAAAA
1 TATAA-ATATAAT-AAA
*
1633579 TATAAATTTAATAAA
1 TATAAATATAATAAA
*
1633594 TATTAATATAA-AAA
1 TATAAATATAATAAA
1633608 TA
1 TA
1633610 ATTTTTCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 5 0.18
15 12 0.43
16 6 0.21
17 5 0.18
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TATAAATATAATAAA
Found at i:1633608 original size:23 final size:23
Alignment explanation
Indices: 1633564--1633608 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
1633554 TTTTTTATTA
* *
1633564 TAATATATAATAAAATATAAATT
1 TAATAAATAATAAAATAAAAATT
* *
1633587 TAATAAATATTAATATAAAAAT
1 TAATAAATAATAAAATAAAAAT
1633609 AATTTTTCAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (23 bp):
TAATAAATAATAAAATAAAAATT
Found at i:1635557 original size:2 final size:2
Alignment explanation
Indices: 1635550--1635684 Score: 112
Period size: 2 Copynumber: 77.5 Consensus size: 2
1635540 TTTCAATTAT
1635550 TA TA TA TA TA -A TA TA TA TA T- TA -A TA -A TA -A TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
1635586 TA TA TA TA TA T- TA TA TA TG T- TA TA TA TA T- TA TA T- TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1635624 TA T- TA T- TA TA TA -A TA TA TA -A TA TA TA T- TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1635660 T- TA TA TA T- TA TA T- TA TA T- TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1635685 TTATTATCAT
Statistics
Matches: 111, Mismatches: 2, Indels: 40
0.73 0.01 0.26
Matches are distributed among these distances:
1 20 0.18
2 91 0.82
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (2 bp):
TA
Found at i:1635601 original size:36 final size:37
Alignment explanation
Indices: 1635545--1635691 Score: 171
Period size: 36 Copynumber: 4.0 Consensus size: 37
1635535 ATTATTTTCA
* *
1635545 ATTATTATATATATAATATATATATTAATA-ATAATAT
1 ATTA-TATATATATATTATATATATTAATATATATTAT
*
1635582 ATTATATATATATATTATATATGTT-ATATATATTAT
1 ATTATATATATATATTATATATATTAATATATATTAT
1635618 ATT-T-TATAT-TATTATATAATATATAATATATATTAT
1 ATTATATATATATATTATAT-ATAT-TAATATATATTAT
*
1635654 ATTATAT-TATATATTATATTATATTATATATTTATTAT
1 ATTATATATATATATTATA-TATATTA-ATATATATTAT
1635692 CATATTAGTT
Statistics
Matches: 96, Mismatches: 5, Indels: 17
0.81 0.04 0.14
Matches are distributed among these distances:
33 8 0.08
34 8 0.08
35 5 0.05
36 42 0.44
37 10 0.10
38 22 0.23
39 1 0.01
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (37 bp):
ATTATATATATATATTATATATATTAATATATATTAT
Found at i:1635684 original size:7 final size:7
Alignment explanation
Indices: 1635547--1635698 Score: 106
Period size: 7 Copynumber: 21.7 Consensus size: 7
1635537 TATTTTCAAT
1635547 TATTATA
1 TATTATA
1635554 TA-TATA
1 TATTATA
1635560 -ATATATA
1 TAT-TATA
1635567 TATTA-A
1 TATTATA
*
1635573 TAATAATA
1 T-ATTATA
1635581 TATTATA
1 TATTATA
1635588 TA-TATA
1 TATTATA
1635594 TATTATA
1 TATTATA
*
1635601 TA-TGT-
1 TATTATA
1635606 TA-TATA
1 TATTATA
1635612 TATTATA
1 TATTATA
*
1635619 TTTTATA
1 TATTATA
1635626 TTATTATA
1 -TATTATA
*
1635634 TAATATA
1 TATTATA
*
1635641 TAATATA
1 TATTATA
1635648 TA-T-TA
1 TATTATA
1635653 TATTATA
1 TATTATA
1635660 TTATATATTA
1 -TAT-TA-TA
1635670 TATTATA
1 TATTATA
*
1635677 TTATATATT
1 -TAT-TATA
1635686 TATTATCA
1 TATTAT-A
1635694 TATTA
1 TATTA
1635699 GTTTTGCTTT
Statistics
Matches: 119, Mismatches: 9, Indels: 33
0.74 0.06 0.20
Matches are distributed among these distances:
5 9 0.08
6 18 0.15
7 56 0.47
8 26 0.22
9 8 0.07
10 2 0.02
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.55
Consensus pattern (7 bp):
TATTATA
Found at i:1635696 original size:12 final size:12
Alignment explanation
Indices: 1635547--1635698 Score: 122
Period size: 12 Copynumber: 12.4 Consensus size: 12
1635537 TATTTTCAAT
1635547 TATTATATATATAA
1 TATTATAT-TAT-A
1635561 TATATATATTAATAA
1 TAT-TATATT-AT-A
*
1635576 TAATATATTATA
1 TATTATATTATA
1635588 TATATATATTATA
1 TAT-TATATTATA
1635601 TATGT-TA-TATA
1 TAT-TATATTATA
*
1635612 TATTATATTTTA
1 TATTATATTATA
1635624 TA-T-TATTATA
1 TATTATATTATA
*
1635634 TAATATATAATATA
1 T-AT-TATATTATA
1635648 TATTATA-T-TA
1 TATTATATTATA
1635658 TATTATA-TATTA
1 TATTATATTA-TA
1635670 TATTATATTATA
1 TATTATATTATA
1635682 TATT-TATTATCA
1 TATTATATTAT-A
1635694 TATTA
1 TATTA
1635699 GTTTTGCTTT
Statistics
Matches: 118, Mismatches: 6, Indels: 29
0.77 0.04 0.19
Matches are distributed among these distances:
10 18 0.15
11 18 0.15
12 34 0.29
13 20 0.17
14 17 0.14
15 11 0.09
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.55
Consensus pattern (12 bp):
TATTATATTATA
Found at i:1635732 original size:18 final size:17
Alignment explanation
Indices: 1635699--1635732 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1635689 TATCATATTA
*
1635699 GTTTTGCTTTTTTTTTT
1 GTTTTGCTTATTTTTTT
1635716 GTTTTGCATTATTTTTT
1 GTTTTGC-TTATTTTTT
1635733 CGTTAAGCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.06, C:0.06, G:0.12, T:0.76
Consensus pattern (17 bp):
GTTTTGCTTATTTTTTT
Found at i:1639103 original size:20 final size:20
Alignment explanation
Indices: 1639078--1639147 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
1639068 TTTTACCCAG
1639078 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
1639098 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
1639118 ATTTATCGATA-ATTCTTCA
1 ATGTATCGATACATTTTTCA
*
1639137 ATGTATTGATA
1 ATGTATCGATA
1639148 TATTCTATCT
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
19 13 0.32
20 27 0.68
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1647151 original size:52 final size:52
Alignment explanation
Indices: 1647081--1647201 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1647071 GAAAATTTAT
*
1647081 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
1647133 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
1647185 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
1647202 AAGATCAGTG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:1647214 original size:52 final size:51
Alignment explanation
Indices: 1647081--1647221 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
1647071 GAAAATTTAT
1647081 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
1647133 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
1647185 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1647222 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1647228 original size:13 final size:13
Alignment explanation
Indices: 1647210--1647234 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1647200 CAAAGATCAG
1647210 TGTATCGATACAA
1 TGTATCGATACAA
1647223 TGTATCGATACA
1 TGTATCGATACA
1647235 TGTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1647328 original size:13 final size:13
Alignment explanation
Indices: 1647310--1647334 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1647300 CAAAAAAATA
1647310 TGTATCGATACAT
1 TGTATCGATACAT
1647323 TGTATCGATACA
1 TGTATCGATACA
1647335 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1647330 original size:33 final size:33
Alignment explanation
Indices: 1647288--1647354 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1647278 AGTAGCTTAA
1647288 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1647321 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1647354 A
1 A
1647355 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1648315 original size:43 final size:45
Alignment explanation
Indices: 1648254--1648387 Score: 191
Period size: 43 Copynumber: 2.9 Consensus size: 45
1648244 GATGGAAAAT
1648254 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA-G-
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAATGA
* *
1648297 GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAA
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-ATG-A
*
1648345 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1 G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
1648388 AATGATGATG
Statistics
Matches: 80, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
43 37 0.46
44 2 0.03
45 1 0.01
46 1 0.01
47 1 0.01
48 3 0.04
49 35 0.44
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (45 bp):
GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAATGA
Found at i:1648353 original size:49 final size:49
Alignment explanation
Indices: 1648211--1648397 Score: 233
Period size: 49 Copynumber: 3.9 Consensus size: 49
1648201 GATGTCAACG
* *
1648211 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA--TGCCAATA
* *
1648263 TGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1648306 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * * *
1648355 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATG
1648398 AGAAGAGTGA
Statistics
Matches: 119, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
43 36 0.30
44 2 0.02
45 1 0.01
46 1 0.01
48 2 0.02
49 46 0.39
50 1 0.01
51 2 0.02
52 28 0.24
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
Found at i:1648384 original size:92 final size:94
Alignment explanation
Indices: 1648210--1648387 Score: 306
Period size: 92 Copynumber: 1.9 Consensus size: 94
1648200 GGATGTCAAC
1648210 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAA-GTGCCAATATGCTGATTCAAG
*
1648275 GCCAGCTATATTGGACTTAAAGGTGCCAAT
65 GCCAGCGATATTGGACTTAAAGGTGCCAAT
* *
1648305 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA-TGCCAATATGCTGATTCAAGG
1 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGTGCCAATATGCTGATTCAAGG
1648368 CCAGCGATATTGGACTTAAA
66 CCAGCGATATTGGACTTAAA
1648388 AATGATGATG
Statistics
Matches: 80, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
92 40 0.50
94 4 0.05
95 36 0.45
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.26
Consensus pattern (94 bp):
GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGTGCCAATATGCTGATTCAAGG
CCAGCGATATTGGACTTAAAGGTGCCAAT
Found at i:1648509 original size:55 final size:52
Alignment explanation
Indices: 1648449--1648819 Score: 199
Period size: 52 Copynumber: 7.0 Consensus size: 52
1648439 CGATATTGGG
* *
1648449 CTTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAA
1 CTTAAAGATG-G-AAAAGG-TGCCAACATGCTGATTCAAGGCCAGCTACATTGAA
* * * *
1648504 CTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCAGCTACATTGAA
** * *
1648556 C-T-----T---AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGA
1 CTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCAGCTACATTGAA
* * * * *
1648599 CTTAAAGAT-G--AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGA
1 CTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCAGCTACATTGAA
* ** * * * * *
1648648 CTTAAAAATGATGATGAGAAGAGTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTG
1 CTT--AAA-GATG--GAAAAG-GTG--CCA-A---C---ATGCTGATTCAAGGCCAGCTACATTG
**
1648713 GG
51 AA
* *
1648715 CTTAAAGATGAGAAAAAGGATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAA
1 CTTAAAGATG-G-AAAAGG-TGCCAACATGCTGATTCAAGGCCAGCTACATTGAA
* * *
1648770 CTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAGGCCAGCTATATTG
1 CTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCAGCTACATTG
1648820 GGCTTAGAGG
Statistics
Matches: 249, Mismatches: 40, Indels: 57
0.72 0.12 0.16
Matches are distributed among these distances:
43 37 0.15
44 1 0.00
46 1 0.00
49 38 0.15
51 4 0.02
52 63 0.25
53 10 0.04
54 2 0.01
55 41 0.16
57 3 0.01
58 3 0.01
60 1 0.00
61 2 0.01
62 1 0.00
63 2 0.01
64 10 0.04
65 3 0.01
67 27 0.11
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (52 bp):
CTTAAAGATGGAAAAGGTGCCAACATGCTGATTCAAGGCCAGCTACATTGAA
