Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000851.1 Hibiscus syriacus cultivar Beakdansim tig00001644_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 7304151
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 16 of 31
Found at i:3856195 original size:16 final size:16
Alignment explanation
Indices: 3856176--3856223 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
3856166 TTTTCAACAT
*
3856176 TTTTTTCTCTTTCTT-G
1 TTTTTTCT-TTTCTTCA
*
3856192 TTTTTCTTTTTTCTTCA
1 TTTTT-TCTTTTCTTCA
3856209 TTTTTTCTTTTCTTC
1 TTTTTTCTTTTCTTC
3856224 TTTCTTAGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 20 0.74
17 7 0.26
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (16 bp):
TTTTTTCTTTTCTTCA
Found at i:3856201 original size:34 final size:32
Alignment explanation
Indices: 3856149--3856222 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 32
3856139 CTGACCCTCA
*
3856149 TTTTCTATTTTTTTCTTTTTTCAACATTTTTTTC
1 TTTTCT-TGTTTTTCTTTTTTCAACA-TTTTTTC
**
3856183 TCTTTCTTGTTTTTCTTTTTTCTTCATTTTTTC
1 T-TTTCTTGTTTTTCTTTTTTCAACATTTTTTC
3856216 TTTTCTT
1 TTTTCTT
3856223 CTTTCTTAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 6 0.17
33 8 0.22
34 17 0.47
35 5 0.14
ACGTcount: A:0.07, C:0.16, G:0.01, T:0.76
Consensus pattern (32 bp):
TTTTCTTGTTTTTCTTTTTTCAACATTTTTTC
Found at i:3861601 original size:56 final size:56
Alignment explanation
Indices: 3861517--3861846 Score: 394
Period size: 56 Copynumber: 5.9 Consensus size: 56
3861507 TGAACAAATA
* * * ** *
3861517 TTTCTTTCAGGGAATATAGAACTTAAATAATTTTCTGCAAACATGTTCGCTCACTC
1 TTTCTTTCAGGGAGTATAGAACTCAAATAATCTTCTGCAAACGGGTTCGCTCCCTC
* * * **
3861573 TTTCTTTCAGGGAATATAGAACTCAAATAATTTTTTGCAAACATGTTCGCTCCCTC
1 TTTCTTTCAGGGAGTATAGAACTCAAATAATCTTCTGCAAACGGGTTCGCTCCCTC
* * * * * *
3861629 TTTCTTTTAGGGATTATAGAACTCGAATAATCTTCTACCAACGGGTTTGCTCCCTC
1 TTTCTTTCAGGGAGTATAGAACTCAAATAATCTTCTGCAAACGGGTTCGCTCCCTC
* * * *
3861685 TTTCTTTCAGGGAGTACAAAACTCAAATAATCTTCTGC-AATGGGTTCACTCCCTC
1 TTTCTTTCAGGGAGTATAGAACTCAAATAATCTTCTGCAAACGGGTTCGCTCCCTC
* * *
3861740 TTTCTTTCAGGGAGTATAGAACTCAAATAATCTTCTACCAACGGGTTCACTCCCTC
1 TTTCTTTCAGGGAGTATAGAACTCAAATAATCTTCTGCAAACGGGTTCGCTCCCTC
** * *
3861796 TTTCTTTCAGGGAGTATAGAACTTGAATAGTCGTCTGC-AACGGGTTCGCTC
1 TTTCTTTCAGGGAGTATAGAACTCAAATAATCTTCTGCAAACGGGTTCGCTC
3861847 TCTATTCCTT
Statistics
Matches: 241, Mismatches: 32, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
55 61 0.25
56 180 0.75
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (56 bp):
TTTCTTTCAGGGAGTATAGAACTCAAATAATCTTCTGCAAACGGGTTCGCTCCCTC
Found at i:3861795 original size:167 final size:167
Alignment explanation
Indices: 3861517--3861846 Score: 419
Period size: 167 Copynumber: 2.0 Consensus size: 167
3861507 TGAACAAATA
* * * * * *
3861517 TTTCTTTCAGGGAATATAGAACTTAAATAATTTTCTGCAAACATGTTCGCTCACTCTTTCTTTCA
1 TTTCTTTCAGGGAATACAAAACTCAAATAATCTTCTGCAAACAGGTTCACTCACTCTTTCTTTCA
* * * * * * *
3861582 GGGAATATAGAACTCAAATAATTTTTTGCAAACATGTTCGCTCCCTCTTTCTTTTAGGGATTATA
66 GGGAATATAGAACTCAAATAATCTTCTACAAACAGGTTCACTCCCTCTTTCTTTCAGGGAGTATA
* *
3861647 GAACTCGAATAATCTTCTACCAACGGGTTTGCTCCCTC
131 GAACTCGAATAATCGTCT-CCAACGGGTTCGCTCCCTC
* ** *
3861685 TTTCTTTCAGGGAGTACAAAACTCAAATAATCTTCTGC-AATGGGTTCACTCCCTCTTTCTTTCA
1 TTTCTTTCAGGGAATACAAAACTCAAATAATCTTCTGCAAACAGGTTCACTCACTCTTTCTTTCA
* * *
3861749 GGGAGTATAGAACTCAAATAATCTTCTACCAACGGGTTCACTCCCTCTTTCTTTCAGGGAGTATA
66 GGGAATATAGAACTCAAATAATCTTCTACAAACAGGTTCACTCCCTCTTTCTTTCAGGGAGTATA
* * *
3861814 GAACTTGAATAGTCGTCTGCAACGGGTTCGCTC
131 GAACTCGAATAATCGTCTCCAACGGGTTCGCTC
3861847 TCTATTCCTT
Statistics
Matches: 137, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
166 13 0.09
167 91 0.66
168 33 0.24
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (167 bp):
TTTCTTTCAGGGAATACAAAACTCAAATAATCTTCTGCAAACAGGTTCACTCACTCTTTCTTTCA
GGGAATATAGAACTCAAATAATCTTCTACAAACAGGTTCACTCCCTCTTTCTTTCAGGGAGTATA
GAACTCGAATAATCGTCTCCAACGGGTTCGCTCCCTC
Found at i:3861833 original size:111 final size:111
Alignment explanation
Indices: 3861517--3861842 Score: 409
Period size: 111 Copynumber: 2.9 Consensus size: 111
3861507 TGAACAAATA
* * * * ** *
3861517 TTTCTTTCAGGGAATATAGAACTTAAATAATTTTCTGCAAACATGTTCGCTCACTCTTTCTTTCA
1 TTTCTTTCAGGGAATATAGAACTCAAATAATCTTCTACCAACGGGTTCGCTCCCTCTTTCTTTCA
* * * ** *
3861582 GGGAATATAGAACTCAAATAATTTTTTGCAAACATGTTCGCTCCCTC
66 GGGAGTATAGAACTCAAATAATCTTCTGC-AACGGGTTCACTCCCTC
* * * *
3861629 TTTCTTTTAGGGATTATAGAACTCGAATAATCTTCTACCAACGGGTTTGCTCCCTCTTTCTTTCA
1 TTTCTTTCAGGGAATATAGAACTCAAATAATCTTCTACCAACGGGTTCGCTCCCTCTTTCTTTCA
* * *
3861694 GGGAGTACAAAACTCAAATAATCTTCTGCAATGGGTTCACTCCCTC
66 GGGAGTATAGAACTCAAATAATCTTCTGCAACGGGTTCACTCCCTC
* *
3861740 TTTCTTTCAGGGAGTATAGAACTCAAATAATCTTCTACCAACGGGTTCACTCCCTCTTTCTTTCA
1 TTTCTTTCAGGGAATATAGAACTCAAATAATCTTCTACCAACGGGTTCGCTCCCTCTTTCTTTCA
** * *
3861805 GGGAGTATAGAACTTGAATAGTCGTCTGCAACGGGTTC
66 GGGAGTATAGAACTCAAATAATCTTCTGCAACGGGTTC
3861843 GCTCTCTATT
Statistics
Matches: 182, Mismatches: 32, Indels: 1
0.85 0.15 0.00
Matches are distributed among these distances:
111 104 0.57
112 78 0.43
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (111 bp):
TTTCTTTCAGGGAATATAGAACTCAAATAATCTTCTACCAACGGGTTCGCTCCCTCTTTCTTTCA
GGGAGTATAGAACTCAAATAATCTTCTGCAACGGGTTCACTCCCTC
Found at i:3873016 original size:16 final size:17
Alignment explanation
Indices: 3872992--3873028 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
3872982 GCCTTATTCA
*
3872992 CATGGTATCTACCC-AT
1 CATGATATCTACCCAAT
3873008 CATGATATCTACCCAAT
1 CATGATATCTACCCAAT
3873025 CATG
1 CATG
3873029 TTTTAGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.30
Consensus pattern (17 bp):
CATGATATCTACCCAAT
Found at i:3874643 original size:15 final size:13
Alignment explanation
Indices: 3874630--3874666 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
3874620 AAAACAAATG
3874630 TAAATATATAAAA
1 TAAATATATAAAA
*
3874643 TAAATATAT-ATA
1 TAAATATATAAAA
3874655 TAAATATA-AAAA
1 TAAATATATAAAA
3874667 AACAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 12 0.57
13 9 0.43
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAATATATAAAA
Found at i:3884914 original size:28 final size:28
Alignment explanation
Indices: 3884880--3884946 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
3884870 CATTTTACAC
* *
3884880 AAATAGCACCCTTTTAAACTAATTACCA
1 AAATAGCACCATTTCAAACTAATTACCA
* *
3884908 AAATAGCACCATTTCGAATTAATTACCA
1 AAATAGCACCATTTCAAACTAATTACCA
**
3884936 GTATAGCACCA
1 AAATAGCACCA
3884947 AAATCGAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.27
Consensus pattern (28 bp):
AAATAGCACCATTTCAAACTAATTACCA
Found at i:3884963 original size:29 final size:28
Alignment explanation
Indices: 3884902--3884997 Score: 120
Period size: 28 Copynumber: 3.4 Consensus size: 28
3884892 TTTAAACTAA
* * ** *
3884902 TTACCAAAATAGCACCATTTCGAATTAA
1 TTACCAGAATAGCACAAAATCGAATTAT
*
3884930 TTACCAGTATAGCACCAAAATCGAATTAT
1 TTACCAGAATAGCA-CAAAATCGAATTAT
*
3884959 TTACCAGAATAGCACAAAAACGAATTAT
1 TTACCAGAATAGCACAAAATCGAATTAT
3884987 TTACCAGAATA
1 TTACCAGAATA
3884998 TATACTCGGA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
28 36 0.61
29 23 0.39
ACGTcount: A:0.45, C:0.20, G:0.09, T:0.26
Consensus pattern (28 bp):
TTACCAGAATAGCACAAAATCGAATTAT
Found at i:3885116 original size:28 final size:28
Alignment explanation
Indices: 3885075--3885147 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 28
3885065 GTTGAACATT
*
3885075 TTACACAAATAGCACCC-TTTTAAACTAA
1 TTAC-CAAATAGCACCCATTTCAAACTAA
* *
3885103 TTACCAAATAAGCACCCATTTCGAATTAA
1 TTACCAAAT-AGCACCCATTTCAAACTAA
*
3885132 TTACCAGTATAGCACC
1 TTACCA-AATAGCACC
3885148 AAAATCGAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
27 5 0.13
28 11 0.29
29 20 0.53
30 2 0.05
ACGTcount: A:0.40, C:0.26, G:0.07, T:0.27
Consensus pattern (28 bp):
TTACCAAATAGCACCCATTTCAAACTAA
Found at i:3885155 original size:29 final size:29
Alignment explanation
Indices: 3885124--3885291 Score: 248
Period size: 29 Copynumber: 5.8 Consensus size: 29
3885114 GCACCCATTT
* * *
3885124 CGAATTAATTACCAGTATAGCACCAAAAT
1 CGAATTATTTACCAGAATAGCACCAAAAC
* *
3885153 CGAATTATTTACCAGAATAGCACAAAAAA
1 CGAATTATTTACCAGAATAGCACCAAAAC
3885182 CGAATTATTTACCAGAATAGCACCAAAAAC
1 CGAATTATTTACCAGAATAGCACC-AAAAC
3885212 CGAATTATTTACCAGAATAGCACCAAAAC
1 CGAATTATTTACCAGAATAGCACCAAAAC
*
3885241 CGAATTATTTACCAGAATAACACCAAAAC
1 CGAATTATTTACCAGAATAGCACCAAAAC
*
3885270 TGAATTATTTACCA-ATATAGCA
1 CGAATTATTTACCAGA-ATAGCA
3885292 TCGGTCAACT
Statistics
Matches: 128, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
28 1 0.01
29 99 0.77
30 28 0.22
ACGTcount: A:0.46, C:0.21, G:0.10, T:0.23
Consensus pattern (29 bp):
CGAATTATTTACCAGAATAGCACCAAAAC
Found at i:3885225 original size:88 final size:88
Alignment explanation
Indices: 3885124--3885291 Score: 259