Found at i:1648547 original size:266 final size:266
Alignment explanation
Indices: 1648073--1648825 Score: 1434
Period size: 266 Copynumber: 2.8 Consensus size: 266
1648063 TTTTAGAGAT
* * * * *
1648073 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGATGAGAAAA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAGA
*
1648138 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCCTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA
1648203 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTG
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTG
*
1648268 ATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
196 ATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGA
1648333 CTTAAA
261 CTTAAA
1648339 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAGA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAGA
1648404 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA
1648469 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTG
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTG
1648534 ATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGA
196 ATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGA
1648599 CTTAAA
261 CTTAAA
1648605 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAGA
1 GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAGA
1648670 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA
66 GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA
1648735 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTG
131 TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTG
*
1648800 ATTCAAGGCCAGCTATATTGGGCTTA
196 ATTCAAGGCCAGCTATATTGGACTTA
1648826 GAGGGGTTGC
Statistics
Matches: 479, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
266 479 1.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (266 bp):
GATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATGAGAAGA
GTGATAAAGATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA
TGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTG
ATTCAAGGCCAGCTATATTGGACTTAAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGA
CTTAAA
Found at i:1648583 original size:43 final size:45
Alignment explanation
Indices: 1648520--1648653 Score: 182
Period size: 43 Copynumber: 2.9 Consensus size: 45
1648510 GATGGAAAAT
1648520 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA-G-
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAATGA
* * *
1648563 GTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAA
1 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-ATG-A
*
1648611 GATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAA
1 G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
1648654 AATGATGATG
Statistics
Matches: 78, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
43 36 0.46
44 2 0.03
45 1 0.01
46 1 0.01
47 1 0.01
48 3 0.04
49 34 0.44
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (45 bp):
GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAATGA
Found at i:1648619 original size:49 final size:49
Alignment explanation
Indices: 1648477--1648663 Score: 224
Period size: 49 Copynumber: 3.9 Consensus size: 49
1648467 GATGTCAACG
* *
1648477 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA--TGCCAATA
* *
1648529 TGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
*
1648572 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * * *
1648621 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAAATGATGATG
1 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATG
1648664 AGAAGAGTGA
Statistics
Matches: 117, Mismatches: 12, Indels: 15
0.81 0.08 0.10
Matches are distributed among these distances:
43 35 0.30
44 2 0.02
45 1 0.01
46 1 0.01
48 2 0.02
49 45 0.38
50 1 0.01
51 2 0.02
52 28 0.24
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
Found at i:1648649 original size:92 final size:94
Alignment explanation
Indices: 1648476--1648653 Score: 297
Period size: 92 Copynumber: 1.9 Consensus size: 94
1648466 GGATGTCAAC
*
1648476 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAA-GTGCCAATATGCTGATTCAAG
*
1648541 GCCAGCTATATTGGACTTAAAGGTGCCAAT
65 GCCAGCGATATTGGACTTAAAGGTGCCAAT
* *
1648571 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA-TGCCAATATGCTGATTCAAGG
1 GTGCTGAGTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGTGCCAATATGCTGATTCAAGG
1648634 CCAGCGATATTGGACTTAAA
66 CCAGCGATATTGGACTTAAA
1648654 AATGATGATG
Statistics
Matches: 79, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
92 40 0.51
94 4 0.05
95 35 0.44
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (94 bp):
GTGCTGAGTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGTGCCAATATGCTGATTCAAGG
CCAGCGATATTGGACTTAAAGGTGCCAAT
Found at i:1648809 original size:52 final size:55
Alignment explanation
Indices: 1648678--1648819 Score: 164
Period size: 55 Copynumber: 2.6 Consensus size: 55
1648668 GAGTGATAAA
* * * * **
1648678 GATGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAG
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGAGAAAAAG
* ** * *
1648733 GATGTCAACGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-AAAAT
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGAGAAAAAG
1648786 G-TGCCAATATGCTGATTCAAGGCCAGCTATATTG
1 GATGCCAATATGCTGATTCAAGGCCAGCTATATTG
1648820 GGCTTAGAGG
Statistics
Matches: 72, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
52 29 0.40
53 5 0.07
54 1 0.01
55 37 0.51
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (55 bp):
GATGCCAATATGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGAGAAAAAG
Found at i:1648943 original size:35 final size:35
Alignment explanation
Indices: 1648892--1649685 Score: 1015
Period size: 34 Copynumber: 22.9 Consensus size: 35
1648882 GGGCTTTGGG
*
1648892 AAGGAAAAA-AGATGCCACGGAGTTGTGGAC-TTAA
1 AAGGAAAAAGAG-TGCCACGGAGTTGTGGGCTTTAA
1648926 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
1648962 AA-GAAAAA-AGTGCCACGGAGTTGTGGG-TTTAG
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
* * *
1648994 AAGGAAAAATAGTGCCACAGAGTTGTGGGC-TTAG
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
1649028 AAGG-AAAAGAGTGCCACGTAGTTGTGGGCTTT-A
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1649061 AAGG-AAAAGAGTGCCACGGAGTTGTGGGCTTTGAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AA
*
1649096 AAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
1649132 AAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AA
*
1649167 AAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
* * * *
1649203 AAAGAAAAAGTGTGCCACAGAGTTGTGGGC-TTAG
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
* * *
1649237 AAGGAAAAATAGTGCCACAGAGTTGTGGGC-TTAG
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
1649271 AAGG-AAAAGAGTGCCACGTAGTTGTGGGCTTT-A
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1649304 AAGG-AAAAGAGTGCCACGGAGTTGTGTGGGCTTTGAA
1 AAGGAAAAAGAGTGCCACGGAG-T-TGTGGGCTTT-AA
*
1649341 AAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
1649377 AAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AA
*
1649412 AAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
* * *
1649448 AAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1649483 AA-GAAAAA-AGTGCCACGGAGTTGTGGGCTTTGAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AA
1649517 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AA-GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
* * *
1649553 AAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
* *
1649588 GATGAAAAA-AGTGCCACGGAGTTGTGGGCTTTGAA
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AA
*
1649623 AA-GAAGAAG-GTGCCACGGAGTTGTGGGCTTT-A
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
*
1649655 AAGG-AAAAG-GTGCCACGAAGTTGTGGGCTTT
1 AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1649686 GAAGAAAAAA
Statistics
Matches: 685, Mismatches: 44, Indels: 64
0.86 0.06 0.08
Matches are distributed among these distances:
32 34 0.05
33 142 0.21
34 177 0.26
35 158 0.23
36 50 0.07
37 105 0.15
38 3 0.00
39 16 0.02
ACGTcount: A:0.34, C:0.11, G:0.34, T:0.21
Consensus pattern (35 bp):
AAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
Found at i:1649441 original size:245 final size:242
Alignment explanation
Indices: 1648897--1649685 Score: 1217
Period size: 245 Copynumber: 3.3 Consensus size: 242
1648887 TTGGGAAGGA
* * *
1648897 AAAAAGATGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTA
* * *
1648960 AAAAGAAAAA-AGTGCCACGGAGTTGTGGGTTTAGAAGGAAAAATAGTGCCACAGAGTTGTGGGC
66 AAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTAGAAGGAAAAATAGTGCCACAGAGTTGTGGGC
1649024 TTAGAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGTTGTGGG
131 TTAGAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGTTGTGGG
1649089 CTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAG
196 CTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAG
1649136 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
1649201 AAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTAGAAGGAAAAATAGTGCCACAGAGTTGTGGG
65 AAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTAGAAGGAAAAATAGTGCCACAGAGTTGTGGG
1649266 CTTAGAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGTTGTGT
130 CTTAGAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAG-T-TGT
1649331 GGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAG
193 GGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAG
1649381 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
* *
1649446 AAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTTA-AAAGAAAAA-AGTGCCACGGAGTTGTGG
65 AAAAAGAAAAAGTGTGCCACAGAGTTGTGGGC-TTAGAAGGAAAAATAGTGCCACAGAGTTGTGG
* * * * *
1649509 GCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGA
129 GC-TT-AGAA-GG-AAAAGAGTGCCACGTAGTTGTGGGCTTT--AAAGGAAAAGAGTGCCACGGA
* * * *
1649574 GTTGTGGGCTTT-AAGA-TGAAAAA-AGTGCCACGGAGTTGTGGGCTTTGAAAAG
188 GTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAG
*
1649626 AAGAAGGTGCCACGGAGTTGTGGGCTTT-AAA-GG-AAAAG-GTGCCAC-GAAGTTGTGGGCTTT
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACAG-AGTTGTGGGCTTT
1649686 GAAGAAAAAA
Statistics
Matches: 518, Mismatches: 18, Indels: 27
0.92 0.03 0.05
Matches are distributed among these distances:
239 24 0.05
240 22 0.04
241 40 0.08
242 12 0.02
243 112 0.22
244 20 0.04
245 214 0.41
246 12 0.02
247 5 0.01
248 37 0.07
249 1 0.00
250 19 0.04
ACGTcount: A:0.34, C:0.12, G:0.34, T:0.21
Consensus pattern (242 bp):
AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTA
AAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTAGAAGGAAAAATAGTGCCACAGAGTTGTGGGC
TTAGAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTTAAAGGAAAAGAGTGCCACGGAGTTGTGGG
CTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAG
Found at i:1650738 original size:17 final size:17
Alignment explanation
Indices: 1650700--1650735 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
1650690 GTTTTTCCTC
1650700 TTTTGTTTTCTTTTTTG
1 TTTTGTTTTCTTTTTTG
1650717 TTTTG-TTTCTTTTTT-
1 TTTTGTTTTCTTTTTTG
1650732 TTTT
1 TTTT
1650736 TTGGAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.21
16 10 0.53
17 5 0.26
ACGTcount: A:0.00, C:0.06, G:0.08, T:0.86
Consensus pattern (17 bp):
TTTTGTTTTCTTTTTTG
Found at i:1650981 original size:1 final size:1
Alignment explanation
Indices: 1650975--1651056 Score: 74
Period size: 1 Copynumber: 82.0 Consensus size: 1