Period size: 88 Copynumber: 1.9 Consensus size: 88
3885114 GCACCCATTT
* * *
3885124 CGAATTAATTACCAGTATAGCACCAAAATCGAATTATTTACCAGAATAGCACAAAAAAC-GAATT
1 CGAATTAATTACCAGAATAGCACCAAAACCGAATTATTTACCAGAATAACAC-AAAAACTGAATT
3885188 ATTTACCAGA-ATAGCACCAAAAAC
65 ATTTACCA-ATATAGCACCAAAAAC
* *
3885212 CGAATTATTTACCAGAATAGCACCAAAACCGAATTATTTACCAGAATAACACCAAAACTGAATTA
1 CGAATTAATTACCAGAATAGCACCAAAACCGAATTATTTACCAGAATAACACAAAAACTGAATTA
3885277 TTTACCAATATAGCA
66 TTTACCAATATAGCA
3885292 TCGGTCAACT
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
87 6 0.08
88 67 0.92
ACGTcount: A:0.46, C:0.21, G:0.10, T:0.23
Consensus pattern (88 bp):
CGAATTAATTACCAGAATAGCACCAAAACCGAATTATTTACCAGAATAACACAAAAACTGAATTA
TTTACCAATATAGCACCAAAAAC
Found at i:3885245 original size:59 final size:58
Alignment explanation
Indices: 3885124--3885291 Score: 248
Period size: 59 Copynumber: 2.9 Consensus size: 58
3885114 GCACCCATTT
* * *
3885124 CGAATTAATTACCAGTATAGCACCAAAATCGAATTATTTACCAGAATAGCACAAAAAA
1 CGAATTATTTACCAGAATAGCACCAAAACCGAATTATTTACCAGAATAGCACAAAAAA
* *
3885182 CGAATTATTTACCAGAATAGCACCAAAAACCGAATTATTTACCAGAATAGCACCAAAAC
1 CGAATTATTTACCAGAATAGCACC-AAAACCGAATTATTTACCAGAATAGCACAAAAAA
* *
3885241 CGAATTATTTACCAGAATAACACCAAAACTGAATTATTTACCA-ATATAGCA
1 CGAATTATTTACCAGAATAGCACCAAAACCGAATTATTTACCAGA-ATAGCA
3885292 TCGGTCAACT
Statistics
Matches: 101, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
57 1 0.01
58 46 0.46
59 54 0.53
ACGTcount: A:0.46, C:0.21, G:0.10, T:0.23
Consensus pattern (58 bp):
CGAATTATTTACCAGAATAGCACCAAAACCGAATTATTTACCAGAATAGCACAAAAAA
Found at i:3885331 original size:17 final size:17
Alignment explanation
Indices: 3885292--3885362 Score: 90
Period size: 17 Copynumber: 4.2 Consensus size: 17
3885282 CAATATAGCA
* *
3885292 TCGGTCAACTG-TTGGG
1 TCGGTCAACAGATCGGG
* *
3885308 TCGGGTCAACGGGTCGGG
1 TC-GGTCAACAGATCGGG
3885326 TCGGTCAACAGATCGGG
1 TCGGTCAACAGATCGGG
3885343 TCGGTCAACAGATCGGG
1 TCGGTCAACAGATCGGG
3885360 TCG
1 TCG
3885363 TGACTGGTCA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
16 2 0.04
17 41 0.84
18 6 0.12
ACGTcount: A:0.17, C:0.23, G:0.39, T:0.21
Consensus pattern (17 bp):
TCGGTCAACAGATCGGG
Found at i:3889331 original size:22 final size:23
Alignment explanation
Indices: 3889306--3889351 Score: 85
Period size: 22 Copynumber: 2.0 Consensus size: 23
3889296 GGAGTGAGTG
3889306 GAGCCATTGTCCA-TAATGCAAA
1 GAGCCATTGTCCAGTAATGCAAA
3889328 GAGCCATTGTCCAGTAATGCAAA
1 GAGCCATTGTCCAGTAATGCAAA
3889351 G
1 G
3889352 TATGGGATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (23 bp):
GAGCCATTGTCCAGTAATGCAAA
Found at i:3889458 original size:21 final size:21
Alignment explanation
Indices: 3889432--3889479 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
3889422 GCATAAACCA
*
3889432 AAGCTGGCTGTCTAGCCTCAG
1 AAGCTGGCTGTCTACCCTCAG
3889453 AAGCTGGCTGTCTACCCTCAG
1 AAGCTGGCTGTCTACCCTCAG
3889474 AAGCTG
1 AAGCTG
3889480 TTGGCCCTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.29, G:0.27, T:0.23
Consensus pattern (21 bp):
AAGCTGGCTGTCTACCCTCAG
Found at i:3891888 original size:29 final size:29
Alignment explanation
Indices: 3891847--3891985 Score: 179
Period size: 29 Copynumber: 4.8 Consensus size: 29
3891837 AGCACCATTT
*
3891847 CGAATTAATTACCAGAATAGCACAAAAAC
1 CGAATTATTTACCAGAATAGCACAAAAAC
* *
3891876 CAAATTGTTTACCAGAATAGCACAAAAAC
1 CGAATTATTTACCAGAATAGCACAAAAAC
* * *
3891905 CGAATTATTTACTAAAATAGCACCAAAAC
1 CGAATTATTTACCAGAATAGCACAAAAAC
* *
3891934 CGAATTATTTACCAGAATAGAACTAAAAC
1 CGAATTATTTACCAGAATAGCACAAAAAC
* * *
3891963 TGAAGTATTTACCAAAATAGCAC
1 CGAATTATTTACCAGAATAGCAC
3891986 CGATCAACGG
Statistics
Matches: 94, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.48, C:0.19, G:0.10, T:0.22
Consensus pattern (29 bp):
CGAATTATTTACCAGAATAGCACAAAAAC
Found at i:3892758 original size:2 final size:2
Alignment explanation
Indices: 3892751--3892804 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
3892741 TCCATAGCAA
3892751 AT AT AT AT AT AT 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 AT AT AT AT AT AT
3892793 AT AT AT AT AT AT
1 AT AT AT AT AT AT
3892805 GTATGTATGT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3892809 original size:4 final size:4
Alignment explanation
Indices: 3892802--3892842 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
3892792 TATATATATA
3892802 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG T
3892843 CTTTTAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:3897602 original size:24 final size:21
Alignment explanation
Indices: 3897567--3897609 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
3897557 GGCATATTCT
*
3897567 TTTGAATTTCAAGAGGTACATCC
1 TTTGAATGTCAA-AGG-ACATCC
3897590 TTTGAAATGTCAAAGGACAT
1 TTTG-AATGTCAAAGGACAT
3897610 GTCTTGTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 7 0.39
24 7 0.39
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (21 bp):
TTTGAATGTCAAAGGACATCC
Found at i:3898844 original size:23 final size:24
Alignment explanation
Indices: 3898804--3898848 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
3898794 CTTTGCTTTT
3898804 CTTTTCTTCTTTTTGAGTGCTTGA
1 CTTTTCTTCTTTTTGAGTGCTTGA
3898828 CTTTTCTTC-TTTTGAGTGCTT
1 CTTTTCTTCTTTTTGAGTGCTT
3898849 CGATTTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.07, C:0.18, G:0.16, T:0.60
Consensus pattern (24 bp):
CTTTTCTTCTTTTTGAGTGCTTGA
Found at i:3900703 original size:19 final size:19
Alignment explanation
Indices: 3900675--3900716 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
3900665 AGAAAGTTGG
3900675 AGCTAGTTTGGATCGTATC
1 AGCTAGTTTGGATCGTATC
*
3900694 AGCTATTTTGGATCGTATC
1 AGCTAGTTTGGATCGTATC
3900713 AGCT
1 AGCT
3900717 TGAGATGGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.38
Consensus pattern (19 bp):
AGCTAGTTTGGATCGTATC
Found at i:3901023 original size:43 final size:43
Alignment explanation
Indices: 3900952--3901040 Score: 133
Period size: 43 Copynumber: 2.1 Consensus size: 43
3900942 CTCTCCATGT
* * * *
3900952 GATTGTAAGTTATGGATTTCACTGTGCACCCAAATAAGCTAAG
1 GATTGTAAGTTATGGATTCCACTATGCACCCAAACAAACTAAG
*
3900995 GATTGTAAGTTATGGATTCCAGTATGCACCCAAACAAACTAAG
1 GATTGTAAGTTATGGATTCCACTATGCACCCAAACAAACTAAG
3901038 GAT
1 GAT
3901041 AAAGGATGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (43 bp):
GATTGTAAGTTATGGATTCCACTATGCACCCAAACAAACTAAG
Found at i:3906403 original size:2 final size:2
Alignment explanation
Indices: 3906396--3906423 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3906386 CTTGGCGGAC
3906396 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
3906424 CATTTGCACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3908099 original size:85 final size:85
Alignment explanation
Indices: 3907998--3908173 Score: 230
Period size: 85 Copynumber: 2.1 Consensus size: 85
3907988 ATACAATCAC
* * * *
3907998 GACACAAGAATGTGTGTCATATT-TTTTAATGACGTGTGCTTCAATGACACGCAATGAGCGTCAT
1 GACACAAGAATGTGTGTCATATTCATTT-ATGACGGGGGATTCAATGACACGCAATGAGCGTCAT
* *
3908062 ACATGTGTGCCATAAATTTAT
65 AAATGTGCGCCATAAATTTAT
* *
3908083 GACACACA-AATGTGTGTCATCTTCATTTATGACGGGGGATTCAATGACGCGCAATGAGCGTCAT
1 GACACA-AGAATGTGTGTCATATTCATTTATGACGGGGGATTCAATGACACGCAATGAGCGTCAT
* *
3908147 AAATGTGCGTCATAGATTTAT
65 AAATGTGCGCCATAAATTTAT
3908168 GACACA
1 GACACA
3908174 TAATTACGCG
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
85 75 0.95
86 4 0.05
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.30
Consensus pattern (85 bp):
GACACAAGAATGTGTGTCATATTCATTTATGACGGGGGATTCAATGACACGCAATGAGCGTCATA
AATGTGCGCCATAAATTTAT
Found at i:3909426 original size:20 final size:20
Alignment explanation
Indices: 3909401--3909487 Score: 84
Period size: 20 Copynumber: 4.1 Consensus size: 20
3909391 GTATTGACAT
* * *
3909401 TACTACAAGAACATTAGAGA
1 TACTACAAGAACAATACAAA
3909421 TACTACAAGAACAATACAAA
1 TACTACAAGAACAATACAAA
*
3909441 TACTGCAAGAACAATATCGATATTA
1 TACTACAAGAACAATA-C-A-A--A
*
3909466 TACTACAAGAATAATACAAA
1 TACTACAAGAACAATACAAA
3909486 TA
1 TA
3909488 TTGTAAGAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
20 35 0.62
21 1 0.02
22 2 0.04
23 2 0.04
24 1 0.02
25 15 0.27
ACGTcount: A:0.53, C:0.16, G:0.09, T:0.22
Consensus pattern (20 bp):
TACTACAAGAACAATACAAA
Found at i:3909505 original size:45 final size:45
Alignment explanation
Indices: 3909420--3909507 Score: 122
Period size: 45 Copynumber: 2.0 Consensus size: 45
3909410 AACATTAGAG
*
3909420 ATACTACAAGAACAATACAAATACTGCAAGAACAATATCGATATT
1 ATACTACAAGAACAATACAAATACTGCAAGAACAACATCGATATT
* * * * *
3909465 ATACTACAAGAATAATACAAATATTGTAAGAATAGCATCGATA
1 ATACTACAAGAACAATACAAATACTGCAAGAACAACATCGATA
3909508 CTACAAGAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.51, C:0.15, G:0.10, T:0.24
Consensus pattern (45 bp):
ATACTACAAGAACAATACAAATACTGCAAGAACAACATCGATATT
Found at i:3909515 original size:20 final size:20
Alignment explanation