1650965 TGCCTTTGCA
* * * * * * * *
1650975 TTTTTTTTGTGTTTTTTTTTTGTTTTTTTGTTTTTTTTTGTGTTTTTTTTATTTTTATTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
1651040 TTATTTATTTTTTTTTT
1 TTTTTTTTTTTTTTTTT
1651057 AAGGGAACTC
Statistics
Matches: 61, Mismatches: 20, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 61 1.00
ACGTcount: A:0.05, C:0.00, G:0.07, T:0.88
Consensus pattern (1 bp):
T
Found at i:1651000 original size:21 final size:20
Alignment explanation
Indices: 1650976--1651056 Score: 94
Period size: 20 Copynumber: 4.0 Consensus size: 20
1650966 GCCTTTGCAT
*
1650976 TTTTTTTGTGTTTTTTTTTTG
1 TTTTTTT-TATTTTTTTTTTG
*
1650997 TTTTTTTGT-TTTTTTTTGTG
1 TTTTTTT-TATTTTTTTTTTG
1651017 TTTTTTTTATTTTTATTTTT-
1 TTTTTTTTATTTTT-TTTTTG
1651037 TTTTTATTTATTTTTTTTTT
1 TTTTT-TTTATTTTTTTTTT
1651057 AAGGGAACTC
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
19 1 0.02
20 32 0.58
21 22 0.40
ACGTcount: A:0.05, C:0.00, G:0.07, T:0.88
Consensus pattern (20 bp):
TTTTTTTTATTTTTTTTTTG
Found at i:1651010 original size:31 final size:30
Alignment explanation
Indices: 1650975--1651056 Score: 105
Period size: 31 Copynumber: 2.7 Consensus size: 30
1650965 TGCCTTTGCA
1650975 TTTTTTTTGTGTTTTTTTTTTGTTT-TTTTGT
1 TTTTTTTTGTGTTTTTTTTTT-TTTATTTT-T
1651006 TTTTTTTTGTGTTTTTTTTATTTTTATTTTT
1 TTTTTTTTGTGTTTTTTTT-TTTTTATTTTT
* *
1651037 TTTTTATT-TATTTTTTTTTT
1 TTTTTTTTGTGTTTTTTTTTT
1651057 AAGGGAACTC
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
29 2 0.04
30 9 0.19
31 30 0.64
32 6 0.13
ACGTcount: A:0.05, C:0.00, G:0.07, T:0.88
Consensus pattern (30 bp):
TTTTTTTTGTGTTTTTTTTTTTTTATTTTT
Found at i:1656102 original size:51 final size:53
Alignment explanation
Indices: 1656033--1656163 Score: 160
Period size: 51 Copynumber: 2.5 Consensus size: 53
1656023 AGTTTATCAA
* * * * *
1656033 TTCTCCACAATCGTGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
1656084 TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
1656138 TTCTTCACAATCGGGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
1656164 CCCGTTATTT
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
50 2 0.03
51 32 0.48
53 9 0.14
54 20 0.30
55 3 0.05
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:1656304 original size:51 final size:53
Alignment explanation
Indices: 1656178--1656349 Score: 183
Period size: 51 Copynumber: 3.3 Consensus size: 53
1656168 TTATTTCCGA
*
1656178 GGGGATACTCCAACTCCGGTTTTA-TCGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACTCCGGTTTTATTTGCTAAAACACTAATTTTTCCACAATC
* * * * *
1656230 GGGGATACTTCAA-TCCTGGTTTTATTTTC-AAGACACTAA-TTTTCTATAATC
1 GGGGATACTCCAACTCC-GGTTTTATTTGCTAAAACACTAATTTTTCCACAATC
* * * *
1656281 GGGGATACTCCAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTT-CACAATC
1 GGGGATACTCCAACTCCGGTTTTATTTGC--TAAAACACTAATTT-TTCCACAATC
1656336 GGGGATACTCCAAC
1 GGGGATACTCCAAC
1656350 CCCGTTATTT
Statistics
Matches: 99, Mismatches: 13, Indels: 13
0.79 0.10 0.10
Matches are distributed among these distances:
51 35 0.35
52 31 0.31
53 2 0.02
54 8 0.08
55 21 0.21
56 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.32
Consensus pattern (53 bp):
GGGGATACTCCAACTCCGGTTTTATTTGCTAAAACACTAATTTTTCCACAATC
Found at i:1656424 original size:186 final size:185
Alignment explanation
Indices: 1656036--1656424 Score: 615
Period size: 186 Copynumber: 2.1 Consensus size: 185
1656026 TTATCAATTC
* *
1656036 TCCACAATCGTGGATA-TTCCAACTCC-GATTTTATTTTCAAAACACTAATTTTCTATAATCGGG
1 TCCACAATCGAGGATACTT-CAA-TCCTGGTTTTATTTTCAAAACACTAATTTTCTATAATCGGG
*
1656099 GATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAAC
* * *
1656164 CCCGTTATTTCCGAGGGGATACTCCAACTCCGGTTTTATCGCTAAAACACTAATTTT
129 CCCGTTATTTCCGAGGGGATACTCCAACTCCGATTTTATCGCAAAAACACCAATTTT
* *
1656221 TCCACAATCGGGGATACTTCAATCCTGGTTTTATTTTCAAGACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGAGGATACTTCAATCCTGGTTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1656286 TACTCCAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACC
66 TACTCCAACTCCGATTTTATTTCC-AAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACC
*
1656351 CCGTTATTTCCGAGGGGATACTCCAACTCCGATTTTATTTC-CAAAAATACCAATTTT
130 CCGTTATTTCCGAGGGGATACTCCAACTCCGATTTTA--TCGCAAAAACACCAATTTT
*
1656408 T-CACAGTCGAGGATACT
1 TCCACAATCGAGGATACT
1656425 CCAACCTCGT
Statistics
Matches: 189, Mismatches: 10, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
184 3 0.02
185 78 0.41
186 92 0.49
187 14 0.07
188 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (185 bp):
TCCACAATCGAGGATACTTCAATCCTGGTTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
CGTTATTTCCGAGGGGATACTCCAACTCCGATTTTATCGCAAAAACACCAATTTT
Found at i:1656449 original size:80 final size:82
Alignment explanation
Indices: 1656278--1656457 Score: 274
Period size: 80 Copynumber: 2.2 Consensus size: 82
1656268 ATTTTCTATA
*
1656278 ATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAAACACCAATTTCTTCACAATCGGGGATA
1 ATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAAACACCAATTTCTTCACAATCGAGGATA
1656343 CTCCAACCCCGTTATTTC
65 CTCCAACCCCGTTATTTC
*** * *
1656361 CGAGGGGATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAGTCGAGGATAC
1 ATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATAC
*
1656424 TCCAACCTCGTTATTTC
66 TCCAACCCCGTTATTTC
1656441 ATCGGGGATACTCCAAC
1 ATCGGGGATACTCCAAC
1656458 CCCGTTACTT
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
80 45 0.52
81 13 0.15
83 29 0.33
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (82 bp):
ATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATAC
TCCAACCCCGTTATTTC
Found at i:1656450 original size:28 final size:28
Alignment explanation
Indices: 1656418--1656489 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
1656408 TCACAGTCGA
* * **
1656418 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
1656446 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
1656474 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
1656490 GCTTTATTCC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGAGG
Found at i:1656549 original size:108 final size:108
Alignment explanation
Indices: 1656333--1656571 Score: 302
Period size: 107 Copynumber: 2.2 Consensus size: 108
1656323 TTTCTTCACA
* * *
1656333 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGATTTTATTTCCAAAAA
1 ATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAAA
* * *
1656398 TACCAATTTTTCACAGTCGAGGATACTCCAACCTCGTTATTTC
66 TACCAATTTCTCACAATCGAGGATACTCCAACCCCGTTATTTC
* *
1656441 ATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTA-TTCCCAAAA
1 ATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAAA
*** * * *
1656505 TATTGATTTCTCATAATTGGGGATACTCCAACCCCGTTATTTTC
66 TACCAATTTCTCACAATCGAGGATACTCCAACCCCGTTA-TTTC
* * *
1656549 A-AGGGAACACTCCAACCCCGTTA
1 ATCGGGGATACTCCAACCCCGTTA
1656572 TTATCTCCAA
Statistics
Matches: 113, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
107 57 0.50
108 56 0.50
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.28
Consensus pattern (108 bp):
ATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAAA
TACCAATTTCTCACAATCGAGGATACTCCAACCCCGTTATTTC
Found at i:1656582 original size:79 final size:80
Alignment explanation
Indices: 1656444--1656598 Score: 199
Period size: 79 Copynumber: 1.9 Consensus size: 80
1656434 TTATTTCATC
* * * *
1656444 GGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATT
1 GGGGATACTCCAACCCCGTTACTTCCAAGGGAACACTCCAACCCCGGCTTTATTCCCAAAACATT
*
1656509 -GATTTCTCATAATT
66 AAATTTCTCATAATT
* * *
1656523 GGGGATACTCCAACCCCGTTATTTTCAAGGGAACACTCCAACCCC-GTTATTA-TCTCCAAAACA
1 GGGGATACTCCAACCCCGTTACTTCCAAGGGAACACTCCAACCCCGGCT-TTATTC-CCAAAACA
1656586 TTAAATTTCTCAT
64 TTAAATTTCTCAT
1656599 CGGGAAATAT
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
78 4 0.06
79 52 0.80
80 9 0.14
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (80 bp):
GGGGATACTCCAACCCCGTTACTTCCAAGGGAACACTCCAACCCCGGCTTTATTCCCAAAACATT
AAATTTCTCATAATT
Found at i:1656796 original size:28 final size:28
Alignment explanation
Indices: 1656763--1656825 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
1656753 TTATACATCA
*
1656763 TTAATCTAAAACAATCATGAGACATACT
1 TTAATCGAAAACAATCATGAGACATACT
1656791 TTAATCGAAAACAATCATGAGACATACT
1 TTAATCGAAAACAATCATGAGACATACT
*
1656819 TTGATCG
1 TTAATCG
1656826 TCCTTTCTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (28 bp):
TTAATCGAAAACAATCATGAGACATACT
Found at i:1662876 original size:55 final size:55
Alignment explanation
Indices: 1662726--1665055 Score: 2656
Period size: 55 Copynumber: 40.9 Consensus size: 55
1662716 ACGCCTTTTT
* *
1662726 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA--C----AC
* *
1662787 TTTTCAAAGCCCACACAAGTTGGTGGCATCTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
*
1662842 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTTAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
* * * * *
1662897 CTCTCAAAGCCCATACAAGTTGGTGGCACCTTT-C-GTCCCCAAAGAGCAGGACGCC
1 CTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGAC-AC
* *
1662952 TTCTCCTCTCAAAGCCCACACAAGTTGGTGGCACCTTT-C-GTCCCCAAAGAGCAGGACACCATC
1 --CT--T-TCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGG--A-CA--
1663015 TC
55 -C
* * * *
1663017 CTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
**
1663072 CTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATCCTCCAGTCCTCAAAGAGCAGGACAC
1 CTT-T-C----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
*
1663133 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
* * *
1663188 CTCTCAAAGCCCACACAAGTTGGTGGCACCTTTT---GTCCCCAAAGAGCAGGACGC
1 CTTTCAAAGCCCACACAAGTTGGTGGCA--TTTTCCAGTCCTCAAAGAGCAGGACAC
* *
1663242 CTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTCC
1 CTT-T-C----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA------C
1663307 AC
54 AC
** *
1663309 CTTTCAAAGCCCAC-TGAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
*
1663363 CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
*
1663418 CTTTCAAAGCCCACACAAGTTGGTGGTA-TTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
* * * * *
1663472 CTTTTAAAGCCCATACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA--C----AC
* * * *
1663533 TTTTCAAAGCCCACACAGGTTGGTGGCACCTTT-CAGTCCCCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACAC
* *
1663588 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGTAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
* * *
1663643 CTCTCAAAGCCCACACAAGTTGGTGGCACCTTT-C-GTCCCCAAAGAGCAGGACGCCATCTC
1 CTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGA---CA---C
* * * *
1663703 CTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
**
1663758 CTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATCCTCCAGTCCTCAAAGAGCAGGACAC
1 CTT-T-C----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
* *
1663819 CTTTCAAAGCCCACACAAGTTGGTGGCATTTT-TAGTCCCCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1663873 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1663928 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
*
1663983 CTTTCAAAGCCCACACAAGTTGGTGGTA-TTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
* * * * *
1664037 CTTTTAAAGCCCATACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA--C----AC
* * * *
1664098 TTTTCAAAGCCCACACAGGTTGGTGGCACCTTT-CAGTCCCCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACAC
* *
1664153 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGTAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
* * *
1664208 CTCTCAAAGCCCACACAAGTTGGTGGCACCTTT-C-GTCCCCAAAGAGCAGGACGCCATCTC
1 CTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGA---CA---C
* * * *
1664268 CTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
**
1664323 CTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATCCTCCAGTCCTCAAAGAGCAGGACAC
1 CTT-T-C----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
* *
1664384 CTTTCAAAGCCCACACAAGTTGGTGGCATTTT-TAGTCCCCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1664438 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1664493 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
* * *
1664548 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-C-GTCCCCAAAGAGCAGGACGC
1 CTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACAC
* * * *
1664602 CTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAGAGCAGGACGC
1 CTT-T-C----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
*
1664663 CTTCGCCTCTCAAAGCCTACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1 C-T----T-TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
*
1664724 CTTTCAAAGCCTACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
* * * * *
1664779 CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTTAAAGAGTAGGACGCC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAC-AC
*
1664835 TTTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACAC
1 ----CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
* *
1664894 CTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACGC
1 CT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACAC
* * * *
1664949 CTCTT-AAAGCCTACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGTAGGACGC
1 CT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACAC
** * ** * *
1665004 CTTTCAAAGCCCACACGTGTTTGTGGCATTTTTTACTCCTCAATGAGCAGGA
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA
1665056 TACACTTTAT
Statistics
Matches: 1995, Mismatches: 162, Indels: 230
0.84 0.07 0.10
Matches are distributed among these distances:
54 317 0.16
55 917 0.46
56 24 0.01
57 12 0.01
58 5 0.00
59 20 0.01
60 258 0.13
61 419 0.21
62 8 0.00
63 3 0.00
65 3 0.00
66 4 0.00
67 5 0.00
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (55 bp):
CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
Found at i:1663251 original size:170 final size:168
Alignment explanation
Indices: 1662700--1665055 Score: 2566
Period size: 170 Copynumber: 13.8 Consensus size: 168
1662690 AGCCCTTCCA
* * * * * *
1662700 GTCCTCAAAAAGCAAGACGCCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCC
1 GTCCTCAAAGAGCAGGACGCC-TTCTCTTTTAAAGCCCACACAAGTTGGTGGCATCTTCCAGTCC
* * *
1662765 TCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATCTTCCAGTCCTCAA
65 TCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAA
1662830 AGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTT
124 AGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTT
* * * * *
1662874 CCAGTCCTTAAAGAGCAGGACACC-TCTC----AAAGCCCATACAAGTTGGTGGCACCTTTC-GT
1 ---GTCCTCAAAGAGCAGGACGCCTTCTCTTTTAAAGCCCACACAAGTTGGTGGCATCTTCCAGT
* * * *
1662933 CCCCAAAGAGCAGGACGCCTTCTCCTCTCAAAGCCCACACAAGTTGGTGGCACCTTT-C-GTCCC
63 CCTCAAAGAGCAGGAC-AC--CT--T-TCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCT
* **
1662996 CAAAGAGCAGGACACCATCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCA
121 CAAAGAGCAGG--A-CA---CCTTTCAAAGCCCACACAAGTTGGTGGCACTT--TT
*
1663052 GTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATCCTCCAGTCC
1 GTCCTCAAAGAGCAGGACGCCTTCT-CTTTTAAAGCCCACACAAGTTGGTGGCATCTTCCAGTCC
*
1663117 TCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGTA
65 TCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCA
*
1663182 GGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTT
130 GGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTT
*
1663222 GTCCCCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTC
1 GTCCTCAAAGAGCAGGACGCCTTCT-CTTTTAAAGCCCACACAAGTTGGTGGCATCTT-CCAGTC
** *
1663286 CTCAAAGAGCAGGACGCCTCCACCTTTCAAAGCCCAC-TGAGTTGGTGGCATTTTCTAGTCCTCA
64 CTCAAAGAGCAGGA------CACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
*
1663350 AAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTT
123 AAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTT
* *
1663395 CCAGTCCTCAAAGAGCAGGACACCTT-TC----AAAGCCCACACAAGTTGGTGGTAT-TTCCAGT
1 ---GTCCTCAAAGAGCAGGACGCCTTCTCTTTTAAAGCCCACACAAGTTGGTGGCATCTTCCAGT
* * * *
1663454 CCTCAAAGAGCAGGACACCTTTTAAAGCCCATACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAG
63 CCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAG
* * * *
1663519 CAGGATGCTTTTTCTTTTCAAAGCCCACACAGGTTGGTGGCACCTTTCA
128 CAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTT-T
* * * *
1663568 GTCCCCAAAGAGCAGGACACCTT-TC----AAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCT
1 GTCCTCAAAGAGCAGGACGCCTTCTCTTTTAAAGCCCACACAAGTTGGTGGCATCTTCCAGTCCT
* * * *
1663628 CAAAGAGTAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTT-C-GTCCCCAAAGAGCA
66 CAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCA
* **
1663691 GGACGCCATCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCA
130 GGA---CA---CCTTTCAAAGCCCACACAAGTTGGTGGCACTT--TT
*
1663738 GTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATCCTCCAGTCC
1 GTCCTCAAAGAGCAGGACGCCTTCT-CTTTTAAAGCCCACACAAGTTGGTGGCATCTTCCAGTCC
* *
1663803 TCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTT-TAGTCCCCAAAGAGCA
65 TCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCA
1663867 GGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTT
130 GGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTT
* *
1663905 CCAGTCCTCAAAGAGCAGGACACCTT-TC----AAAGCCCACACAAGTTGGTGGCATTTTCCAGT
1 ---GTCCTCAAAGAGCAGGACGCCTTCTCTTTTAAAGCCCACACAAGTTGGTGGCATCTTCCAGT
*
1663965 CCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGTA-TTTCCAGTCCTCAAAGAG
63 CCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAG
* * * *
1664029 CAGGACACCTTTTAAAGCCCATACAGGTTGGTGGCATTTTT
128 CAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTT
* * * * * *
1664070 CAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAGGTTGGTGGCACCTTTCAGT
1 --GTCCTCAAAGAGCAGGACGCCTTCTCTTTT-AAAGCCCACACAAGTTGGTGGCATCTTCCAGT
* *
1664135 CCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAG
63 CCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAG
* * *
1664200 TAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTC
128 CAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTT
* *
1664242 GTCCCCAAAGAGCAGGACGCCATCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTC
1 GTCCTCAAAGAGCAGGACGCCTTCT-CTTTTAAAGCCCACACAAGTTGGTGGCATCTT-CCAGTC
* **
1664306 CTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATCCTCCAGTCCTCA
64 CTCAAAGAGCAGGACACCTT-T-C----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
*
1664371 AAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTT
123 AAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTT
* * *
1664417 AGTCCCCAAAGAGCAGGACACCTT-TC----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCC
1 -GTCCTCAAAGAGCAGGACGCCTTCTCTTTTAAAGCCCACACAAGTTGGTGGCATCTTCCAGTCC
1664477 TCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCA
65 TCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCA
*
1664542 GGACACCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
130 GGACACCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTT
* *
1664582 GTCCCCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAATC
1 GTCCTCAAAGAGCAGGACGCCTTCT-CTTTTAAAGCCCACACAAGTTGGTGGCATCTT-CCAGTC
* *
1664646 CTCAAAGAGCAGGACGCCTTCGCCTCTCAAAGCCTACACAAGTTGGTGGCATTTTCCAGTCCTCA
64 CTCAAAGAGCAGGACACC-T----T-TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
*
1664711 AAGAGCAGGACACCTTTCAAAGCCTACACAAGTTGGTGGCA-TTTT
123 AAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTT
* * *
1664756 CCAGTCCTCAAAGAGCAGGA---C-AC-CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAAT
1 ---GTCCTCAAAGAGCAGGACGCCTTCTCTTTTAAAGCCCACACAAGTTGGTGGCATCTTCCAGT
* * * *
1664816 CCTTAAAGAGTAGGACGCCTTTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCA
63 CCTCAAAGAGCAGGAC-AC----CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCA
*
1664881 AAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTCA
123 AAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-CTTT-T
* * *
1664929 GTCCTCAAAGAGCAGGACG-C--CTC--TTAAAGCCTACACAAGTTGGTGGCACCTTTCAGTCCT
1 GTCCTCAAAGAGCAGGACGCCTTCTCTTTTAAAGCCCACACAAGTTGGTGGCATCTTCCAGTCCT
* * ** * ** * *
1664989 CAAAGAGTAGGACGCCTTTCAAAGCCCACACGTGTTTGTGGCATTTTTTACTCCTCAATGAGCAG
66 CAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAG
1665054 GA
131 GA
1665056 TACACTTTAT
Statistics
Matches: 1898, Mismatches: 167, Indels: 240
0.82 0.07 0.10
Matches are distributed among these distances:
163 18 0.01
164 272 0.14
165 57 0.03
166 2 0.00
167 1 0.00
168 3 0.00
169 51 0.03
170 691 0.36
171 212 0.11
172 24 0.01
173 7 0.00
174 8 0.00
175 126 0.07
176 332 0.17
177 49 0.03
179 2 0.00
181 26 0.01
182 17 0.01
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.23
Consensus pattern (168 bp):
GTCCTCAAAGAGCAGGACGCCTTCTCTTTTAAAGCCCACACAAGTTGGTGGCATCTTCCAGTCCT
CAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAG
GACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTT
Found at i:1663566 original size:29 final size:29
Alignment explanation
Indices: 1663534--1663676 Score: 70
Period size: 27 Copynumber: 5.1 Consensus size: 29
1663524 TGCTTTTTCT
1663534 TTTCAAAGCCCACACAGGTTGGTGGCACC
1 TTTCAAAGCCCACACAGGTTGGTGGCACC
* ** *
1663563 TTTC--AGTCCC-CAAAGAG-CAG-GACACC
1 TTTCAAAG-CCCACACAG-GTTGGTGGCACC
* **
1663589 TTTCAAAGCCCACACAAGTTGGTGGCATT
1 TTTCAAAGCCCACACAGGTTGGTGGCACC
* * * * *
1663618 TTTC--AGTCCTCAAAGAG-TAG-GACACC
1 TTTCAAAGCCCACACAG-GTTGGTGGCACC
* *
1663644 TCTCAAAGCCCACACAAGTTGGTGGCACC
1 TTTCAAAGCCCACACAGGTTGGTGGCACC
1663673 TTTC
1 TTTC
1663677 GTCCCCAAAG
Statistics
Matches: 75, Mismatches: 27, Indels: 24
0.60 0.21 0.19
Matches are distributed among these distances:
26 15 0.20
27 21 0.28
28 20 0.27
29 19 0.25
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.22
Consensus pattern (29 bp):
TTTCAAAGCCCACACAGGTTGGTGGCACC
Found at i:1663932 original size:27 final size:27
Alignment explanation
Indices: 1663902--1663987 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
1663892 TTGGTGGCAT
1663902 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
1663929 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
1663957 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
1663984 TTTC
1 TTTC
1663988 AAAGCCCACA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.12
27 14 0.35
28 10 0.25
29 5 0.12
30 3 0.08
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:1663984 original size:565 final size:563
Alignment explanation
Indices: 1662726--1665055 Score: 3155
Period size: 565 Copynumber: 4.1 Consensus size: 563
1662716 ACGCCTTTTT
* *
1662726 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTT
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGA--C----ACCTTT
*
1662791 CAAAGCCCACACAAGTTGGTGGCATCTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCAC
60 CAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCAC
* * * *
1662856 ACAAGTTGGTGGCATTTTCCAGTCCTTAAAGAGCAGGACACCTCTCAAAGCCCATACAAGTTGGT