Indices: 3909492--3909570 Score: 79
Period size: 20 Copynumber: 4.0 Consensus size: 20
3909482 CAAATATTGT
*
3909492 AAGAATAGCATCGATACTAC
1 AAGAATAGTATCGATACTAC
3909512 AAGAATAGTATTCG-TACTAC
1 AAGAATAGTA-TCGATACTAC
* * *
3909532 AAGAACAATATTGATACTAC
1 AAGAATAGTATCGATACTAC
* * *
3909552 AAGAAAAATATCAATACTA
1 AAGAATAGTATCGATACTA
3909571 TGTTTCATAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
19 2 0.04
20 45 0.90
21 3 0.06
ACGTcount: A:0.49, C:0.15, G:0.11, T:0.24
Consensus pattern (20 bp):
AAGAATAGTATCGATACTAC
Found at i:3909570 original size:40 final size:40
Alignment explanation
Indices: 3909401--3909570 Score: 108
Period size: 40 Copynumber: 4.1 Consensus size: 40
3909391 GTATTGACAT
* ** *
3909401 TACTACAAGAACATTAGAGATACTACAAGAACAATACAAA
1 TACTACAAGAACAATATTGATACTACAAGAATAATACAAA
* *
3909441 TACTGCAAGAACAATATCGATATTATACTACAAGAATAATACAAA
1 TACTACAAGAAC-A-AT--AT-TGATACTACAAGAATAATACAAA
* ** * ** * * ****
3909486 TATTGTAAGAATAGCATCGATACTACAAGAATAGTATTCG
1 TACTACAAGAACAATATTGATACTACAAGAATAATACAAA
*
3909526 TACTACAAGAACAATATTGATACTACAAGAAAAATATC-AA
1 TACTACAAGAACAATATTGATACTACAAGAATAATA-CAAA
3909566 TACTA
1 TACTA
3909571 TGTTTCATAA
Statistics
Matches: 94, Mismatches: 30, Indels: 12
0.69 0.22 0.09
Matches are distributed among these distances:
40 59 0.63
41 3 0.03
42 1 0.01
44 2 0.02
45 29 0.31
ACGTcount: A:0.50, C:0.15, G:0.11, T:0.24
Consensus pattern (40 bp):
TACTACAAGAACAATATTGATACTACAAGAATAATACAAA
Found at i:3912197 original size:17 final size:16
Alignment explanation
Indices: 3912175--3912213 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
3912165 TTGAATTGCT
3912175 CAAAAATATTAAAAAAA
1 CAAAAATATT-AAAAAA
*
3912192 CAAAAAATATTAGAAAA
1 C-AAAAATATTAAAAAA
3912209 CAAAA
1 CAAAA
3912214 GGTTGGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.74, C:0.08, G:0.03, T:0.15
Consensus pattern (16 bp):
CAAAAATATTAAAAAA
Found at i:3912197 original size:18 final size:17
Alignment explanation
Indices: 3912176--3912213 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
3912166 TGAATTGCTC
3912176 AAAAATATTAAAAAAACA
1 AAAAATATT-AAAAAACA
*
3912194 AAAAATATTAGAAAACA
1 AAAAATATTAAAAAACA
3912211 AAA
1 AAA
3912214 GGTTGGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.76, C:0.05, G:0.03, T:0.16
Consensus pattern (17 bp):
AAAAATATTAAAAAACA
Found at i:3912394 original size:2 final size:2
Alignment explanation
Indices: 3912387--3912427 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
3912377 GTGTCCAGAC
3912387 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3912428 TAGGTGGCTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3912592 original size:20 final size:22
Alignment explanation
Indices: 3912569--3912609 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
3912559 TGTAAAATTT
*
3912569 TAAAATT-TTATTT-AAAAACA
1 TAAAATTATAATTTGAAAAACA
3912589 TAAAATTATAATTTGAAAAAC
1 TAAAATTATAATTTGAAAAAC
3912610 CCAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 5 0.28
22 6 0.33
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (22 bp):
TAAAATTATAATTTGAAAAACA
Found at i:3922608 original size:47 final size:47
Alignment explanation
Indices: 3922539--3922719 Score: 272
Period size: 47 Copynumber: 3.8 Consensus size: 47
3922529 TAAAATCTCA
3922539 TTTGAAAACATCCTGCACTAAAGGTCTTATGGATGACCCGAAGGCTT
1 TTTGAAAACATCCTGCACTAAAGGTCTTATGGATGACCCGAAGGCTT
* *
3922586 TTTGAAAACATCTTGCACTAAAGGTCTTATGGATGACCCAAAGGCTT
1 TTTGAAAACATCCTGCACTAAAGGTCTTATGGATGACCCGAAGGCTT
* * * *
3922633 TTTGAAAAACATCCTGTATTGAAGGTCTTATGGATGACCTGAAGGCTT
1 TTTG-AAAACATCCTGCACTAAAGGTCTTATGGATGACCCGAAGGCTT
* * *
3922681 TTTGAAAACATCCTACACTGAAGGTCTTATAGATGACCC
1 TTTGAAAACATCCTGCACTAAAGGTCTTATGGATGACCC
3922720 AGAGGTTTTA
Statistics
Matches: 120, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
47 79 0.66
48 41 0.34
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (47 bp):
TTTGAAAACATCCTGCACTAAAGGTCTTATGGATGACCCGAAGGCTT
Found at i:3922664 original size:95 final size:93
Alignment explanation
Indices: 3922539--3922728 Score: 281
Period size: 95 Copynumber: 2.0 Consensus size: 93
3922529 TAAAATCTCA
* *
3922539 TTTGAAAACATCCTGCACTAAAGGTCTTATGGATGACCCGAAGGCTTTTTGAAAACATCTTGCAC
1 TTTGAAAACATCCTGCACTAAAGGTCTTATGGATGACCCGAAGGCTTTTTGAAAACATCCTACAC
*
3922604 TAAAGGTCTTATGGATGACCCAAAGGCTT
66 TAAAGGTCTTATAGATGACCCAAAGG-TT
* * * *
3922633 TTTGAAAAACATCCTGTATTGAAGGTCTTATGGATGACCTGAAGGCTTTTTGAAAACATCCTACA
1 TTTG-AAAACATCCTGCACTAAAGGTCTTATGGATGACCCGAAGGCTTTTTGAAAACATCCTACA
* *
3922698 CTGAAGGTCTTATAGATGACCCAGAGGTT
65 CTAAAGGTCTTATAGATGACCCAAAGGTT
3922727 TT
1 TT
3922729 AAATTTCTAT
Statistics
Matches: 86, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
94 8 0.09
95 78 0.91
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (93 bp):
TTTGAAAACATCCTGCACTAAAGGTCTTATGGATGACCCGAAGGCTTTTTGAAAACATCCTACAC
TAAAGGTCTTATAGATGACCCAAAGGTT
Found at i:3923182 original size:249 final size:249
Alignment explanation
Indices: 3922732--3923994 Score: 1949
Period size: 249 Copynumber: 5.1 Consensus size: 249
3922722 AGGTTTTAAA
* * ** * *
3922732 TTTCTATAACATTAAATGAGAAACTTTGGTAATCGTTTTCTCATTTTTCATGCGAAAATCATATG
1 TTTCTAGAACAATAAATGAGAAACTTTGAAAATCGCTATCTCA-TTTTCATGCGAAAATCATATG
* *
3922797 TGAACAT-CTTCCTAAAGGCTTTACGGATGGCCCTAAGGACTTATCATCTTGCTCGAAAGACTGA
65 TGAACATCCTACCCAAAGGCTTTACGGATGGCCCTAAGGACTTATCATCTTGCTCGAAAGACTGA
* * * * *
3922861 TAGATGACCCGGAGGTTTTAGGCATCATGCTCGAAAGACTTACAGATGACACGAAGGATTTACAA
130 CAGATGACCCGAAGGTTTTAAGCATCATGCTCGAAAGACTAACAGATGACCCGAAGGATTTACAA
*
3922926 ATTTGTGGGAAATACTTTACTAGGTAAGAAACTTCTTACTTTTCAAGAATTTGAT
195 ATTTGTGGGAAATACTTTACTGGGTAAGAAACTTCTTACTTTTCAAGAATTTGAT
*
3922981 TTTCTAGAACAATAAATGAGAAACTTTGAAAATCGCTATCTCATTTTCATGCAAAAATCATATGT
1 TTTCTAGAACAATAAATGAGAAACTTTGAAAATCGCTATCTCATTTTCATGCGAAAATCATATGT
* * *
3923046 GAACATCCTACCCAAAGGCTTTACAGATGGCCTTAAGGACTTATCATCTTGTTCGAAAGACTGAC
66 GAACATCCTACCCAAAGGCTTTACGGATGGCCCTAAGGACTTATCATCTTGCTCGAAAGACTGAC
* *
3923111 AGATGACTCGAAGGTTTTAAGTATCATGCTCGAAAGACTAACAGATGACCCGAAGGATTTACAAA
131 AGATGACCCGAAGGTTTTAAGCATCATGCTCGAAAGACTAACAGATGACCCGAAGGATTTACAAA
* * *
3923176 TTTGTGGGAAATACTTTACTAGGTAAGAAACTTCTTAC-TTTAAAAAATTTGAT
196 TTTGTGGGAAATACTTTACTGGGTAAGAAACTTCTTACTTTTCAAGAATTTGAT
* *
3923229 TTTCTAGAACATTAAATGAGAAACTTTGAAAATCACTATCTCATTTTCATGCGAAAATCATATGT
1 TTTCTAGAACAATAAATGAGAAACTTTGAAAATCGCTATCTCATTTTCATGCGAAAATCATATGT
* *
3923294 GAACATCCTACCCAAAGGCTTTACGGATGGCCCTAAGGACTTATCATCTTGCTCGAAATACTAAC
66 GAACATCCTACCCAAAGGCTTTACGGATGGCCCTAAGGACTTATCATCTTGCTCGAAAGACTGAC
* * *
3923359 AGATGACCCGAATGTTTTAAGCATCATGCTCGAAAGACTAACAGATGACCCGGAGGATTTATAAA
131 AGATGACCCGAAGGTTTTAAGCATCATGCTCGAAAGACTAACAGATGACCCGAAGGATTTACAAA
3923424 TTTGTGGGAAATACTTTACTGGGTAAGAAACTTCTTACTTTTCAAGAATTTGAT
196 TTTGTGGGAAATACTTTACTGGGTAAGAAACTTCTTACTTTTCAAGAATTTGAT
* * **
3923478 TTTCTAGACCATTAAATGAGAAACTTTGAAAATCGCTATCTCATTTTCATGTAAAAATCATATGT
1 TTTCTAGAACAATAAATGAGAAACTTTGAAAATCGCTATCTCATTTTCATGCGAAAATCATATGT
* * * *
3923543 GAACAACATACCCAAAGGCTTTATGGATGGCCCTAAGGACTTATCATCTTGCTCAAAAGACTGAC
66 GAACATCCTACCCAAAGGCTTTACGGATGGCCCTAAGGACTTATCATCTTGCTCGAAAGACTGAC
* * *
3923608 AGATGGCCCAAAGGTTTTAAGCATCATGCTCGAAAGACTAACAGATGACTCGAAGGATTTACAAA
131 AGATGACCCGAAGGTTTTAAGCATCATGCTCGAAAGACTAACAGATGACCCGAAGGATTTACAAA
*
3923673 TTTGTGGGAAATACTTTAGTGGGTAAGAAACTTCTTACTTTTCAAGAATTTGAT
196 TTTGTGGGAAATACTTTACTGGGTAAGAAACTTCTTACTTTTCAAGAATTTGAT
*
3923727 TTTCTAGAA-AATTAAATGAGAAACTTTGAAAATCGCTATCTCATTTTCATGTGAAAATCATATG
1 TTTCTAGAACAA-TAAATGAGAAACTTTGAAAATCGCTATCTCATTTTCATGCGAAAATCATATG
3923791 TGAACATCCTACCCAAAGGCTTTACGGATGGCCCTAAGGACTTATCATCTTGCTCGAAAGACTGA
65 TGAACATCCTACCCAAAGGCTTTACGGATGGCCCTAAGGACTTATCATCTTGCTCGAAAGACTGA
* *
3923856 CAGATGACCCAAAGGTTTTAAGCATCATGCTC-AATAGACTAACAGATGACCCGAAGTATTTACA
130 CAGATGACCCGAAGGTTTTAAGCATCATGCTCGAA-AGACTAACAGATGACCCGAAGGATTTACA
* *
3923920 AATTTATGGG----A----A-TGGGTAAGAAACTTCTTACTTTTCAAGAATTTCAT
194 AATTTGTGGGAAATACTTTACTGGGTAAGAAACTTCTTACTTTTCAAGAATTTGAT
* *
3923967 TTTCTAAAAAAGATTAAATGAGAAACTT
1 TTTCTAGAACA-A-TAAATGAGAAACTT
3923995 GTTGGTTAGG
Statistics
Matches: 941, Mismatches: 67, Indels: 19
0.92 0.07 0.02
Matches are distributed among these distances:
240 42 0.04
241 2 0.00
242 16 0.02
245 1 0.00
248 262 0.28
249 618 0.66
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (249 bp):
TTTCTAGAACAATAAATGAGAAACTTTGAAAATCGCTATCTCATTTTCATGCGAAAATCATATGT
GAACATCCTACCCAAAGGCTTTACGGATGGCCCTAAGGACTTATCATCTTGCTCGAAAGACTGAC
AGATGACCCGAAGGTTTTAAGCATCATGCTCGAAAGACTAACAGATGACCCGAAGGATTTACAAA
TTTGTGGGAAATACTTTACTGGGTAAGAAACTTCTTACTTTTCAAGAATTTGAT
Found at i:3923673 original size:497 final size:498
Alignment explanation
Indices: 3922732--3923994 Score: 1992
Period size: 497 Copynumber: 2.6 Consensus size: 498
3922722 AGGTTTTAAA
* ** * *