125 ACAAGTTGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCATACAAGTTGGT
* *
1662921 GGCACCTTTC-GTCCCCAAAGAGCAGGACGCCTTCTCCTCTCAAAGCCCACACAAGTTGGTGGCA
190 GGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTCTCAAAGCCCACACAAGTTGGTGGCA
* * *
1662985 CCTTTC-GTCCCCAAAGAGCAGGACACCATCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTC
255 CCTTTCAGTCCCCAAAGAGCAGG--A-CA---CCTTTCAAAGCCCACACAAGTTGGTGGCATTTT
* *
1663049 CCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCATCC-TCCA
314 CCAGTCCTCAAAGAGCAGGACACC-TCT-C----AAAGCCCACACAAGTTGGTGGCA-CCTTTCA
* * *
1663113 GTCCTCAAAGAGCAGGA---CA---CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCC
372 GTCCCCAAAGAGCAGGACGCCATCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCC
* * *** *
1663172 TCAAAGAGTAGGACACCTCTC--AAAGCCCACACAAGTTGGTGGCACCTTTTGTCCCCAAAGAGC
437 TCAAAGAGCAGGACGCCTCTCTTAAAGCCCACACAAGTTGGTGGCACCTCCAGTCCTCAAAGAGC
* ** *
1663235 AGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGA
502 AGGACACCTT-T-C----AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCCCAAAGAGCAGGA
1663300 CGCCTCCAC
561 ------CAC
** *
1663309 CTTTCAAAGCCCAC-TGAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACACCTTTTAAAGC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACACCTTTCAAAGC
1663373 CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGT
66 CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGT
* * *
1663438 TGGTGGTA-TTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCATACAGGTTGGTGGCATT
131 TGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCATACAAGTTGGTGGCACT
* * * * * *
1663502 TTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAGGTTGGTGGCACCTTTC
196 TTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
1663567 AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAA
261 AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAA
*
1663632 GAGTAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTC-GTCCCCAAAGAGCAGGACG
326 GAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACG
*
1663696 CCATCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTT
391 CCATCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCC-T
1663761 CTCCTTTTAAAGCCCACACAAGTTGGTGGCATCCTCCAGTCCTCAAAGAGCAGGACACCTTTCAA
455 CT-C--TTAAAGCCCACACAAGTTGGTGGCA-CCTCCAGTCCTCAAAGAGCAGGACACCTTTCAA
*
1663826 AGCCCACACAAGTTGGTGGCA-TTTTTAGTCCCCAAAGAGCAGGACAC
516 AGCCCACACAAGTTGGTGGCACTTTTCAGTCCCCAAAGAGCAGGACAC
*
1663873 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACACCTTTCAAAGC
1663938 CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGT
66 CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGT
* * *
1664003 TGGTGGTA-TTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCATACAGGTTGGTGGCATT
131 TGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCATACAAGTTGGTGGCACT
* * * * * *
1664067 TTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAGGTTGGTGGCACCTTTC
196 TTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
1664132 AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAA
261 AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAA
*
1664197 GAGTAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTC-GTCCCCAAAGAGCAGGACG
326 GAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACG
*
1664261 CCATCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTT
391 CCATCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCC-T
1664326 CTCCTTTTAAAGCCCACACAAGTTGGTGGCATCCTCCAGTCCTCAAAGAGCAGGACACCTTTCAA
455 CT-C--TTAAAGCCCACACAAGTTGGTGGCA-CCTCCAGTCCTCAAAGAGCAGGACACCTTTCAA
*
1664391 AGCCCACACAAGTTGGTGGCA-TTTTTAGTCCCCAAAGAGCAGGACAC
516 AGCCCACACAAGTTGGTGGCACTTTTCAGTCCCCAAAGAGCAGGACAC
*
1664438 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGC
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACACCTTTCAAAGC
1664503 CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGT
66 CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGT
* * *
1664568 TGGTGGCACCTTT-C-GTCCCCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGG
131 TGGTGGCA-CTTTCCAGTCCTCAAAGAGCAGGA------CACCTTTTAAAGCCCATACAAGTTGG
** * * *
1664631 TGGCACTTCCCAATCCTCAAAGAGCAGGACGCCTTCGCCTCTCAAAGCCTACACAAGTTGGTGGC
189 TGGCACTTTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTCTCAAAGCCCACACAAGTTGGTGGC
* * *
1664696 A-TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCTACACAAGTTGGTGGCATTTTCCAG
254 ACCTTT-CAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAG
* * * * **
1664760 TCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAATCCTTAAAG
318 TCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCCCAAAG
* * * * **
1664824 AGTAGGACGCC-TTTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCA
382 AGCAGGACGCCATCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCA
* * *
1664888 GGAC-AC-CTCTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCT
447 GGACGCCTCTCTTAAAGCCCACACAAGTTGGTGGCACC-TCCAGTCCTCAAAGAGCAGGACACCT
* * * * *
1664951 CTT-AAAGCCTACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGACGC
511 -TTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCCCAAAGAGCAGGACAC
** * * * *
1665004 CTTTCAAAGCCCACACGTGTTTGTGGCATTTTTTACTCCTCAATGAGCAGGA
1 CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGA
1665056 TACACTTTAT
Statistics
Matches: 1619, Mismatches: 97, Indels: 79
0.90 0.05 0.04
Matches are distributed among these distances:
564 37 0.02
565 795 0.49
566 69 0.04
567 6 0.00
568 2 0.00
569 1 0.00
570 81 0.05
571 305 0.19
572 18 0.01
574 2 0.00
575 56 0.03
576 157 0.10
577 40 0.02
580 1 0.00
582 35 0.02
583 14 0.01
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (563 bp):
CTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACACCTTTCAAAGC
CCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGT
TGGTGGCACTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCATACAAGTTGGTGGCACT
TTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTC
AGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAA
GAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACG
CCATCTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGACGCCTC
TCTTAAAGCCCACACAAGTTGGTGGCACCTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCC
ACACAAGTTGGTGGCACTTTTCAGTCCCCAAAGAGCAGGACAC
Found at i:1664131 original size:29 final size:29
Alignment explanation
Indices: 1664099--1664241 Score: 70
Period size: 27 Copynumber: 5.1 Consensus size: 29
1664089 TGCTTTTTCT
1664099 TTTCAAAGCCCACACAGGTTGGTGGCACC
1 TTTCAAAGCCCACACAGGTTGGTGGCACC
* ** *
1664128 TTTC--AGTCCC-CAAAGAG-CAG-GACACC
1 TTTCAAAG-CCCACACAG-GTTGGTGGCACC
* **
1664154 TTTCAAAGCCCACACAAGTTGGTGGCATT
1 TTTCAAAGCCCACACAGGTTGGTGGCACC
* * * * *
1664183 TTTC--AGTCCTCAAAGAG-TAG-GACACC
1 TTTCAAAGCCCACACAG-GTTGGTGGCACC
* *
1664209 TCTCAAAGCCCACACAAGTTGGTGGCACC
1 TTTCAAAGCCCACACAGGTTGGTGGCACC
1664238 TTTC
1 TTTC
1664242 GTCCCCAAAG
Statistics
Matches: 75, Mismatches: 27, Indels: 24
0.60 0.21 0.19
Matches are distributed among these distances:
26 15 0.20
27 21 0.28
28 20 0.27
29 19 0.25
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.22
Consensus pattern (29 bp):
TTTCAAAGCCCACACAGGTTGGTGGCACC
Found at i:1664497 original size:27 final size:27
Alignment explanation
Indices: 1664467--1664552 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
1664457 TTGGTGGCAT
1664467 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
1664494 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
1664522 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
1664549 TTTC
1 TTTC
1664553 AAAGCCCACA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.12
27 14 0.35
28 10 0.25
29 5 0.12
30 3 0.08
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:1665847 original size:19 final size:19
Alignment explanation
Indices: 1665823--1665890 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1665813 AATTCAACAA
1665823 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1665842 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1665857 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1665874 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1665891 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1665862 original size:13 final size:13
Alignment explanation
Indices: 1665844--1665868 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1665834 ACATAAGTTT
1665844 TGTATCGATACAA
1 TGTATCGATACAA
1665857 TGTATCGATACA
1 TGTATCGATACA
1665869 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1665866 original size:32 final size:32
Alignment explanation
Indices: 1665825--1665887 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1665815 TTCAACAATT
*
1665825 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1665857 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1665888 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1665948 original size:13 final size:13
Alignment explanation
Indices: 1665930--1665955 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1665920 CATTTTTCTG
1665930 TGTATCGATACAT
1 TGTATCGATACAT
1665943 TGTATCGATACAT
1 TGTATCGATACAT
1665956 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1665952 original size:33 final size:33
Alignment explanation
Indices: 1665910--1665976 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1665900 GCCAAGAAAA
***
1665910 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1665943 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
1665976 T
1 T
1665977 TGGAAAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:1668374 original size:51 final size:53
Alignment explanation
Indices: 1668305--1668435 Score: 160
Period size: 51 Copynumber: 2.5 Consensus size: 53
1668295 AGTTTATCAA
* * * * *
1668305 TTCTCCACAATCGTGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
1668356 TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
1668410 TTCTTCACAATCGGGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
1668436 CCCGTTATTT
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
50 2 0.03
51 32 0.48
53 9 0.14
54 20 0.30
55 3 0.05
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:1668576 original size:51 final size:53
Alignment explanation
Indices: 1668450--1668621 Score: 174
Period size: 51 Copynumber: 3.3 Consensus size: 53
1668440 TTATTTTCGA
*
1668450 GGGGATACTCCAACTCCGGTTTTA-TCGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACTCCGGTTTTATTTGCTAAAACACTAATTTTTCCACAATC
* * * * *
1668502 GGGGATACTTCAA-TCCTGGTTTTATTTTC-AAGACACTAA-TTTTCTATAATC
1 GGGGATACTCCAACTCC-GGTTTTATTTGCTAAAACACTAATTTTTCCACAATC
* * * * *
1668553 GGGGATACTCCAACTCCGATTTTATTTCCAAAAAAATACCAATTTCTT-CACAATC
1 GGGGATACTCCAACTCCGGTTTTATTTGC--TAAAACACTAATTT-TTCCACAATC
1668608 GGGGATACTCCAAC
1 GGGGATACTCCAAC
1668622 CCCGTTATTT
Statistics
Matches: 98, Mismatches: 14, Indels: 13
0.78 0.11 0.10
Matches are distributed among these distances:
51 35 0.36
52 31 0.32
53 2 0.02
54 7 0.07
55 21 0.21
56 2 0.02
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (53 bp):
GGGGATACTCCAACTCCGGTTTTATTTGCTAAAACACTAATTTTTCCACAATC
Found at i:1668696 original size:186 final size:185
Alignment explanation
Indices: 1668308--1668696 Score: 597
Period size: 186 Copynumber: 2.1 Consensus size: 185
1668298 TTATCAATTC
* *
1668308 TCCACAATCGTGGATA-TTCCAACTCC-GATTTTATTTTCAAAACACTAATTTTCTATAATCGGG
1 TCCACAATCGAGGATACTT-CAA-TCCTGGTTTTATTTTCAAAACACTAATTTTCTATAATCGGG
*