3922732 TTTCTATAACATTAAATGAGAAACTTTGGTAATCGTTTTCTCATTTTTCATGCGAAAATCATATG
1 TTTCTAGAACATTAAATGAGAAACTTTGAAAATCGCTATCTCA-TTTTCATGCGAAAATCATATG
* *
3922797 TGAACAT-CTTCCTAAAGGCTTTACGGATGGCCCTAAGGACTTATCATCTTGCTCGAAAGACTGA
65 TGAACATCCTACCCAAAGGCTTTACGGATGGCCCTAAGGACTTATCATCTTGCTCGAAAGACTGA
* * * * *
3922861 TAGATGACCCGGAGGTTTTAGGCATCATGCTCGAAAGACTTACAGATGACACGAAGGATTTACAA
130 CAGATGACCCGAAGGTTTTAAGCATCATGCTCGAAAGACTAACAGATGACCCGAAGGATTTACAA
*
3922926 ATTTGTGGGAAATACTTTACTAGGTAAGAAACTTCTTACTTTTCAAGAATTTGATTTTCTAGAAC
195 ATTTGTGGGAAATACTTTACTGGGTAAGAAACTTCTTACTTTTCAAGAATTTGATTTTCTAGAAC
* *
3922991 AATAAATGAGAAACTTTGAAAATCGCTATCTCATTTTCATGCAAAAATCATATGTGAACATCCTA
260 AATAAATGAGAAACTTTGAAAATCGCTATCTCATTTTCATGCAAAAATCATATGTGAACAACATA
* * * * *
3923056 CCCAAAGGCTTTACAGATGGCCTTAAGGACTTATCATCTTGTTCGAAAGACTGACAGATGACTCG
325 CCCAAAGGCTTTACAGATGGCCCTAAGGACTTATCATCTTGCTCAAAAGACTGACAGATGACCCA
*
3923121 AAGGTTTTAAGTATCATGCTCGAAAGACTAACAGATGACCCGAAGGATTTACAAATTTGTGGGAA
390 AAGGTTTTAAGCATCATGCTCGAAAGACTAACAGATGACCCGAAGGATTTACAAATTTGTGGGAA
3923186 ATACTTTACTAGGTAAGAAACTTCTTAC-TTTAAAAAATTTGAT
455 ATACTTTACTAGGTAAGAAACTTCTTACTTTTAAAAAATTTGAT
*
3923229 TTTCTAGAACATTAAATGAGAAACTTTGAAAATCACTATCTCATTTTCATGCGAAAATCATATGT
1 TTTCTAGAACATTAAATGAGAAACTTTGAAAATCGCTATCTCATTTTCATGCGAAAATCATATGT
* *
3923294 GAACATCCTACCCAAAGGCTTTACGGATGGCCCTAAGGACTTATCATCTTGCTCGAAATACTAAC
66 GAACATCCTACCCAAAGGCTTTACGGATGGCCCTAAGGACTTATCATCTTGCTCGAAAGACTGAC
* * *
3923359 AGATGACCCGAATGTTTTAAGCATCATGCTCGAAAGACTAACAGATGACCCGGAGGATTTATAAA
131 AGATGACCCGAAGGTTTTAAGCATCATGCTCGAAAGACTAACAGATGACCCGAAGGATTTACAAA
*
3923424 TTTGTGGGAAATACTTTACTGGGTAAGAAACTTCTTACTTTTCAAGAATTTGATTTTCTAGACCA
196 TTTGTGGGAAATACTTTACTGGGTAAGAAACTTCTTACTTTTCAAGAATTTGATTTTCTAGAACA
* *
3923489 TTAAATGAGAAACTTTGAAAATCGCTATCTCATTTTCATGTAAAAATCATATGTGAACAACATAC
261 ATAAATGAGAAACTTTGAAAATCGCTATCTCATTTTCATGCAAAAATCATATGTGAACAACATAC
** *
3923554 CCAAAGGCTTTATGGATGGCCCTAAGGACTTATCATCTTGCTCAAAAGACTGACAGATGGCCCAA
326 CCAAAGGCTTTACAGATGGCCCTAAGGACTTATCATCTTGCTCAAAAGACTGACAGATGACCCAA
*
3923619 AGGTTTTAAGCATCATGCTCGAAAGACTAACAGATGACTCGAAGGATTTACAAATTTGTGGGAAA
391 AGGTTTTAAGCATCATGCTCGAAAGACTAACAGATGACCCGAAGGATTTACAAATTTGTGGGAAA
* * * *
3923684 TACTTTAGTGGGTAAGAAACTTCTTACTTTTCAAGAATTTGAT
456 TACTTTACTAGGTAAGAAACTTCTTACTTTTAAAAAATTTGAT
* *
3923727 TTTCTAGAAAATTAAATGAGAAACTTTGAAAATCGCTATCTCATTTTCATGTGAAAATCATATGT
1 TTTCTAGAACATTAAATGAGAAACTTTGAAAATCGCTATCTCATTTTCATGCGAAAATCATATGT
3923792 GAACATCCTACCCAAAGGCTTTACGGATGGCCCTAAGGACTTATCATCTTGCTCGAAAGACTGAC
66 GAACATCCTACCCAAAGGCTTTACGGATGGCCCTAAGGACTTATCATCTTGCTCGAAAGACTGAC
* *
3923857 AGATGACCCAAAGGTTTTAAGCATCATGCTC-AATAGACTAACAGATGACCCGAAGTATTTACAA
131 AGATGACCCGAAGGTTTTAAGCATCATGCTCGAA-AGACTAACAGATGACCCGAAGGATTTACAA
* * * *
3923921 ATTTATGGG----A----A-TGGGTAAGAAACTTCTTACTTTTCAAGAATTTCATTTTCTAAAAA
195 ATTTGTGGGAAATACTTTACTGGGTAAGAAACTTCTTACTTTTCAAGAATTTGATTTTCTAGAAC
3923977 AGATTAAATGAGAAACTT
260 A-A-TAAATGAGAAACTT
3923995 GTTGGTTAGG
Statistics
Matches: 707, Mismatches: 54, Indels: 16
0.91 0.07 0.02
Matches are distributed among these distances:
489 42 0.06
490 1 0.00
491 14 0.02
494 1 0.00
496 28 0.04
497 419 0.59
498 202 0.29
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (498 bp):
TTTCTAGAACATTAAATGAGAAACTTTGAAAATCGCTATCTCATTTTCATGCGAAAATCATATGT
GAACATCCTACCCAAAGGCTTTACGGATGGCCCTAAGGACTTATCATCTTGCTCGAAAGACTGAC
AGATGACCCGAAGGTTTTAAGCATCATGCTCGAAAGACTAACAGATGACCCGAAGGATTTACAAA
TTTGTGGGAAATACTTTACTGGGTAAGAAACTTCTTACTTTTCAAGAATTTGATTTTCTAGAACA
ATAAATGAGAAACTTTGAAAATCGCTATCTCATTTTCATGCAAAAATCATATGTGAACAACATAC
CCAAAGGCTTTACAGATGGCCCTAAGGACTTATCATCTTGCTCAAAAGACTGACAGATGACCCAA
AGGTTTTAAGCATCATGCTCGAAAGACTAACAGATGACCCGAAGGATTTACAAATTTGTGGGAAA
TACTTTACTAGGTAAGAAACTTCTTACTTTTAAAAAATTTGAT
Found at i:3925161 original size:52 final size:51
Alignment explanation
Indices: 3925096--3925216 Score: 179
Period size: 51 Copynumber: 2.4 Consensus size: 51
3925086 TATACGGGTC
** *
3925096 TGAGCCTTCAAGATGCCTCACATGGATTGCTTCTGTCTTTTTCATGCTGATG
1 TGAGCCTTCAAGATGCC-CACATGGATAACTTATGTCTTTTTCATGCTGATG
* * *
3925148 TGAGCCTTTAAGATACCCACATGGATAACTTATGTCTTTTTTATGCTGATG
1 TGAGCCTTCAAGATGCCCACATGGATAACTTATGTCTTTTTCATGCTGATG
3925199 TGAGCCTTCAAGATGCCC
1 TGAGCCTTCAAGATGCCC
3925217 CAGATAGATA
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
51 46 0.75
52 15 0.25
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.36
Consensus pattern (51 bp):
TGAGCCTTCAAGATGCCCACATGGATAACTTATGTCTTTTTCATGCTGATG
Found at i:3926741 original size:11 final size:11
Alignment explanation
Indices: 3926725--3926764 Score: 50
Period size: 10 Copynumber: 3.9 Consensus size: 11
3926715 TCAATTTCTT
3926725 TTTTCTTTTTC
1 TTTTCTTTTTC
3926736 TTTTC-TTTTC
1 TTTTCTTTTTC
*
3926746 TATT-TTTTTC
1 TTTTCTTTTTC
3926756 -TTTCTTTTT
1 TTTTCTTTTT
3926765 TTCTGATGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
9 2 0.08
10 18 0.72
11 5 0.20
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:3926763 original size:12 final size:12
Alignment explanation
Indices: 3926719--3926768 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
3926709 CTTGATTCAA
3926719 TTTC-TTTTTTC
1 TTTCTTTTTTTC
*
3926730 TTT-TTCTTTTC
1 TTTCTTTTTTTC
3926741 TTTTCTATTTTTTTC
1 -TTTC--TTTTTTTC
3926756 TTTCTTTTTTTC
1 TTTCTTTTTTTC
3926768 T
1 T
3926769 GATGGACGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
11 9 0.28
12 12 0.38
14 4 0.12
15 7 0.22
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTCTTTTTTTC
Found at i:3931689 original size:45 final size:45
Alignment explanation
Indices: 3931606--3931698 Score: 107
Period size: 45 Copynumber: 2.1 Consensus size: 45
3931596 AAAAACATAA
* * *
3931606 AAAGAAATAAATAATGTACCACACACAAATATAATCTTTAAATCT
1 AAAGAAACAAATAATGTACCACAAACAAATATAATCTTTAAATAT
* * * *
3931651 AAAGAAACAAATAATGTA-CATCAAATAAATTTATTCTTTCAATAT
1 AAAGAAACAAATAATGTACCA-CAAACAAATATAATCTTTAAATAT
3931696 AAA
1 AAA
3931699 TACATATAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
44 2 0.05
45 38 0.95
ACGTcount: A:0.54, C:0.13, G:0.04, T:0.29
Consensus pattern (45 bp):
AAAGAAACAAATAATGTACCACAAACAAATATAATCTTTAAATAT
Found at i:3933272 original size:28 final size:28
Alignment explanation
Indices: 3933235--3933309 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
3933225 ATTTGTTGTG
*
3933235 GTGGAGGGGGCTGCTGGGTTACTTGAAAC
1 GTGGA-GGGGCTGTTGGGTTACTTGAAAC
* **
3933264 GTGGAGGGGCTATTGGGTTGTTTGAAAC
1 GTGGAGGGGCTGTTGGGTTACTTGAAAC
*
3933292 GTGGAGAGGCTGTTGGGT
1 GTGGAGGGGCTGTTGGGT
3933310 ATGAAAGGTA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 35 0.88
29 5 0.12
ACGTcount: A:0.16, C:0.09, G:0.47, T:0.28
Consensus pattern (28 bp):
GTGGAGGGGCTGTTGGGTTACTTGAAAC
Found at i:3937944 original size:32 final size:33
Alignment explanation
Indices: 3937887--3937955 Score: 104
Period size: 32 Copynumber: 2.1 Consensus size: 33
3937877 GTTTTGGGAG
* *
3937887 AAGTGTCACATCTTTACAGAGCACAAGAGCCTT
1 AAGTGTCACATATTTACAGAACACAAGAGCCTT
*
3937920 AAGTGTCA-ATATTTACGGAACACAAGAGCCTT
1 AAGTGTCACATATTTACAGAACACAAGAGCCTT
3937952 AAGT
1 AAGT
3937956 ATCTCCTTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 25 0.76
33 8 0.24
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (33 bp):
AAGTGTCACATATTTACAGAACACAAGAGCCTT
Found at i:3941422 original size:17 final size:18
Alignment explanation
Indices: 3941389--3941426 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
3941379 ATTTTTTAAA
*
3941389 AAAATTTTTTTATTTTTG
1 AAAATATTTTTATTTTTG
3941407 AAAATATTTTTA-TTTTG
1 AAAATATTTTTATTTTTG
3941424 AAA
1 AAA
3941427 TAAATGTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (18 bp):
AAAATATTTTTATTTTTG
Found at i:3941851 original size:20 final size:21
Alignment explanation
Indices: 3941814--3941852 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
3941804 CATAATTATT
*
3941814 TAAAAAATTAAATCAAAATAC
1 TAAAAAATTAAATAAAAATAC
*
3941835 TAAAAATTTAAA-AAAAAT
1 TAAAAAATTAAATAAAAAT
3941853 TTTTTATATC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (21 bp):
TAAAAAATTAAATAAAAATAC
Found at i:3949243 original size:14 final size:14
Alignment explanation
Indices: 3949224--3949253 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
3949214 ATATTCATAA
*
3949224 AATATAACTTGAAT
1 AATATAAATTGAAT
3949238 AATATAAATTGAAT
1 AATATAAATTGAAT
3949252 AA
1 AA
3949254 ATAGAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (14 bp):
AATATAAATTGAAT
Found at i:3949287 original size:20 final size:20
Alignment explanation
Indices: 3949243--3949288 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
3949233 TGAATAATAT
3949243 AAATTGAATAAATAGAATAAA
1 AAATTGAATAAATA-AATAAA
*
3949264 AAATTGAATATAAT-AATAAG
1 AAATTGAATA-AATAAATAAA
3949284 AAATT
1 AAATT
3949289 ATAAAGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 10 0.43
21 10 0.43
22 3 0.13
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (20 bp):
AAATTGAATAAATAAATAAA
Found at i:3949585 original size:20 final size:20
Alignment explanation
Indices: 3949556--3949627 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
3949546 CATGGTTATA
*
3949556 GGTATTGATACTACCCTAAT
1 GGTATCGATACTACCCTAAT
* *
3949576 GGTATCGATACTACCATTCAAG
1 GGTATCGATACTACC-CT-AAT
*
3949598 GGTATCGATAC--CTCCTCAT
1 GGTATCGATACTAC-CCTAAT
3949617 GGTATCGATAC
1 GGTATCGATAC
3949628 CGAAATAACA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
19 12 0.28
20 16 0.37
21 2 0.05
22 13 0.30
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (20 bp):
GGTATCGATACTACCCTAAT
Found at i:3949669 original size:54 final size:54
Alignment explanation
Indices: 3949592--3949733 Score: 171
Period size: 54 Copynumber: 2.6 Consensus size: 54
3949582 GATACTACCA
* *
3949592 TTCAAGGGTATCGATACCTCCTCATGGTATCGATACCGAA-ATAACATTCGATGT
1 TTCAAGGGTATCGATACCACCTCAAGGTATCGATACC-AATATAACATTCGATGT
* * **
3949646 TTCAAGGGTATCGATACCACCTCAAGGTACCGATACCAATCTGGCATTCGATGT
1 TTCAAGGGTATCGATACCACCTCAAGGTATCGATACCAATATAACATTCGATGT
* * *
3949700 TTTAA-GGTATCGATATCATCCTTAAGGTATCGAT
1 TTCAAGGGTATCGATACCA-CCTCAAGGTATCGAT
3949734 CCTTAAGGTA
Statistics
Matches: 76, Mismatches: 10, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
53 14 0.18
54 62 0.82
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (54 bp):
TTCAAGGGTATCGATACCACCTCAAGGTATCGATACCAATATAACATTCGATGT
Found at i:3949737 original size:15 final size:15
Alignment explanation
Indices: 3949713--3949748 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
3949703 AAGGTATCGA
3949713 TATC-ATCCTTAAGG
1 TATCGATCCTTAAGG
3949727 TATCGATCCTTAAGG
1 TATCGATCCTTAAGG
3949742 TATCGAT
1 TATCGAT
3949749 ATTACCCTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.19
15 17 0.81
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (15 bp):
TATCGATCCTTAAGG
Found at i:3963304 original size:21 final size:21
Alignment explanation
Indices: 3963263--3963306 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
3963253 GTAATCTATC
*
3963263 ATATTGATTTGACAGTTCACG
1 ATATTGATTTGACAGTACACG
*
3963284 ATATT-ATTGTGATAGTACACG
1 ATATTGATT-TGACAGTACACG
3963305 AT
1 AT
3963307 GAACAATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (21 bp):
ATATTGATTTGACAGTACACG
Found at i:3963394 original size:18 final size:19
Alignment explanation
Indices: 3963376--3963466 Score: 71
Period size: 18 Copynumber: 4.5 Consensus size: 19
3963366 ATATAAAATA
3963376 TAAATAATTATTAAGATAT
1 TAAATAATTATTAAGATAT
3963395 TAAA-AATTATTAAGAAATTAT
1 TAAATAATTATTAAG--A-TAT
* *
3963416 TAAAATTTAA-AATATAAAATA-
1 T-AAA--TAATTAT-TAAGATAT
3963437 TAAATAATTATTAAGATAT
1 TAAATAATTATTAAGATAT
3963456 TAAATATATTA
1 TAAATA-ATTA
3963467 AATATAAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 21
0.70 0.05 0.26
Matches are distributed among these distances:
18 19 0.33
19 12 0.21
20 8 0.14
21 5 0.09
22 5 0.09
23 1 0.02
24 2 0.04
25 5 0.09
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (19 bp):
TAAATAATTATTAAGATAT
Found at i:3963416 original size:21 final size:18
Alignment explanation
Indices: 3963376--3963477 Score: 68
Period size: 18 Copynumber: 5.4 Consensus size: 18
3963366 ATATAAAATA
3963376 TAAATAATTATTAAGATAT
1 TAAA-AATTATTAAGATAT
3963395 TAAAAATTATTAAGAAATTAT
1 TAAAAATTATTAAG--A-TAT
* *
3963416 TAAAATTTAAAATATAAAATA-
1 TAAAAATT---AT-TAAGATAT
3963437 TAAATAATTATTAAGATAT
1 TAAA-AATTATTAAGATAT
*
3963456 TAAATA-TATTAA-ATA-
1 TAAAAATTATTAAGATAT
3963471 TAAAAAT
1 TAAAAAT
3963478 ACTAAAAAAT
Statistics
Matches: 67, Mismatches: 6, Indels: 23
0.70 0.06 0.24
Matches are distributed among these distances:
15 5 0.07
16 3 0.04
17 6 0.09
18 17 0.25
19 10 0.15
20 1 0.01
21 14 0.21
22 5 0.07
23 1 0.01
24 2 0.03
25 3 0.04
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
TAAAAATTATTAAGATAT
Found at i:3963500 original size:24 final size:24
Alignment explanation
Indices: 3963422--3963500 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
3963412 TTATTAAAAT
*
3963422 TTAAAATA-TAAAATATAAATAATTA
1 TTAAAATACT-AAATA-AATTAATTA
* * * *
3963447 TTAAGATATTAAATATATTAAATA
1 TTAAAATACTAAATAAATTAATTA
*
3963471 TAAAAATACTAAA-AAATTCAATTA
1 TTAAAATACTAAATAAATT-AATTA
3963495 TTAAAA
1 TTAAAA
3963501 AATTCAATTT
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
23 4 0.10
24 25 0.60
25 12 0.29
26 1 0.02
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (24 bp):
TTAAAATACTAAATAAATTAATTA
Found at i:3963825 original size:59 final size:59
Alignment explanation
Indices: 3963759--3963876 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
3963749 ATTCTACAAC
3963759 CAAATACATTTTATTCAATATTTTATATTTTCTAAGAGAACGAAAATAAAAATAATCTA
1 CAAATACATTTTATTCAATATTTTATATTTTCTAAGAGAACGAAAATAAAAATAATCTA
3963818 CAAATACATTTTATTCAATATTTTATATTTTCTAAGAGAACGAAAATAAAAATAATCTA
1 CAAATACATTTTATTCAATATTTTATATTTTCTAAGAGAACGAAAATAAAAATAATCTA
3963877 TATTTTGTAG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.37
Consensus pattern (59 bp):
CAAATACATTTTATTCAATATTTTATATTTTCTAAGAGAACGAAAATAAAAATAATCTA
Found at i:3965098 original size:21 final size:19
Alignment explanation
Indices: 3965068--3965112 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
3965058 ACCCCACAAG
* *
3965068 AGTATTGATACCACTCCTTA
1 AGTATCGATA-CACACCTTA
3965088 TAGTATCGATACACACCTTA
1 -AGTATCGATACACACCTTA
3965108 AGTAT
1 AGTAT
3965113 AGGTACTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 8 0.36
21 9 0.41
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (19 bp):
AGTATCGATACACACCTTA
Found at i:3966374 original size:6 final size:6
Alignment explanation
Indices: 3966363--3966388 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
3966353 TTAATTCTTA
3966363 TGATAT TGATAT TGATAT TGATAT TG
1 TGATAT TGATAT TGATAT TGATAT TG
3966389 CAATAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (6 bp):
TGATAT
Found at i:3973190 original size:17 final size:18
Alignment explanation
Indices: 3973150--3973190 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
3973140 ATCTCCATAT
*
3973150 TCTCTTCATTTTTCCTTTC
1 TCTC-TCATTTTTCCTTCC
3973169 T-TCTCATTTTT-CTTCC
1 TCTCTCATTTTTCCTTCC
3973185 TCTCTC
1 TCTCTC
3973191 CTCTCCAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
16 5 0.25
17 12 0.60
18 2 0.10
19 1 0.05
ACGTcount: A:0.05, C:0.34, G:0.00, T:0.61
Consensus pattern (18 bp):
TCTCTCATTTTTCCTTCC
Found at i:3980758 original size:35 final size:36
Alignment explanation
Indices: 3980697--3980766 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 36
3980687 ATAGGTTTTA
*
3980697 TTCTTGTAAAGTGAGAAACTAAAATTAAGGACTTTG
1 TTCTTGTAAAGTAAGAAACTAAAATTAAGGACTTTG
*
3980733 TTCTTGTAAA-TAAGACACTAAAATTAAGGACTTT
1 TTCTTGTAAAGTAAGAAACTAAAATTAAGGACTTT
3980767 TTTTATTGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 22 0.69
36 10 0.31
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (36 bp):
TTCTTGTAAAGTAAGAAACTAAAATTAAGGACTTTG
Found at i:3987441 original size:56 final size:56
Alignment explanation
Indices: 3987380--3987497 Score: 218
Period size: 56 Copynumber: 2.1 Consensus size: 56
3987370 TCGTAATTTC
*
3987380 TCGGCCTTCCGTAAGACTTGGCTTCTGGTTGTATTGTACACAGAGGAAGAGCTATT
1 TCGGCCTTCCGTAAGACTTGGCTTCTGGTTGTATTGTACACAAAGGAAGAGCTATT
*
3987436 TCGGCCTTCCGTAAGACTTGGCTTCTGGTTGTATTGTACATAAAGGAAGAGCTATT
1 TCGGCCTTCCGTAAGACTTGGCTTCTGGTTGTATTGTACACAAAGGAAGAGCTATT
3987492 TCGGCC
1 TCGGCC
3987498 ATAGGATGGA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 60 1.00
ACGTcount: A:0.21, C:0.20, G:0.26, T:0.32
Consensus pattern (56 bp):
TCGGCCTTCCGTAAGACTTGGCTTCTGGTTGTATTGTACACAAAGGAAGAGCTATT
Found at i:3987736 original size:2 final size:2
Alignment explanation
Indices: 3987729--3987786 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
3987719 ATATGAAGAA
3987729 AT AT AT AT AT AT 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 AT AT AT AT AT AT
3987771 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
3987787 GCATATTATT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3994151 original size:2 final size:2
Alignment explanation
Indices: 3994144--3994178 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
3994134 AATTTATTGC
3994144 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3994179 TAAAATATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:3997477 original size:141 final size:147
Alignment explanation
Indices: 3997311--3997573 Score: 403
Period size: 149 Copynumber: 1.8 Consensus size: 147
3997301 TGCTGATCAT
* *
3997311 TTAGGAAGAAACTCATAATTTGT-C-AACTGTAAAATT-ATAT-TA-AAGAGTTCGAT-AAACGA
1 TTAGGAAGAAACTCATAATTTGTACAAACTGTAAAATTAATATGAATAAGAGTTAGATAAAACGA
*
3997370 ACAGAATCAACAGGAGAAATTCTTCAACATACAACTCCAAGATCATAAGCAAACACTTAATCAAT
66 ACAGAATCAACAGGAGAAATTCTTCAACATAAAACTCCAAGATCATAAGCAAACACTTAATCAAT
3997435 AATTCTTCTGATCTCAA