1668371 GATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAAC
* * * *
1668436 CCCGTTATTTTCGAGGGGATACTCCAACTCCGGTTTTATCGCTAAAACACTAATTTT
129 CCCGTTATTTCCGAGGGGATACTCCAACTCCGATTTTATCGCAAAAACACCAATTTT
* *
1668493 TCCACAATCGGGGATACTTCAATCCTGGTTTTATTTTCAAGACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGAGGATACTTCAATCCTGGTTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
*
1668558 TACTCCAACTCCGATTTTATTTCCAAAAAAATACCAATTTCTTCACAATCGGGGATACTCCAACC
66 TACTCCAACTCCGATTTTATTTCC-AAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACC
*
1668623 CCGTTATTTCCGAGGGGATACTCCAACTCCGATTTTATTTC-CAAAAATACCAATTTT
130 CCGTTATTTCCGAGGGGATACTCCAACTCCGATTTTA--TCGCAAAAACACCAATTTT
*
1668680 T-CACAGTCGAGGATACT
1 TCCACAATCGAGGATACT
1668697 CCAACCTCGT
Statistics
Matches: 187, Mismatches: 12, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
184 3 0.02
185 78 0.42
186 90 0.48
187 14 0.07
188 2 0.01
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.33
Consensus pattern (185 bp):
TCCACAATCGAGGATACTTCAATCCTGGTTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
CGTTATTTCCGAGGGGATACTCCAACTCCGATTTTATCGCAAAAACACCAATTTT
Found at i:1668721 original size:80 final size:82
Alignment explanation
Indices: 1668550--1668729 Score: 283
Period size: 80 Copynumber: 2.2 Consensus size: 82
1668540 ATTTTCTATA
*
1668550 ATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAAATACCAATTTCTTCACAATCGGGGATA
1 ATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAAATACCAATTTCTTCACAATCGAGGATA
1668615 CTCCAACCCCGTTATTTC
65 CTCCAACCCCGTTATTTC
*** *
1668633 CGAGGGGATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAGTCGAGGATAC
1 ATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAATACCAATTTCTTCACAATCGAGGATAC
*
1668696 TCCAACCTCGTTATTTC
66 TCCAACCCCGTTATTTC
1668713 ATCGGGGATACTCCAAC
1 ATCGGGGATACTCCAAC
1668730 CCCGTTACTT
Statistics
Matches: 88, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
80 45 0.51
81 14 0.16
83 29 0.33
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.29
Consensus pattern (82 bp):
ATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAATACCAATTTCTTCACAATCGAGGATAC
TCCAACCCCGTTATTTC
Found at i:1668722 original size:28 final size:28
Alignment explanation
Indices: 1668690--1668761 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
1668680 TCACAGTCGA
* * **
1668690 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
*
1668718 GGATACTCCAACCCCGTTACTTCCGAGG
1 GGATACTCCAACCCCGTTACTTCAGAGG
1668746 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
1668762 GCTTTATTCT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACTTCAGAGG
Found at i:1668821 original size:108 final size:108
Alignment explanation
Indices: 1668605--1668843 Score: 295
Period size: 108 Copynumber: 2.2 Consensus size: 108
1668595 TTTCTTCACA
* * *
1668605 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGATTTTATTTCCAAAAA
1 ATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAAA
* * *
1668670 TACCAATTTTTCACAGTCGAGGATACTCCAACCTCGTTATTTC
66 TACCAATTTCTCACAATCGAGGATACTCCAACCCCGTTATTTC
*
1668713 ATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTA-TTCTC-AAA
1 ATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTTC-CAAAA
*** * * *
1668776 ATATTGATTTCTCATAATTGGGGATACTCCAACCCCGTTATTTTC
65 ATACCAATTTCTCACAATCGAGGATACTCCAACCCCGTTA-TTTC
* * *
1668821 A-AGGGAACACTCCAACCCCGTTA
1 ATCGGGGATACTCCAACCCCGTTA
1668844 TTATCTCCAA
Statistics
Matches: 113, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
107 56 0.50
108 57 0.50
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (108 bp):
ATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGACTTTATTTCCAAAAA
TACCAATTTCTCACAATCGAGGATACTCCAACCCCGTTATTTC
Found at i:1668855 original size:79 final size:80
Alignment explanation
Indices: 1668716--1668870 Score: 199
Period size: 79 Copynumber: 1.9 Consensus size: 80
1668706 TTATTTCATC
* * * *
1668716 GGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCTCAAAATATT
1 GGGGATACTCCAACCCCGTTACTTCCAAGGGAACACTCCAACCCCGGCTTTATTCTCAAAACATT
*
1668781 -GATTTCTCATAATT
66 AAATTTCTCATAATT
* * *
1668795 GGGGATACTCCAACCCCGTTATTTTCAAGGGAACACTCCAACCCC-GTTATTA-TCTCCAAAACA
1 GGGGATACTCCAACCCCGTTACTTCCAAGGGAACACTCCAACCCCGGCT-TTATTCT-CAAAACA
1668858 TTAAATTTCTCAT
64 TTAAATTTCTCAT
1668871 CGGGAAATAT
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
78 5 0.08
79 51 0.78
80 9 0.14
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (80 bp):
GGGGATACTCCAACCCCGTTACTTCCAAGGGAACACTCCAACCCCGGCTTTATTCTCAAAACATT
AAATTTCTCATAATT
Found at i:1669068 original size:28 final size:28
Alignment explanation
Indices: 1669035--1669097 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
1669025 TTATACATCA
1669035 TTAATCGAAAACAATCATGAGACATACT
1 TTAATCGAAAACAATCATGAGACATACT
1669063 TTAATCGAAAACAATCATGAGACATACT
1 TTAATCGAAAACAATCATGAGACATACT
*
1669091 TTGATCG
1 TTAATCG
1669098 TCCTTTCTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.43, C:0.17, G:0.13, T:0.27
Consensus pattern (28 bp):
TTAATCGAAAACAATCATGAGACATACT
Found at i:1675223 original size:30 final size:30
Alignment explanation
Indices: 1675188--1675517 Score: 322
Period size: 30 Copynumber: 10.8 Consensus size: 30
1675178 TCTTCAAATC
* *
1675188 TCTCTTCTCAAAGTCTATGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* * * *
1675218 TCTCTTTTCAAAGTCTACAACTCAGTGGTA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* * *
1675248 TCTTTTCTTCAAAGTCCATGACTCTGTGGCA
1 TCTCTTC-TCAAAGTCCACGACTCAGTGGCA
* * *
1675279 TCTTTTTCTTCCAAGTCCATGACTCAGTGGCA
1 TC-TCTTC-TCAAAGTCCACGACTCAGTGGCA
* *
1675311 TCTTTTTTCTTCAAAGTCCACGACTCGGTGGCA
1 TC--TCTTC-TCAAAGTCCACGACTCAGTGGCA
* * *
1675344 TATC-T-TCAAAGTCCACAACTCAGTGGCT
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* *
1675372 TCTCTTCCCAAAGTCCACAACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
* * *
1675402 TCTTTTCTTCAAAGTCCACTAACTCAGTGGCT
1 TCTCTTC-TCAAAGTCCAC-GACTCAGTGGCA
* * *
1675434 TCTCTTTTCTAAGTCCATGACTCAAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTC-AGTGGCA
*
1675465 TCTCTTCCCAAAGTCCACGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCA
*
1675495 TCTCTTCCCAAAGTCCACGACTC
1 TCTCTTCTCAAAGTCCACGACTC
1675518 TATGACACCT
Statistics
Matches: 255, Mismatches: 37, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
28 23 0.09
29 1 0.00
30 93 0.36
31 65 0.25
32 45 0.18
33 28 0.11
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.33
Consensus pattern (30 bp):
TCTCTTCTCAAAGTCCACGACTCAGTGGCA
Found at i:1675357 original size:93 final size:89
Alignment explanation
Indices: 1675188--1675517 Score: 333
Period size: 93 Copynumber: 3.6 Consensus size: 89
1675178 TCTTCAAATC
* * * * * * *
1675188 TCTCTTCTCAAAGTCTATGACTCAGTGGCATCTCTT-TTCAAAGTCTACAACTCAGTGGTATCTT
1 TCTCTTCCCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGG---CAT
* *
1675252 TTCTTCAAAGTCCATGACTCTGTGGCA
63 ATCTTCAAAGTCCATGACTCAGTGGCA
* * *
1675279 TCTTTTTCTTCC-AAGTCCATGACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCGGTGGC
1 TC-TCTTC--CCAAAGTCCACGACTCAGTGGCATC--TTTTCTTCAAAGTCCACGACTCAGTGGC
** *
1675343 ATATCTTCAAAGTCCACAACTCAGTGGCT
61 ATATCTTCAAAGTCCATGACTCAGTGGCA
* * * *
1675372 TCTCTTCCCAAAGTCCACAACTCAGTGGCATCTTTTCTTCAAAGTCCACTAACTCAGTGGCTTCT
1 TCTCTTCCCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCAC-GACTCAGTGGCATAT
*
1675437 CTTTTCTAAGTCCATGACTCAAGTGGCA
65 C--TTCAAAGTCCATGACTC-AGTGGCA
* *
1675465 TCTCTTCCCAAAGTCCACGACTCAGTGGCATCTCTTC-CCAAAGTCCACGACTC
1 TCTCTTCCCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTC
1675518 TATGACACCT
Statistics
Matches: 200, Mismatches: 28, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
89 17 0.09
90 14 0.07
91 26 0.13
92 32 0.16
93 88 0.44
94 1 0.00
95 3 0.01
96 19 0.09
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.33
Consensus pattern (89 bp):
TCTCTTCCCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTCAGTGGCATATC
TTCAAAGTCCATGACTCAGTGGCA
Found at i:1675411 original size:61 final size:61
Alignment explanation
Indices: 1675188--1675591 Score: 342
Period size: 61 Copynumber: 6.6 Consensus size: 61
1675178 TCTTCAAATC
* * * *
1675188 TCTCTTCTCAAAGTCTATGACTCAGTGGCATCTCTT-TTCAAAGTCTACAACTCAGTGG-T
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCAGTGGCT
* * * * **
1675247 ATCTTTTCTTCAAAGTCCATGACTCTGTGGCATCTTTTTCTTCCAAGTCCATGACTCAGTGGCAT
1 -TCTCTTC-TCAAAGTCCACGACTCAGTGGCATC-TTTTCTTCAAAGTCCACAACTCAGTGGC-T
* * * *
1675312 CTTTTTTCTTCAAAGTCCACGACTCGGTGGCA---TATCTTCAAAGTCCACAACTCAGTGGCT
1 -TCTCTTC-TCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCAGTGGCT
* *
1675372 TCTCTTCCCAAAGTCCACAACTCAGTGGCATCTTTTCTTCAAAGTCCACTAACTCAGTGGCT
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCAC-AACTCAGTGGCT
* * * * * * *
1675434 TCTCTTTTCTAAGTCCATGACTCAAGTGGCATCTCTTC-CCAAAGTCCACGACTCAGTGGCA
1 TCTCTTCTCAAAGTCCACGACTC-AGTGGCATCTTTTCTTCAAAGTCCACAACTCAGTGGCT
* * * * *
1675495 TCTCTTCCCAAAGTCCACGACTCTA-TGACACCTTTTTCTTTTCAAAGTCCACAACTCTGTGGCA
1 TCTCTTCTCAAAGTCCACGACTC-AGTGGCATC-TTTTC--TTCAAAGTCCACAACTCAGTGGCT
* * * *
1675559 TC-CTT-T-TAAGTCCACAACTCTGTGGCACCTTTT
1 TCTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTT
1675592 TCTTTTTAAA
Statistics
Matches: 282, Mismatches: 47, Indels: 30
0.79 0.13 0.08
Matches are distributed among these distances:
58 20 0.07
59 5 0.02
60 16 0.06
61 113 0.40
62 43 0.15
63 34 0.12
64 22 0.08
65 29 0.10
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (61 bp):
TCTCTTCTCAAAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACAACTCAGTGGCT
Found at i:1675427 original size:123 final size:123
Alignment explanation
Indices: 1675192--1675565 Score: 420
Period size: 123 Copynumber: 3.0 Consensus size: 123
1675182 CAAATCTCTC
* * *
1675192 TTCTCAAAGTCTATGACTCAGTGGCATCTCTTTTCAAAGTCTACAACTCAGTGG-TATCTTTTCT
1 TTCTCAAAGTCCATGACTCAGTGGCATCTC--TTCAAAGTCCACAACTCAGTGGCT-TCTCTTC-
* * * * *
1675256 TCAAAGTCCATGACTCTGTGGCATCTTTTTCTTCCAAGTCCA-TGACTCAGTGGCATCTTTT
62 CCAAAGTCCACGACTCAGTGGCATCTTTTTCTTCAAAGTCCACTAACTCAGTGGCATCTTTT
* * *
1675317 TTCTTCAAAGTCCACGACTCGGTGGCATATCTTCAAAGTCCACAACTCAGTGGCTTCTCTTCCCA
1 TTC-TCAAAGTCCATGACTCAGTGGCATCTCTTCAAAGTCCACAACTCAGTGGCTTCTCTTCCCA
* * *
1675382 AAGTCCACAACTCAGTGGCATC-TTTTCTTCAAAGTCCACTAACTCAGTGGCTTCTCTT
65 AAGTCCACGACTCAGTGGCATCTTTTTCTTCAAAGTCCACTAACTCAGTGGCATCTTTT
* *
1675440 TTCT--AAGTCCATGACTCAAGTGGCATCTCTTCCCAAAGTCCACGACTCAGTGGCATCTCTTCC
1 TTCTCAAAGTCCATGACTC-AGTGGCATCTCTT--CAAAGTCCACAACTCAGTGGCTTCTCTTCC
* * * *
1675503 CAAAGTCCACGACTCTA-TGACACCTTTTTCTTTTCAAAGTCCAC-AACTCTGTGGCATCCTTT
63 CAAAGTCCACGACTC-AGTGGCATCTTTTTC--TTCAAAGTCCACTAACTCAGTGGCATCTTTT
1675565 T
1 T
1675566 AAGTCCACAA
Statistics
Matches: 213, Mismatches: 26, Indels: 20
0.82 0.10 0.08
Matches are distributed among these distances:
120 12 0.06
121 11 0.05
122 16 0.08
123 87 0.41
124 33 0.15
125 19 0.09
126 35 0.16
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (123 bp):
TTCTCAAAGTCCATGACTCAGTGGCATCTCTTCAAAGTCCACAACTCAGTGGCTTCTCTTCCCAA
AGTCCACGACTCAGTGGCATCTTTTTCTTCAAAGTCCACTAACTCAGTGGCATCTTTT
Found at i:1675592 original size:27 final size:27
Alignment explanation
Indices: 1675539--1675591 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
1675529 TTTCTTTTCA
1675539 AAGTCCACAACTCTGTGGCATCCTTTT
1 AAGTCCACAACTCTGTGGCATCCTTTT
1675566 AAGTCCACAACTCTGTGGCA-CCTTTT
1 AAGTCCACAACTCTGTGGCATCCTTTT
1675592 TCTTTTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 6 0.23