131 AATTCTTCTGATCTCAA
*
3997452 TTAGGAAGAAACTCATAATTTGTCAACAAACTGTGAAATTAATATGAATAAGAGTTAGATAAAAC
1 TTAGGAAGAAACTCATAATTTGT--ACAAACTGTAAAATTAATATGAATAAGAGTTAGATAAAAC
* * *
3997517 GAACAGAATCAATAGGAGAAATTCTTTAACATAAAACTCCAAGATCATGAGCAAACA
64 GAACAGAATCAACAGGAGAAATTCTTCAACATAAAACTCCAAGATCATAAGCAAACA
3997574 GAGAAGAAGA
Statistics
Matches: 107, Mismatches: 7, Indels: 8
0.88 0.06 0.07
Matches are distributed among these distances:
141 23 0.21
144 1 0.01
145 11 0.10
146 4 0.04
147 1 0.01
148 10 0.09
149 57 0.53
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (147 bp):
TTAGGAAGAAACTCATAATTTGTACAAACTGTAAAATTAATATGAATAAGAGTTAGATAAAACGA
ACAGAATCAACAGGAGAAATTCTTCAACATAAAACTCCAAGATCATAAGCAAACACTTAATCAAT
AATTCTTCTGATCTCAA
Found at i:3997821 original size:99 final size:97
Alignment explanation
Indices: 3997577--3997876 Score: 368
Period size: 99 Copynumber: 3.0 Consensus size: 97
3997567 GCAAACAGAG
* *
3997577 AAGAAGATAAACTCTTCAAGGAGAGAAACCATTTACTAATACCGTCTGGATCACCCACAAACCAT
1 AAGAAGATAAACTCTT--AGGAGAGAAACCATTTACTAATACCTTCTGGATCACCAAC-AACCAT
* * **
3997642 ACATTTGAAGGCCAAGTGTTAAAAGTTGAAACATGAAAA
63 ACATTTGAAGACAAAGTGTTAAAACATG--ACA--AAAA
*
3997681 AAGAAGATAAACTC-TAGGAGAGAAACCGTTTACTAATACCTTCTGGATCACCAACAACCATACA
1 AAGAAGATAAACTCTTAGGAGAGAAACCATTTACTAATACCTTCTGGATCACCAACAACCATACA
*
3997745 TTTGAAGACAAAGTGTTAAAACATGACAAAAG
66 TTTGAAGACAAAGTGTTAAAACATGACAAAAA
* * * * *
3997777 AGGAAGAAAAACTCTATACGGAGAGAAACCATTTACTAAAACCTTCTGGATCACCGACACCCATA
1 AAGAAGATAAACTCT-TA-GGAGAGAAACCATTTACTAATACCTTCTGGATCACCAACAACCATA
* * *
3997842 CATTTGAAGACTAAGTGTTGAAACATGACCAAAA
64 CATTTGAAGACAAAGTGTTAAAACATGACAAAAA
3997876 A
1 A
3997877 GCTTGCCCGC
Statistics
Matches: 175, Mismatches: 18, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
96 15 0.09
98 5 0.03
99 73 0.42
100 30 0.17
101 37 0.21
103 1 0.01
104 14 0.08
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.21
Consensus pattern (97 bp):
AAGAAGATAAACTCTTAGGAGAGAAACCATTTACTAATACCTTCTGGATCACCAACAACCATACA
TTTGAAGACAAAGTGTTAAAACATGACAAAAA
Found at i:4003085 original size:67 final size:66
Alignment explanation
Indices: 4002977--4003103 Score: 227
Period size: 67 Copynumber: 1.9 Consensus size: 66
4002967 AAATCTATAA
* *
4002977 AGCCTGAGATAACTTATTATCTTAGGATTTGATTATTATTTGTTTTGTTTTATTAGGATAAACCT
1 AGCCTGAGATAACTTATTATCTTAGGATTTGATTATTATTTGTTTTATCTTATTA-GATAAACCT
4003042 AT
65 AT
4003044 AGCCTGAGATAACTTATTATCTTAGGATTTGATTATTATTTGTTTTATCTTATTAGATAA
1 AGCCTGAGATAACTTATTATCTTAGGATTTGATTATTATTTGTTTTATCTTATTAGATAA
4003104 GGGTAAATAG
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
66 5 0.09
67 53 0.91
ACGTcount: A:0.29, C:0.09, G:0.14, T:0.48
Consensus pattern (66 bp):
AGCCTGAGATAACTTATTATCTTAGGATTTGATTATTATTTGTTTTATCTTATTAGATAAACCTA
T
Found at i:4011538 original size:400 final size:387
Alignment explanation
Indices: 4010760--4011546 Score: 1348
Period size: 400 Copynumber: 2.0 Consensus size: 387
4010750 AAAGTATTCG
*
4010760 CTTGGTCATATGAAGACATGCCAGGTAGATATAGAGTTGGTAGTACACAAGTTACAATAAAGCCA
1 CTTGGTCATATGAAGACATGCCAGGTAGATACAGAGTTGGTAGTACACAAGTTACAATAAAGCCA
4010825 AATGTAAGCCTGTACAACAAAAGCTGAGAAGAACGAGGACCCGAAATATTATAAAATCAAAGAAG
66 AATGTAAGCCTGTACAACAAAAGCTGAGAAGAACGAGGACCCGAAATATTATAAAATCAAAGAAG
*
4010890 AAGTTAAAAAAATTGATGCTGGGTTTCTCAAATTGGCCAGTATCCTGAGTGGGTGGCAAATATTG
131 AAGTTAAAAAAATTGATGCTGGGTTTCTCAAATTGGCCAGTATCCTGAGTGGGTGGAAAATATTG
4010955 TCCATGTACCAAAGAAGGATGGTAAAGTCTGTATGTGTTGACTATGAGATCTCAATAGAGCTAGT
196 TCCATGTACCAAAGAAGGATGGTAAAGTCTGTATGTGTTGACTATGAGATCTCAATAGAGCTAGT
4011020 TCAAATATATTTCCTTTACCACGCATAGACACATTGGTGGATAATACTTCTAAGAATTCTTGTTT
261 TCAAATATATTTCCTTTACCACGCATAGACACATTGGTGGATAATACTTCTAAGAATTCTTGTTT
4011085 TCATTCATGATGGTTTCTTTGGCTATAATCAAATTAAAATGCACCCTGATGATATGGAAAAA
326 TCATTCATGATGGTTTCTTTGGCTATAATCAAATTAAAATGCACCCTGATGATATGGAAAAA
*
4011147 CTTGGTCATATGAAGACATGCCAGGTTTGGATACAGAGTTGGTAGTACACAAGTTACCAATAAAG
1 CTTGGTCATATGAAGACATGCCAGG--TAGATACAGAGTTGGTAGTACACAAGTTA-CAATAAAG
4011212 CCAAAATGTAAGCCTGTACAACAAAAGCTGAGAAGAACGA-GACCCGAAATATTATTAAAAGTCA
63 CC-AAATGTAAGCCTGTACAACAAAAGCTGAGAAGAACGAGGACCCGAAATATTA-TAAAA-TCA
*
4011276 AAGAAGAAGTTAAAAAGAAATTGATGTTGGGTTTCTCAAATTGGCCAAGTATCCTGAGTGGGTGG
125 AAGAAGAAGTT-AAAA-AAATTGATGCTGGGTTTCTCAAATTGGCC-AGTATCCTGAGTGGGTGG
4011341 AAAATA-TGTCCATGTACCAAAGAAGGATGGTAAAGTCTGTATATGTGTTGACTATCGAGATCTC
187 AAAATATTGTCCATGTACCAAAGAAGGATGGTAAAGTCTG--TATGTGTTGACTAT-GAGATCTC
*
4011405 AATAGAGCTAGTTCGAATGATAATTTTCCTTTACCACGCATAGACACATTGGTGGATAATACTTC
249 AATAGAGCTAGTTCAAAT-AT-A-TTTCCTTTACCACGCATAGACACATTGGTGGATAATACTTC
4011470 TAAGAATTCTT-TGTTTCATTCATTGATGGTTTCTTTGGCTATAATCAAATTAAAATGCACCC-G
311 TAAGAATTCTTGT-TTTCATTCA-TGATGGTTTCTTTGGCTATAATCAAATTAAAATGCACCCTG
4011533 ATGATATGGAAAAA
374 ATGATATGGAAAAA
4011547 AATACGTTTG
Statistics
Matches: 378, Mismatches: 5, Indels: 21
0.94 0.01 0.05
Matches are distributed among these distances:
387 25 0.07
389 27 0.07
390 24 0.06
391 42 0.11
392 14 0.04
393 4 0.01
394 61 0.16
395 23 0.06
396 14 0.04
397 25 0.07
398 2 0.01
399 2 0.01
400 76 0.20
401 39 0.10
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.29
Consensus pattern (387 bp):
CTTGGTCATATGAAGACATGCCAGGTAGATACAGAGTTGGTAGTACACAAGTTACAATAAAGCCA
AATGTAAGCCTGTACAACAAAAGCTGAGAAGAACGAGGACCCGAAATATTATAAAATCAAAGAAG
AAGTTAAAAAAATTGATGCTGGGTTTCTCAAATTGGCCAGTATCCTGAGTGGGTGGAAAATATTG
TCCATGTACCAAAGAAGGATGGTAAAGTCTGTATGTGTTGACTATGAGATCTCAATAGAGCTAGT
TCAAATATATTTCCTTTACCACGCATAGACACATTGGTGGATAATACTTCTAAGAATTCTTGTTT
TCATTCATGATGGTTTCTTTGGCTATAATCAAATTAAAATGCACCCTGATGATATGGAAAAA
Found at i:4020896 original size:158 final size:159
Alignment explanation
Indices: 4020608--4020924 Score: 627
Period size: 158 Copynumber: 2.0 Consensus size: 159
4020598 TGACCGGAGA
4020608 CAAGAGCCGGTTCATAGAGCTAAACGACAAAAATGGAGGAGAGGTGACTTTTGGTGATAATTCAA
1 CAAGAGCCGGTTCATAGAGCTAAACGACAAAAATGGAGGAGAGGTGACTTTTGGTGATAATTCAA
4020673 AAGGTCACATTGAAGGTATATGTACTATAGGTAATACCTCTTCCATACAAATTAAAAATGTGTTA
66 AAGGTCACATTGAAGGTATATGTACTATAGGTAATACCTCTTCCATACAAATTAAAAATGTGTTA
4020738 TATGTGAAT-GGTTAAAGCATAATCTCTT
131 TATGTGAATGGGTTAAAGCATAATCTCTT
4020766 CAAGAGCCGGTTCATAGAGCTAAACGACAAAAATGGAGGAGAGGTGACTTTTGGTGATAATTCAA
1 CAAGAGCCGGTTCATAGAGCTAAACGACAAAAATGGAGGAGAGGTGACTTTTGGTGATAATTCAA
4020831 AAGGTCACATTGAAGGTATATGTACTATAGGTAATACCTCTTCCATACAAATTAAAAATGTGTTA
66 AAGGTCACATTGAAGGTATATGTACTATAGGTAATACCTCTTCCATACAAATTAAAAATGTGTTA
4020896 TATGTGAATGGGTTAAAGCATAATCTCTT
131 TATGTGAATGGGTTAAAGCATAATCTCTT
4020925 GAGTATTAGT
Statistics
Matches: 158, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
158 139 0.88
159 19 0.12
ACGTcount: A:0.37, C:0.13, G:0.21, T:0.29
Consensus pattern (159 bp):
CAAGAGCCGGTTCATAGAGCTAAACGACAAAAATGGAGGAGAGGTGACTTTTGGTGATAATTCAA
AAGGTCACATTGAAGGTATATGTACTATAGGTAATACCTCTTCCATACAAATTAAAAATGTGTTA
TATGTGAATGGGTTAAAGCATAATCTCTT
Found at i:4021221 original size:16 final size:15
Alignment explanation
Indices: 4021200--4021229 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
4021190 TTGCCAAAGC
4021200 TAAAATTTGATAATGA
1 TAAAATTTG-TAATGA
4021216 TAAAATTTGTAATG
1 TAAAATTTGTAATG
4021230 CTTGTGCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (15 bp):
TAAAATTTGTAATGA
Found at i:4024035 original size:23 final size:23
Alignment explanation
Indices: 4024009--4024079 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
4023999 GAAAGTGTAC
4024009 CGATGTATTCCTTGAATGTGCAT
1 CGATGTATTCCTTGAATGTGCAT
*
4024032 CGA--TA--CACTATGAATGTGCAC
1 CGATGTATTC-CT-TGAATGTGCAT
* *
4024053 CGATGCATTCCTTGAATGTGTAT
1 CGATGTATTCCTTGAATGTGCAT
4024076 CGAT
1 CGAT
4024080 ACACTCAGCA
Statistics
Matches: 38, Mismatches: 4, Indels: 12
0.70 0.07 0.22
Matches are distributed among these distances:
19 1 0.03
20 2 0.05
21 15 0.39
23 17 0.45
24 2 0.05
25 1 0.03
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (23 bp):
CGATGTATTCCTTGAATGTGCAT
Found at i:4024045 original size:44 final size:44
Alignment explanation
Indices: 4023982--4024084 Score: 170
Period size: 44 Copynumber: 2.3 Consensus size: 44
4023972 TTTGTGCACA
* *
4023982 GTGCATCGATACACTATGAAAGTGTACCGATGTATTCCTTGAAT
1 GTGCATCGATACACTATGAAAGTGCACCGATGCATTCCTTGAAT
*
4024026 GTGCATCGATACACTATGAATGTGCACCGATGCATTCCTTGAAT
1 GTGCATCGATACACTATGAAAGTGCACCGATGCATTCCTTGAAT
*
4024070 GTGTATCGATACACT
1 GTGCATCGATACACT
4024085 CAGCAGTTTA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 55 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (44 bp):
GTGCATCGATACACTATGAAAGTGCACCGATGCATTCCTTGAAT
Found at i:4024047 original size:21 final size:20
Alignment explanation
Indices: 4024019--4024084 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 20
4024009 CGATGTATTC
4024019 CTTGAATGTGCATCGATACA
1 CTTGAATGTGCATCGATACA
* *
4024039 CTATGAATGTGCACCGATGCA
1 CT-TGAATGTGCATCGATACA
*
4024060 TTCCTTGAATGTGTATCGATACA
1 ---CTTGAATGTGCATCGATACA
4024083 CT
1 CT
4024085 CAGCAGTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
20 4 0.11
21 16 0.43
23 15 0.41
24 2 0.05
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (20 bp):
CTTGAATGTGCATCGATACA
Found at i:4026782 original size:17 final size:18
Alignment explanation
Indices: 4026760--4026798 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
4026750 TAAAACATCG
4026760 AATGCAATT-AGTGTACC
1 AATGCAATTGAGTGTACC
*
4026777 AATGCACTTGGAGTGTACC
1 AATGCAATT-GAGTGTACC
4026796 AAT
1 AAT
4026799 ACACTAGGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
19 11 0.58
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (18 bp):
AATGCAATTGAGTGTACC
Found at i:4030406 original size:90 final size:90
Alignment explanation
Indices: 4030253--4030420 Score: 273
Period size: 90 Copynumber: 1.9 Consensus size: 90
4030243 CCTAACATAC
* **
4030253 CCTTTTATAGCCAAGTTACCCTAATCATATTTGGGTTTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGAATTTTATTATTTCAAATTAATTAAATCTAT
4030318 ATTTAATAAATTAGAGTTTAATAAT
66 ATTTAATAAATTAGAGTTTAATAAT
* * *
4030343 CCTTTTATATCCAAGTTACCGTAATCATATTAGGAATTTTATTATTTTAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGAATTTTATTATTTCAAATTAATTAAATCTAT
*
4030408 ATTTAATTAATTA
66 ATTTAATAAATTA
4030421 AAATTAAATA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 71 1.00
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.46
Consensus pattern (90 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATTAGGAATTTTATTATTTCAAATTAATTAAATCTAT
ATTTAATAAATTAGAGTTTAATAAT
Found at i:4037072 original size:90 final size:90
Alignment explanation
Indices: 4036919--4037096 Score: 311
Period size: 90 Copynumber: 2.0 Consensus size: 90
4036909 CCTAACACAC
* *
4036919 CCTTTTATAGCCAAGTTACCCTAATCATATTAGGGTTTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGCTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
*
4036984 ATTTAATTAATTAAAATTTAATAAT
66 ATTTAATTAATTAAAATTAAATAAT
*
4037009 CCTTTTATATCCAAGCTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGCTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
*
4037074 ATTTAATTAATTGAAATTAAATA
66 ATTTAATTAATTAAAATTAAATA
4037097 TTCGGGATTA
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 83 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (90 bp):
CCTTTTATAGCCAAGCTACCCTAATCATATTAGGGATTTTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTAAAATTAAATAAT
Found at i:4038803 original size:137 final size:137
Alignment explanation
Indices: 4038557--4039134 Score: 816
Period size: 137 Copynumber: 4.2 Consensus size: 137
4038547 AACCAAATGC
* *
4038557 CCTCATCACAAAGGAACAATGTCATCCACCGACCAGAACTCCTCACCACGTAGGAGCTGAGTCAT
1 CCTCATCACAAAGGAACAATGTCATCCACCGACCAGAACTCCTCATCACGTAGGAGCCGAGTCAT
* * * * * *
4038622 CCTTAGATAGCCATAATTGCTCATCACAAAGGATTCATGTTATCTCAATTATCTTTAAATATGGC
66 CCTTAGATAGCCAGAATTCCTCATCACGAAGGAATCGTGTTATCTCAATTATCTTTAAAGATGGC
4038687 CAGACGT
131 CAGACGT
* * * *
4038694 CCTCATCACAAAGAAACAATGTCATCCAACAACCAGAACTCCTCATCATGTAGGAGCCGAGTCAT
1 CCTCATCACAAAGGAACAATGTCATCCACCGACCAGAACTCCTCATCACGTAGGAGCCGAGTCAT
4038759 CCTTAGATAGCCAGAATTCCTCATCACGAAGGAATCGTGTTATCTCAATTATCTTTAAAGATGGC
66 CCTTAGATAGCCAGAATTCCTCATCACGAAGGAATCGTGTTATCTCAATTATCTTTAAAGATGGC
4038824 CAGACGT
131 CAGACGT
* * *
4038831 CCTCATCACGAATGAACAATGCCATCCACCGACCAGAACTCCTCATCACGTAGGAGCCGAGTCAT
1 CCTCATCACAAAGGAACAATGTCATCCACCGACCAGAACTCCTCATCACGTAGGAGCCGAGTCAT
** *
4038896 CCTTAGATAGCCAGAATTCCTCATCGTGAAGGAACCGTGTTATCTCAATTATCTTTAAAGATGGC
66 CCTTAGATAGCCAGAATTCCTCATCACGAAGGAATCGTGTTATCTCAATTATCTTTAAAGATGGC
4038961 CAGACGT
131 CAGACGT
* * * * *
4038968 CCTCATCACGAAGGAACAATGTCATCCACCGACCATAACTTCTCATCATGTAGGAGTCGAGTCAT
1 CCTCATCACAAAGGAACAATGTCATCCACCGACCAGAACTCCTCATCACGTAGGAGCCGAGTCAT
* * * * * ** * *
4039033 CCTTTGATAGCCAGAATTCCTTATCGCGTAGGAA-CTGTGTTATCTCAATCATCCCTAAACATGA
66 CCTTAGATAGCCAGAATTCCTCATCACGAAGGAATC-GTGTTATCTCAATTATCTTTAAAGATGG
*
4039097 CCAGACTT
130 CCAGACGT
** *
4039105 CCTCATCATGAAGGAACAATGTCATACACC
1 CCTCATCACAAAGGAACAATGTCATCCACC
4039135 AATTTGATCT
Statistics
Matches: 400, Mismatches: 40, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
136 1 0.00
137 399 1.00
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (137 bp):
CCTCATCACAAAGGAACAATGTCATCCACCGACCAGAACTCCTCATCACGTAGGAGCCGAGTCAT
CCTTAGATAGCCAGAATTCCTCATCACGAAGGAATCGTGTTATCTCAATTATCTTTAAAGATGGC
CAGACGT
Found at i:4039300 original size:3 final size:3
Alignment explanation
Indices: 4039292--4039335 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
4039282 CATCTCGTTT
* * *
4039292 TTA TTA TTA -TA ATA ATA ATA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4039336 CAAATAATAC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:4039457 original size:17 final size:17
Alignment explanation
Indices: 4039435--4039471 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
4039425 GTAGATTTAG
4039435 AACTCGGTCCAAGCCCA
1 AACTCGGTCCAAGCCCA
* *
4039452 AACTCGGTCTAGGCCCA
1 AACTCGGTCCAAGCCCA
4039469 AAC
1 AAC
4039472 GACCCAACAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.30, C:0.38, G:0.19, T:0.14
Consensus pattern (17 bp):
AACTCGGTCCAAGCCCA
Found at i:4042953 original size:16 final size:16
Alignment explanation
Indices: 4042904--4042953 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
4042894 TTTAAGGACT
*
4042904 AAATTG-AATACATATA
1 AAATTGAAATAAAT-TA
* *
4042920 AAAGTGAAAT-ACTTA
1 AAATTGAAATAAATTA
4042935 AAATTGAAATAAATTA
1 AAATTGAAATAAATTA
4042951 AAA
1 AAA
4042954 AAACAGAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
15 11 0.41
16 13 0.48
17 3 0.11
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (16 bp):
AAATTGAAATAAATTA
Found at i:4043054 original size:2 final size:2
Alignment explanation
Indices: 4043049--4043393 Score: 170
Period size: 2 Copynumber: 173.5 Consensus size: 2
4043039 AATAAAAATA
* *
4043049 AT AT AT AT AT AT AT AT AT AT AT A- AT AT A- AGT TT AT AT AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT
* * *
4043090 ACT AT AT AT AT AA ACT AT AT TT AT AT -T AT AA ACT AT AT A- AT
1 A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT AT AT
* * * *
4043131 -T AT -T AT AT GCT AT AT AT AT AA AT -T AT GT TT AT AT GA- ACT
1 AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT -AT A-T
* * * * *
4043170 AT AT AT AT AA ACT AT GT AT AT AA ACT AT AT AT GT AT AA ACT AT
1 AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT A-T AT
* * * * *
4043213 AA AA AGT AT AT AGT TT AT A- AT AT AT AT AT AT AT AA AA ACT AT
1 AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* * * *
4043255 AT A- AA AT AT AT AGT TT AT AA AT -T AT A- AT TT AT AT -T A- AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
4043293 AT AGT AT AT AT AT GT AT GT AT A- ACT A- AT AT A- ACT A- AT AT
1 AT A-T AT AT AT AT AT AT AT AT AT A-T AT AT AT AT A-T AT AT AT
*
4043332 AT AG AT -T AT AT 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 AT AT AT AT AT AT
4043373 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
4043394 GTTTATAGAA
Statistics
Matches: 261, Mismatches: 46, Indels: 72
0.69 0.12 0.19
Matches are distributed among these distances:
1 19 0.07
2 225 0.86
3 17 0.07
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (2 bp):
AT
Found at i:4043097 original size:13 final size:13
Alignment explanation
Indices: 4043052--4043213 Score: 102
Period size: 13 Copynumber: 12.3 Consensus size: 13
4043042 AAAAATAATA
*
4043052 TATATATATATA-
1 TATATATATAAAC
*
4043064 TATATATAATATAAG
1 TATATAT-ATA-AAC
*
4043079 TTTATATATAAAC
1 TATATATATAAAC
4043092 TATATATATAAAC
1 TATATATATAAAC
* *
4043105 TATAT-T-TATAT
1 TATATATATAAAC
*
4043116 TATAAACTATATAA-
1 TATATA-TATA-AAC
**
4043130 T-TAT-TATATGC
1 TATATATATAAAC
*
4043141 TATATATATAAAT
1 TATATATATAAAC
* *
4043154 TATGTTTATATGAAC
1 TA--TATATATAAAC
4043169 TATATATATAAAC
1 TATATATATAAAC
*
4043182 TATGTATATAAAC
1 TATATATATAAAC
4043195 TATATATGTATAAAC
1 TATATA--TATAAAC
4043210 TATA
1 TATA
4043214 AAAAGTATAT
Statistics
Matches: 115, Mismatches: 21, Indels: 25
0.71 0.13 0.16
Matches are distributed among these distances:
11 12 0.10
12 11 0.10
13 57 0.50
14 7 0.06
15 28 0.24
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (13 bp):
TATATATATAAAC
Found at i:4043464 original size:7 final size:7
Alignment explanation
Indices: 4043454--4043495 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
4043444 TTATAGAAAT
4043454 CCTAAAC
1 CCTAAAC
*
4043461 CCTAAAA
1 CCTAAAC
4043468 CCTAAAC
1 CCTAAAC
*
4043475 ACTAAAC
1 CCTAAAC
*
4043482 ACTAAAC
1 CCTAAAC
4043489 CCTAAAC
1 CCTAAAC
4043496 TTTATAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.50, C:0.36, G:0.00, T:0.14
Consensus pattern (7 bp):
CCTAAAC
Found at i:4043481 original size:21 final size:21
Alignment explanation