27 20 0.77
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.32
Consensus pattern (27 bp):
AAGTCCACAACTCTGTGGCATCCTTTT
Found at i:1675609 original size:34 final size:33
Alignment explanation
Indices: 1675505--1675851 Score: 276
Period size: 34 Copynumber: 10.8 Consensus size: 33
1675495 TCTCTTCCCA
* * *
1675505 AAGTCCACGACTCTATGACACCTTTTT-CTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCCTTTT
1675537 CAAAGTCCACAACTCTGTGGCA------TCCTTTT
1 --AAGTCCACAACTCTGTGGCACCTTTTTCCTTTT
*
1675566 AAGTCCACAACTCTGTGGCACCTTTTTCTTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCCTTTT
* **
1675599 AAAGCCCACAACTCCATGGCACTCTTTTTCCTTTT
1 -AAGTCCACAACTCTGTGGCAC-CTTTTTCCTTTT
* * *
1675634 AAGTCTACAACTTTGTAGCA-C-----CCTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCCTTTT
* *
1675661 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCCTTTT
** *
1675694 AAGTCCACAACTCCATGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCCTTTT
* *
1675727 AAGTCCACAACTCCGTGGCACC-TTTTCATTTT
1 AAGTCCACAACTCTGTGGCACCTTTTTCCTTTT
* * *
1675759 AAGTCCACGACT-TCATGGCACCCTTTTCCCTTTT
1 AAGTCCACAACTCT-GTGGCA-CCTTTTTCCTTTT
* * * *
1675793 AAGCCCAGACCTCTGTGGCATCCCTTTTTCC-TGT
1 AAGTCCACAACTCTGTGGCA--CCTTTTTCCTTTT
* *
1675827 AAGTCCATAACTCCGTGGCACCTTT
1 AAGTCCACAACTCTGTGGCACCTTT
1675852 AAGTCCAATA
Statistics
Matches: 253, Mismatches: 40, Indels: 42
0.76 0.12 0.13
Matches are distributed among these distances:
27 42 0.17
28 2 0.01
29 5 0.02
32 30 0.12
33 65 0.26
34 88 0.35
35 21 0.08
ACGTcount: A:0.21, C:0.31, G:0.12, T:0.35
Consensus pattern (33 bp):
AAGTCCACAACTCTGTGGCACCTTTTTCCTTTT
Found at i:1675626 original size:61 final size:61
Alignment explanation
Indices: 1675505--1675619 Score: 167
Period size: 61 Copynumber: 1.9 Consensus size: 61
1675495 TCTCTTCCCA
* * **
1675505 AAGTCCACGACTCTATGACACCTTTTTCTTTTCAAAGTCCACAACTCTGTGGCATCCTTTT
1 AAGTCCACAACTCTATGACACCTTTTTCTTTTCAAAGCCCACAACTCCATGGCATCCTTTT
* * *
1675566 AAGTCCACAACTCTGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCATGGCA
1 AAGTCCACAACTCTATGACACCTTTTTCTTTTCAAAGCCCACAACTCCATGGCA
1675620 CTCTTTTTCC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.24, C:0.30, G:0.12, T:0.33
Consensus pattern (61 bp):
AAGTCCACAACTCTATGACACCTTTTTCTTTTCAAAGCCCACAACTCCATGGCATCCTTTT
Found at i:1675662 original size:95 final size:94
Alignment explanation
Indices: 1675504--1675858 Score: 326
Period size: 95 Copynumber: 3.7 Consensus size: 94
1675494 ATCTCTTCCC
* * * * *
1675504 AAAGTCCACGACTCTATGACACCTTTTT-CTTTTCAAAGTCCACAACTCTGTGGCATCCTTTTAA
1 AAAGTCCACAACTCCATGGCACCTTTTTCCTTTT--AAGTCCACAACTCTGTAGCACCCTTTTAA
* *
1675568 GTCCACAACTCTGTGGCACCTTTTTCTTTTT
64 GTCCACAACTCCGTGGCACCTTTTTCCTTTT
* * *
1675599 AAAGCCCACAACTCCATGGCACTCTTTTTCCTTTTAAGTCTACAACTTTGTAGCACCCTTTTAAG
1 AAAGTCCACAACTCCATGGCAC-CTTTTTCCTTTTAAGTCCACAACTCTGTAGCACCCTTTTAAG
*
1675664 TCCACAACTCCGTGGCATCTTTTTCCTTTT
65 TCCACAACTCCGTGGCACCTTTTTCCTTTT
* * *
1675694 -AAGTCCACAACTCCATGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCATTT
1 AAAGTCCACAACTCCATGGCACCTTTTTCCTTTTAAGTCCACAACTCTGTAGCACC----C-TTT
* * * *
1675758 TAAGTCCACGACTTCATGGCACCCTTTTCCCTTTT
61 TAAGTCCACAACTCCGTGGCA-CCTTTTTCCTTTT
* * * ** * * * *
1675793 -AAGCCCAGACCTCTGTGGCATCCCTTTTTCC-TGTAAGTCCATAACTCCGTGGCA-CC-TTTAA
1 AAAGTCCACAACTCCATGGCA--CCTTTTTCCTTTTAAGTCCACAACTCTGTAGCACCCTTTTAA
1675854 GTCCA
64 GTCCA
1675859 ATATTGCCAG
Statistics
Matches: 220, Mismatches: 30, Indels: 22
0.81 0.11 0.08
Matches are distributed among these distances:
93 39 0.18
94 20 0.09
95 72 0.33
96 6 0.03
97 6 0.03
98 21 0.10
99 27 0.12
100 21 0.10
101 8 0.04
ACGTcount: A:0.21, C:0.31, G:0.12, T:0.35
Consensus pattern (94 bp):
AAAGTCCACAACTCCATGGCACCTTTTTCCTTTTAAGTCCACAACTCTGTAGCACCCTTTTAAGT
CCACAACTCCGTGGCACCTTTTTCCTTTT
Found at i:1675687 original size:27 final size:27
Alignment explanation
Indices: 1675628--1675752 Score: 72
Period size: 33 Copynumber: 4.2 Consensus size: 27
1675618 CACTCTTTTT
* **
1675628 CCTTTTAAGTCTACAACTTTGTAGCAC
1 CCTTTTAAGTCCACAACTCCGTAGCAC
*
1675655 CCTTTTAAGTCCACAACTCCGTGGCATC
1 CCTTTTAAGTCCACAACTCCGTAGCA-C
* *
1675683 TTTTTCCTTTTAAGTCCACAACTCCATGGCACC
1 -----CCTTTTAAGTCCACAACTCCGTAGCA-C
*
1675716 TTGTTCCTTTTAAGTCCACAACTCCGTGGCA-
1 -----CCTTTTAAGTCCACAACTCCGTAGCAC
1675747 CCTTTT
1 CCTTTT
1675753 CATTTTAAGT
Statistics
Matches: 84, Mismatches: 8, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
26 6 0.07
27 22 0.26
28 1 0.01
33 55 0.65
ACGTcount: A:0.21, C:0.31, G:0.12, T:0.36
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCCGTAGCAC
Found at i:1675692 original size:33 final size:33
Alignment explanation
Indices: 1675559--1675851 Score: 287
Period size: 34 Copynumber: 9.0 Consensus size: 33
1675549 CTCTGTGGCA
*
1675559 TCCTTTTAAGTCCACAACTCTGTGGCACCTTTT
1 TCCTTTTAAGTCCACAACTCCGTGGCACCTTTT
* * *
1675592 TCTTTTTAAAGCCCACAACTCCATGGCACTCTTTT
1 TCCTTTT-AAGTCCACAACTCCGTGGCAC-CTTTT
* ** *
1675627 TCCTTTTAAGTCTACAACTTTGTAGCA-C----
1 TCCTTTTAAGTCCACAACTCCGTGGCACCTTTT
*
1675655 -CCTTTTAAGTCCACAACTCCGTGGCATCTTTT
1 TCCTTTTAAGTCCACAACTCCGTGGCACCTTTT
* *
1675687 TCCTTTTAAGTCCACAACTCCATGGCACCTTGT
1 TCCTTTTAAGTCCACAACTCCGTGGCACCTTTT
1675720 TCCTTTTAAGTCCACAACTCCGTGGCACC-TTT
1 TCCTTTTAAGTCCACAACTCCGTGGCACCTTTT
* * * *
1675752 TCATTTTAAGTCCACGACTTCATGGCACCCTTTT
1 TCCTTTTAAGTCCACAACTCCGTGGCA-CCTTTT
* * * * *
1675786 CCCTTTTAAGCCCAGACCTCTGTGGCATCCCTTTT
1 TCCTTTTAAGTCCACAACTCCGTGGCA--CCTTTT
* *
1675821 TCC-TGTAAGTCCATAACTCCGTGGCACCTTT
1 TCCTTTTAAGTCCACAACTCCGTGGCACCTTT
1675852 AAGTCCAATA
Statistics
Matches: 210, Mismatches: 39, Indels: 23
0.77 0.14 0.08
Matches are distributed among these distances:
27 22 0.10
28 1 0.00
32 31 0.15
33 65 0.31
34 71 0.34
35 20 0.10
ACGTcount: A:0.20, C:0.32, G:0.12, T:0.36
Consensus pattern (33 bp):
TCCTTTTAAGTCCACAACTCCGTGGCACCTTTT
Found at i:1675695 original size:60 final size:62
Alignment explanation
Indices: 1675559--1675780 Score: 189
Period size: 65 Copynumber: 3.5 Consensus size: 62
1675549 CTCTGTGGCA
** * * * *
1675559 TCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCATGGCACTCT
1 TCCTTTTAAGTCCACAACTCCATAGCACC----TCCTTTT-AAGTCCACAACTCCGTGGCA-TCT
1675624 TTT
60 TTT
* ***
1675627 TCCTTTTAAGTCTACAACTTTGTAGCA-C-CCTTTTAAGTCCACAACTCCGTGGCATCTTTT
1 TCCTTTTAAGTCCACAACTCCATAGCACCTCCTTTTAAGTCCACAACTCCGTGGCATCTTTT
* *
1675687 TCCTTTTAAGTCCACAACTCCATGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCA-CCTT
1 TCCTTTTAAGTCCACAACTCCATAGCACC----TCCTTTTAAGTCCACAACTCCGTGGCATCTTT
1675751 T
62 T
* * * *
1675752 TCATTTTAAGTCCACGACTTCATGGCACC
1 TCCTTTTAAGTCCACAACTCCATAGCACC
1675781 CTTTTCCCTT
Statistics
Matches: 133, Mismatches: 15, Indels: 15
0.82 0.09 0.09
Matches are distributed among these distances:
60 28 0.21
61 19 0.14
62 5 0.04
65 30 0.23
66 26 0.20
67 1 0.01
68 24 0.18
ACGTcount: A:0.21, C:0.31, G:0.12, T:0.36
Consensus pattern (62 bp):
TCCTTTTAAGTCCACAACTCCATAGCACCTCCTTTTAAGTCCACAACTCCGTGGCATCTTTT
Found at i:1675737 original size:66 final size:65
Alignment explanation
Indices: 1675559--1675851 Score: 285
Period size: 66 Copynumber: 4.5 Consensus size: 65
1675549 CTCTGTGGCA
* * *
1675559 TCCTTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCATGGCACTCT
1 TCCTTTTAAGTCCACAACTCCGTGGCACC-TTTTCCTTTT-AAGCCCACAACTCCGTGGCA-TCT
1675624 TTT
63 TTT
* ** * *
1675627 TCCTTTTAAGTCTACAACTTTGTAGCA-C----CCTTTTAAGTCCACAACTCCGTGGCATCTTTT
1 TCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGCCCACAACTCCGTGGCATCTTTT
* * *
1675687 TCCTTTTAAGTCCACAACTCCATGGCACCTTGTTCCTTTTAAGTCCACAACTCCGTGGCA-CCTT
1 TCCTTTTAAGTCCACAACTCCGTGGCACCTT-TTCCTTTTAAGCCCACAACTCCGTGGCATCTTT
1675751 T
65 T
* * * * * * *
1675752 TCATTTTAAGTCCACGACTTCATGGCACCCTTTTCCCTTTTAAGCCCAGACCTCTGTGGCATCCC
1 TCCTTTTAAGTCCACAACTCCGTGGCA-CCTTTT-CCTTTTAAGCCCACAACTCCGTGGCAT--C
1675817 TTTT
62 TTTT
* *
1675821 TCC-TGTAAGTCCATAACTCCGTGGCACCTTT
1 TCCTTTTAAGTCCACAACTCCGTGGCACCTTT
1675852 AAGTCCAATA
Statistics
Matches: 188, Mismatches: 26, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
60 28 0.15
61 19 0.10
62 5 0.03
65 30 0.16
66 52 0.28
67 6 0.03
68 42 0.22
69 6 0.03
ACGTcount: A:0.20, C:0.32, G:0.12, T:0.36
Consensus pattern (65 bp):
TCCTTTTAAGTCCACAACTCCGTGGCACCTTTTCCTTTTAAGCCCACAACTCCGTGGCATCTTTT
Found at i:1676005 original size:87 final size:87
Alignment explanation
Indices: 1675868--1676113 Score: 321
Period size: 87 Copynumber: 2.8 Consensus size: 87
1675858 AATATTGCCA
* * * * *
1675868 GCCTTGAATCAGCATATTGGCACTTTGTCTCTAAGGCTAATGTCGTTGGCCTTGAATCAACACAT
1 GCCTTGAATCAGCATATTGGCACATTATCTTTAAGACCAATGTCGTTGGCCTTGAATCAACACAT
*
1675933 TAGCATAAGCCCAATATCGCTG
66 TAGCACAAGCCCAATATCGCTG
* * * * *
1675955 GCCTTGAATCAGCATGTTGGCACATTATCTTTAAGACCAATGTTGCTGGCCTTAAATCAGCACAT
1 GCCTTGAATCAGCATATTGGCACATTATCTTTAAGACCAATGTCGTTGGCCTTGAATCAACACAT
*
1676020 TGGCACAAGCCCAATATCGCTG
66 TAGCACAAGCCCAATATCGCTG
* * * * *
1676042 GCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTCGTTGGCCTGGAATTATCACA
1 GCCTTGAATCAGCATATTGGCACATT-ATCTTTAAGACCAATGTCGTTGGCCTTGAATCAACACA
*
1676107 TTGGCAC
65 TTAGCAC
1676114 CTTAACCATA
Statistics
Matches: 137, Mismatches: 21, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
87 99 0.72
88 38 0.28
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (87 bp):
GCCTTGAATCAGCATATTGGCACATTATCTTTAAGACCAATGTCGTTGGCCTTGAATCAACACAT
TAGCACAAGCCCAATATCGCTG
Found at i:1676113 original size:49 final size:49
Alignment explanation
Indices: 1676030--1676505 Score: 384
Period size: 49 Copynumber: 9.6 Consensus size: 49
1676020 TGGCACAAGC
* * * *
1676030 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGA
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * * * *
1676079 CCGATGTCGTTGGCCTGGAATTATCACATTGGCACCTTAACCATATTTAAGT
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTT---CATCTTTAAGT
* *
1676131 CCAATGTAGTTGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGT
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
** * ** * *
1676180 CTGATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGT
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * * * * *
1676229 CCAATGTAGCTGACCTTGAATCAACACATTGGTATCTTCATCTTTAAGT
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * ** * * * *
1676278 CTAATATCACTGGCCTTGAATCAGCATAATGGCACCTTTATCTTTAAGA
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
*
1676327 CCAATGTCATTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * * * * * * **
1676376 CCGATATCGTTAGCCTTAAATCAGAATATTAGCATTTTTAACAT-TCTTAAG-
1 CCAATGTCGTTGGCCTTGAATCAGCACATTGGCA-CCTT--CATCT-TTAAGT
* ** * * * *
1676427 CCTAATGTCGCTGGCCTTGTCTCAGCATATTGGCA--TTCTTATTCAAGT
1 CC-AATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
* * *
1676475 CTAATGTCGCTGGCCATGAATCAGCACATTG
1 CCAATGTCGTTGGCCTTGAATCAGCACATTG
1676506 TCATTCTTCG
Statistics
Matches: 336, Mismatches: 81, Indels: 22
0.77 0.18 0.05
Matches are distributed among these distances:
47 31 0.09
48 2 0.01
49 226 0.67
50 2 0.01
51 3 0.01
52 72 0.21
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (49 bp):
CCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGT
Found at i:1676398 original size:147 final size:147
Alignment explanation
Indices: 1676030--1676398 Score: 427
Period size: 147 Copynumber: 2.5 Consensus size: 147
1676020 TGGCACAAGC
* *
1676030 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTCGTTGGCCT
1 CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCGATGTCGTT-GCCT
* * * * * *
1676095 GGAATTATCACATTGGCACCTTAACCATATTTAAGTCCAATGTAGTTGGCCTTGAATCAGCACAT
65 TGAATCAACACATTGGCACCTT-A-CATATTTAAGTCCAATATAGCTGGCCTTGAATCAGCACAA
* *
1676160 TGGCATCTTCATCTTTAAGT
128 TGGCACCTTCATCTTTAAGA
** * * * *
1676180 CTGATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGACCT
1 CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCGATGTCGTTG-CCT
* * * * *
1676245 TGAATCAACACATTGGTATCTT-CATCTTTAAGTCTAATATCA-CTGGCCTTGAATCAGCATAAT
65 TGAATCAACACATTGGCACCTTACATATTTAAGTCCAATAT-AGCTGGCCTTGAATCAGCACAAT
*
1676308 GGCACCTTTATCTTTAAGA
129 GGCACCTTCATCTTTAAGA
* * * *
1676327 CCAATGTCATTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATCGTTAGCCT
1 CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCGATGTCGTT-GCCT
*
1676392 TAAATCA
65 TGAATCA
1676399 GAATATTAGC
Statistics
Matches: 183, Mismatches: 33, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
147 108 0.59
148 2 0.01
149 1 0.01
150 72 0.39
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (147 bp):
CCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCGATGTCGTTGCCTT
GAATCAACACATTGGCACCTTACATATTTAAGTCCAATATAGCTGGCCTTGAATCAGCACAATGG
CACCTTCATCTTTAAGA
Found at i:1676399 original size:98 final size:98
Alignment explanation
Indices: 1676040--1676383 Score: 447
Period size: 98 Copynumber: 3.5 Consensus size: 98
1676030 CCAATATCGC
* * * ** * * *
1676040 TGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCGATGTCGTTGGCCTGGAATTATCA
1 TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATCACTGGCCTTGAATCAGCA
* * *
1676105 CATTGGCACCTTAACCATATTTAAGTCCAATGTAGT
66 TATTGGCACCTT---TATCTTTAAGTCCAATGTAGT
* *
1676141 TGGCCTTGAATCAGCACATTGGCATCTTCATCTTTAAGTCTGATATCACTGGCCTTGAATCAGCA
1 TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATCACTGGCCTTGAATCAGCA
*
1676206 TATTGGCACCTTTATCTTTAAGTCCAATGTAGC
66 TATTGGCACCTTTATCTTTAAGTCCAATGTAGT
* * * * **
1676239 TGACCTTGAATCAACACATTGGTATCTTCATCTTTAAGTCTAATATCACTGGCCTTGAATCAGCA
1 TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATCACTGGCCTTGAATCAGCA
* *
1676304 TAATGGCACCTTTATCTTTAAGACCAATGTCA-T
66 TATTGGCACCTTTATCTTTAAGTCCAATGT-AGT
1676337 TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATC
1 TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATC
1676384 GTTAGCCTTA
Statistics
Matches: 215, Mismatches: 27, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
98 148 0.69
99 1 0.00
101 66 0.31
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.34
Consensus pattern (98 bp):
TGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCGATATCACTGGCCTTGAATCAGCA
TATTGGCACCTTTATCTTTAAGTCCAATGTAGT
Found at i:1676443 original size:248 final size:235
Alignment explanation
Indices: 1675938--1676461 Score: 575
Period size: 248 Copynumber: 2.2 Consensus size: 235
1675928 CACATTAGCA
* * *
1675938 TAAGCCCAATATCGCTGGCCTTGAATCAGCATGTTGGCACATTATCTTTAAGACCAATGTTGCTG
1 TAAGCCTAATATCGCTGGCCTTGAATCAGCATATTGGCACATTATCTTTAAGACCAATGTAGCTG
* * * *
1676003 GCCTTAAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
66 ACCTTAAATCAACACATTGGCACAAGCCCAATATCACTGGCCTTGAATCAGCATAATGGCACCTT
* * * *
1676068 CATCTTTAAGACCGATGTCGTTGGCCTGGAATTATCACATTGGCACCTTAACCATATTTAAGTCC
131 CATCTTTAAGACCAATGTCATTGGCCTGGAATCAGCACATTGGCACCTT-A-CATATTTAAGTCC
* * * * *
1676133 AATGTAGTTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
194 AATATAGTTAGCCTTAAATCAGAACATTAGCATCTTCATCTT
* * * * *
1676175 TAAGTCTGATATCACTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGCCTAATATCGCTGGCCTTGAATCAGCATATTGGCA-CATTATCTTTAAGACCAATGTAGCT
* * *
1676240 GACCTTGAATCAACACATTGGTATCTTCATCTTTAAGTCTAATATCACTGGCCTTGAATCAGCAT
65 GACCTTAAATCAACACATTGG------CA-C---AAGCCCAATATCACTGGCCTTGAATCAGCAT
* * *
1676305 AATGGCACCTTTATCTTTAAGACCAATGTCATTGGCCTTGAATCAGCACATTGGCACCTT-CATC
120 AATGGCACCTTCATCTTTAAGACCAATGTCATTGGCCTGGAATCAGCACATTGGCACCTTACATA
* * * *
1676369 TTTAAGTCCGATATCGTTAGCCTTAAATCAGAATATTAGCATTTTTAACAT-TCT
185 TTTAAGTCCAATATAGTTAGCCTTAAATCAGAACATTAGCA-TCTT--CATCT-T
* **
1676423 TAAGCCTAATGTCGCTGGCCTTGTCTCAGCATATTGGCA
1 TAAGCCTAATATCGCTGGCCTTGAATCAGCATATTGGCA
1676462 TTCTTATTCA
Statistics
Matches: 235, Mismatches: 37, Indels: 19
0.81 0.13 0.07
Matches are distributed among these distances:
237 34 0.14
238 40 0.17
244 2 0.01
245 37 0.16
246 3 0.01
247 1 0.00
248 118 0.50
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.33
Consensus pattern (235 bp):
TAAGCCTAATATCGCTGGCCTTGAATCAGCATATTGGCACATTATCTTTAAGACCAATGTAGCTG
ACCTTAAATCAACACATTGGCACAAGCCCAATATCACTGGCCTTGAATCAGCATAATGGCACCTT
CATCTTTAAGACCAATGTCATTGGCCTGGAATCAGCACATTGGCACCTTACATATTTAAGTCCAA
TATAGTTAGCCTTAAATCAGAACATTAGCATCTTCATCTT
Found at i:1677288 original size:13 final size:13
Alignment explanation
Indices: 1677270--1677295 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1677260 ACATAAGTGT
1677270 TGTATCGATACAA
1 TGTATCGATACAA
1677283 TGTATCGATACAA
1 TGTATCGATACAA
1677296 AGTTACCCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1683140 original size:28 final size:29
Alignment explanation
Indices: 1683095--1683149 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
1683085 GATGATTAGA
1683095 AAAAAAAATCGGGATTGGAGTATCCCCTC
1 AAAAAAAATCGGGATTGGAGTATCCCCTC
* *
1683124 AAAAATAA-CGGGGTTGGAGTATCCCC
1 AAAAAAAATCGGGATTGGAGTATCCCC
1683150 AATTATGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (29 bp):
AAAAAAAATCGGGATTGGAGTATCCCCTC
Found at i:1683144 original size:79 final size:79
Alignment explanation
Indices: 1683046--1683228 Score: 197
Period size: 79 Copynumber: 2.3 Consensus size: 79
1683036 TGTTCCCTTG
* * * ** * * *
1683046 AAAATAACGGGGCTCGAGTATCTCCGGTTGTGAGAAATCGATGA-TTAGAAAAAAAAATCGGGAT
1 AAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTAGAAAAAAAAACCGGGAT
1683110 TGGAGTATCCCCTCA
65 TGGAGTATCCCCTCA
* ** * * *
1683125 AAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTT
1 AAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGAAAAAAAAACCGGGATT
*
1683190 GGAGTATCCCCTCG
66 GGAGTATCCCCTCA
* *
1683204 GAAGTAACGGGGTTGGAGTATCCCC
1 AAAATAACGGGGTTGGAGTATCCCC
1683229 GATGAAATAA
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 1 0.01
79 85 0.99
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.23
Consensus pattern (79 bp):
AAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTAGAAAAAAAAACCGGGATT
GGAGTATCCCCTCA
Found at i:1683223 original size:28 final size:28
Alignment explanation
Indices: 1683183--1683254 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
1683173 GGAATAAAGC
** *
1683183 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
1683211 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
1683239 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
1683255 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:1683312 original size:52 final size:51
Alignment explanation
Indices: 1683243--1683578 Score: 202
Period size: 52 Copynumber: 6.4 Consensus size: 51
1683233 AAATAACGAG
* * *
1683243 GTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATGAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGT-GTTTTGGAAATAAAATCGGA
** * * * *
1683295 GTTGGAGTATCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAAAACCAGG-
1 GTTGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTGGAAATAAAATC-GGA
* * * *
1683347 GTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAA-CCGA
1 GTTGGAGTATCCCCGATTGT-GAAAAATTGGTGTTTTGGAAATAAAATCGGA
** * * *** * * *
1683398 GGTTGGAGTATCCCC---TCAGAAATAACGGGGTCGGAGTATCCCCGATGAT-TAA-CGGG
1 -GTTGGAGTATCCCCGATTGTGAAA-AA-----TTGGTGT-T-TTGGA-AATAAAATCGGA
1683454 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAA-AAATTGGTG--TTTTGGAAATAAAATCGGA
* * * *
1683508 GTTAGAGTATCCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGA-AAAATTGGTGTTTTGGAAATAAAATCGGA
*
1683559 GTTGGAATATCCCCGATTGT
1 GTTGGAGTATCCCCGATTGT
1683579 AGAGAATTGA
Statistics
Matches: 213, Mismatches: 48, Indels: 47
0.69 0.16 0.15
Matches are distributed among these distances:
48 4 0.02
49 3 0.01
50 1 0.00
51 36 0.17
52 84 0.39
53 28 0.13
54 27 0.13
55 16 0.08
56 5 0.02
57 2 0.01
58 6 0.03
59 1 0.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGGA
Found at i:1683366 original size:104 final size:100
Alignment explanation
Indices: 1683237--1683578 Score: 260
Period size: 104 Copynumber: 3.2 Consensus size: 100
1683227 CCGATGAAAT
*
1683237 AACGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATGAAATCGGAGTTGGAG
1 AACG-GGTTGGAGTATCCCCGATTGTGAAAAATTGGT-TTTTTGGAAAT-AAATCGGAGTTGGAG
*
1683302 TATCCCCGATTAAAGGAAAATTGGCGTTTTGAAAATAA
63 TATCCCCGATTAAAGGAAAATTGGAGTTTTGAAAATAA
* * * * * *
1683340 AACCAGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGAGGTTGGA
1 AA-C-GGGTTGGAGTATCCCCGATTGT-GAAAAATTGGTTTTTTGGAAATAAATCGGA-GTTGGA
* * ** * ** ** *
1683405 GTATCCCCTCAGAAATAACGG--GGTCGGAGTATCCCCGATGAT-T
62 GTAT-CCC-C-G-ATTAAAGGAAAATTGGAGT-T--TTGAAAATAA
*
1683448 AACGGGGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAG
1 AAC-GGGTTGGAGTATCCCCGATTGTGAA-AAATT-G-GTTTTTTGGAAAT-AAATCGGAGTTGG
* * *
1683513 AGTATCCCCGATTATA-GAAAATTAGTGTTTTGAAAATAA
61 AGTATCCCCGATTAAAGGAAAATTGGAGTTTTGAAAATAA
*
1683552 AATCGGAGTTGGAATATCCCCGATTGT
1 AA-CGG-GTTGGAGTATCCCCGATTGT
1683579 AGAGAATTGA
Statistics
Matches: 179, Mismatches: 40, Indels: 38
0.70 0.16 0.15
Matches are distributed among these distances:
103 12 0.07
104 44 0.25
105 38 0.21
106 14 0.08
107 31 0.17
108 11 0.06
109 23 0.13
110 6 0.03
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (100 bp):
AACGGGTTGGAGTATCCCCGATTGTGAAAAATTGGTTTTTTGGAAATAAATCGGAGTTGGAGTAT
CCCCGATTAAAGGAAAATTGGAGTTTTGAAAATAA
Found at i:1683426 original size:212 final size:210
Alignment explanation
Indices: 1683134--1683578 Score: 615
Period size: 212 Copynumber: 2.1 Consensus size: 210
1683124 AAAAATAACG
* * * * * * *
1683134 GGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTGTGAAAAATCAATATTTTAGCAATAAAACCGAGGTTGGAGTATCC
* * * *
1683199 CCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTG
66 CCTCAGAAATAACGGGGTCGGAGTATCCCCGATG-AATAACGAGGTTGGAGTATCCCCGATTGTG
* * *
1683264 AA-AAATTGGT-ATTTTTGGAAATGAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGC
130 AAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAA-GAAAATTAGC
1683327 GTTTTGAAAATAAAACC
194 GTTTTGAAAATAAAACC
* * *
1683344 AGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGAGGTTGGAGTAT
1 -GGGTTGGAGTATCCCCGATTGT-GAAAAATCAATATTTTAGCAATAAAACCGAGGTTGGAGTAT
* *
1683409 CCCCTCAGAAATAACGGGGTCGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATTGT
64 CCCCTCAGAAATAACGGGGTCGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGATTGT
* * *
1683474 GAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTATAGAAAATTAGT
129 GAAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAAGAAAATTAGC
*
1683539 GTTTTGAAAATAAAATC
194 GTTTTGAAAATAAAACC
*
1683556 GGAGTTGGAATATCCCCGATTGT
1 GG-GTTGGAGTATCCCCGATTGT
1683579 AGAGAATTGA
Statistics
Matches: 206, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
211 51 0.25
212 117 0.57
213 38 0.18
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (210 bp):
GGGTTGGAGTATCCCCGATTGTGAAAAATCAATATTTTAGCAATAAAACCGAGGTTGGAGTATCC
CCTCAGAAATAACGGGGTCGGAGTATCCCCGATGAATAACGAGGTTGGAGTATCCCCGATTGTGA
AGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTAGAGTATCCCCGATTAAAGAAAATTAGCGT
TTTGAAAATAAAACC
Done.