Indices: 4043455--4043495 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4043445 TATAGAAATC
*
4043455 CTAAACCCTAAAACCTAAACA
1 CTAAACACTAAAACCTAAACA
*
4043476 CTAAACACTAAACCCTAAAC
1 CTAAACACTAAAACCTAAAC
4043496 TTTATAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.51, C:0.34, G:0.00, T:0.15
Consensus pattern (21 bp):
CTAAACACTAAAACCTAAACA
Found at i:4043699 original size:20 final size:19
Alignment explanation
Indices: 4043667--4043716 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 19
4043657 CTTATAGTAC
* *
4043667 ATATATGTATAAACTATGT
1 ATATATATATAAACTATAT
4043686 ATAGTATATATAAACTATAT
1 ATA-TATATATAAACTATAT
4043706 ATATATATATA
1 ATATATATATA
4043717 TAAATAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 11 0.39
20 17 0.61
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (19 bp):
ATATATATATAAACTATAT
Found at i:4043941 original size:20 final size:21
Alignment explanation
Indices: 4043886--4044010 Score: 79
Period size: 20 Copynumber: 6.1 Consensus size: 21
4043876 ACATGTAAAC
*
4043886 TATATATATAACTTATATTATATG
1 TATATATA-AAC-TAT-GTATATG
*
4043910 TATGTATAAACTATGTATA-G
1 TATATATAAACTATGTATATG
* *
4043930 TATATATGAACTA--TACA--
1 TATATATAAACTATGTATATG
*
4043947 TATATATAACCTATAGTATATG
1 TATATATAAACTAT-GTATATG
*
4043969 TATATA-ACAATCTATTTATATG
1 TATATATA-AA-CTATGTATATG
4043991 T-TATATAAACTA--TATATG
1 TATATATAAACTATGTATATG
4044009 TA
1 TA
4044011 ACCTATAGCT
Statistics
Matches: 82, Mismatches: 10, Indels: 23
0.71 0.09 0.20
Matches are distributed among these distances:
17 11 0.13
18 10 0.12
20 18 0.22
21 11 0.13
22 18 0.22
23 7 0.09
24 7 0.09
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.43
Consensus pattern (21 bp):
TATATATAAACTATGTATATG
Found at i:4044115 original size:20 final size:21
Alignment explanation
Indices: 4044090--4044129 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
4044080 TAATTTATAA
4044090 ACTATAT-TTTATATTAATGT
1 ACTATATATTTATATTAATGT
4044110 ACTATATAGTTTATATTAAT
1 ACTATATA-TTTATATTAAT
4044130 TTTAATTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
22 11 0.61
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.53
Consensus pattern (21 bp):
ACTATATATTTATATTAATGT
Found at i:4044235 original size:65 final size:65
Alignment explanation
Indices: 4044121--4044243 Score: 160
Period size: 65 Copynumber: 1.9 Consensus size: 65
4044111 CTATATAGTT
* * * ** *
4044121 TATATTAATTTTAATTATCTTAACTATAATTTATTTTAATATAGTATATAGTTTATAAACTATAC
1 TATATTAATATTAATTATATTAACTATAATTTATTTAAATATACAATATAATTTATAAACTATAC
4044186 TATATTAATATTAATTATATTAACTAT-ATTT-TTATAAACTATACAATATAATTTATAA
1 TATATTAATATTAATTATATTAACTATAATTTATT-TAAA-TATACAATATAATTTATAA
4044244 CATATAGTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
63 2 0.04
64 7 0.14
65 41 0.82
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.50
Consensus pattern (65 bp):
TATATTAATATTAATTATATTAACTATAATTTATTTAAATATACAATATAATTTATAAACTATAC
Found at i:4044357 original size:13 final size:12
Alignment explanation
Indices: 4044333--4044375 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 12
4044323 AAGTTAATAT
4044333 TAATATTAATTA
1 TAATATTAATTA
4044345 TAATATATAATTA
1 TAATAT-TAATTA
4044358 TTTTAATATTAATTA
1 ---TAATATTAATTA
4044373 TAA
1 TAA
4044376 ATAGTTTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 9 0.33
13 6 0.22
15 6 0.22
16 6 0.22
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (12 bp):
TAATATTAATTA
Found at i:4044920 original size:20 final size:21
Alignment explanation
Indices: 4044882--4044921 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
4044872 CAAAATTTTC
*
4044882 TCCCAAGTTCATCTGTATTCA
1 TCCCAAGTTCATATGTATTCA
*
4044903 TCCCAA-TTCATATTTATTC
1 TCCCAAGTTCATATGTATTC
4044922 TTCACAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.25, C:0.28, G:0.05, T:0.42
Consensus pattern (21 bp):
TCCCAAGTTCATATGTATTCA
Found at i:4045182 original size:7 final size:6
Alignment explanation
Indices: 4045170--4045262 Score: 55
Period size: 6 Copynumber: 15.5 Consensus size: 6
4045160 GCCTGAGCCT
* * * * *
4045170 GAACCTC GAACCT GAACCC AAACCC GAACCC AAACCT GAACAC GAACCC
1 GAACC-C GAACCC GAACCC GAACCC GAACCC GAACCC GAACCC GAACCC
* ** * * *
4045219 -AGACCT GAAATC GTACCC GAACCC GAA-CC AAACCC AAACCC GAA
1 GA-ACCC GAACCC GAACCC GAACCC GAACCC GAACCC GAACCC GAA
4045263 TCCAAACCCA
Statistics
Matches: 63, Mismatches: 20, Indels: 7
0.70 0.22 0.08
Matches are distributed among these distances:
5 5 0.08
6 52 0.83
7 6 0.10
ACGTcount: A:0.40, C:0.41, G:0.13, T:0.06
Consensus pattern (6 bp):
GAACCC
Found at i:4045217 original size:12 final size:12
Alignment explanation
Indices: 4045167--4045210 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
4045157 TGAGCCTGAG
*
4045167 CCTGAACCTCGAA
1 CCTGAACC-CAAA
4045180 CCTGAACCCAAA
1 CCTGAACCCAAA
*
4045192 CCCGAACCCAAA
1 CCTGAACCCAAA
4045204 CCTGAAC
1 CCTGAAC
4045211 ACGAACCCAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 20 0.71
13 8 0.29
ACGTcount: A:0.36, C:0.43, G:0.11, T:0.09
Consensus pattern (12 bp):
CCTGAACCCAAA
Found at i:4045236 original size:18 final size:18
Alignment explanation
Indices: 4045194--4045258 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 18
4045184 AACCCAAACC
4045194 CGAACCCAAACCTGAACA
1 CGAACCCAAACCTGAACA
*
4045212 CGAACCCAGACCTGAA-A
1 CGAACCCAAACCTGAACA
* * *
4045229 TCGTACCCGAACCCGAAC-
1 -CGAACCCAAACCTGAACA
*
4045247 CAAACCCAAACC
1 CGAACCCAAACC
4045259 CGAATCCAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
17 10 0.27
18 27 0.73
ACGTcount: A:0.40, C:0.42, G:0.12, T:0.06
Consensus pattern (18 bp):
CGAACCCAAACCTGAACA
Found at i:4045258 original size:17 final size:18
Alignment explanation
Indices: 4045233--4045274 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
4045223 CTGAAATCGT
*
4045233 ACCCGAACCCGAA-CCAA
1 ACCCAAACCCGAATCCAA
4045250 ACCCAAACCCGAATCCAA
1 ACCCAAACCCGAATCCAA
4045268 ACCCAAA
1 ACCCAAA
4045275 TTCAAACTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.45, C:0.45, G:0.07, T:0.02
Consensus pattern (18 bp):
ACCCAAACCCGAATCCAA
Found at i:4048471 original size:12 final size:11
Alignment explanation
Indices: 4048443--4048482 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
4048433 TTGAATTAAC
4048443 TCAAATGTTAT
1 TCAAATGTTAT
*
4048454 TCAAATTTTAT
1 TCAAATGTTAT
4048465 ATCAAATGTTAT
1 -TCAAATGTTAT
*
4048477 TTAAAT
1 TCAAAT
4048483 TATCATTATC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (11 bp):
TCAAATGTTAT
Found at i:4048764 original size:23 final size:24
Alignment explanation
Indices: 4048733--4048786 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 24
4048723 ATATTTTTTC
*
4048733 TTTACATAAATTAAACTGTA-TAA
1 TTTACATAAATTAAACTATATTAA
*
4048756 TTTATATAAATTAAACTATATTAA
1 TTTACATAAATTAAACTATATTAA
4048780 TTTACAT
1 TTTACAT
4048787 TTAATCAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 18 0.67
24 9 0.33
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.44
Consensus pattern (24 bp):
TTTACATAAATTAAACTATATTAA
Found at i:4048875 original size:13 final size:13
Alignment explanation
Indices: 4048843--4048869 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4048833 TAATTTACAT
4048843 TTAAATAATTTTA
1 TTAAATAATTTTA
4048856 TTAAATAATTTTA
1 TTAAATAATTTTA
4048869 T
1 T
4048870 ATAATAGGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATAATTTTA
Found at i:4049842 original size:44 final size:44
Alignment explanation
Indices: 4049787--4049928 Score: 189
Period size: 44 Copynumber: 3.2 Consensus size: 44
4049777 TGTAGAGATT
** *
4049787 TAGCGGCGTTTTTCGGATACAAACACCACAAAAGGAT-TGGTATA
1 TAGCGGCGTTTTTCGGATACAAACACTGCAAAAGG-TCTTGTATA
4049831 TAGCGGCGTTTTT-GGATACAAACACTGCAAAAGGTCTTGTATA
1 TAGCGGCGTTTTTCGGATACAAACACTGCAAAAGGTCTTGTATA
* * * * *
4049874 TAGCGGCATTTGTCGGATATAAACGCTGCTAAAGGTCTTGTATA
1 TAGCGGCGTTTTTCGGATACAAACACTGCAAAAGGTCTTGTATA
4049918 TAGCGGCGTTT
1 TAGCGGCGTTT
4049929 ATCGTATATA
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
42 1 0.01
43 36 0.41
44 50 0.57
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.30
Consensus pattern (44 bp):
TAGCGGCGTTTTTCGGATACAAACACTGCAAAAGGTCTTGTATA
Found at i:4050333 original size:21 final size:21
Alignment explanation
Indices: 4050308--4050356 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
4050298 TGCTGATATG
*
4050308 TTGCTTCTCTCTGTGCTTCCGC
1 TTGCTTCTCTCTCTGCTTCC-C
*
4050330 -TGCTGCTCTCTCTGCTTCCC
1 TTGCTTCTCTCTCTGCTTCCC
4050350 TTGCTTC
1 TTGCTTC
4050357 ATTTTCGGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.00, C:0.39, G:0.16, T:0.45
Consensus pattern (21 bp):
TTGCTTCTCTCTCTGCTTCCC
Found at i:4060393 original size:82 final size:82
Alignment explanation
Indices: 4060306--4060654 Score: 287
Period size: 82 Copynumber: 4.2 Consensus size: 82
4060296 TGTCTTTTGG
* * *
4060306 GGCGTTTGTACAAGAAACGCCACTATTGATTAACACTATTGTGGAGTTTGTCTAAAAACGACGCT
1 GGCGTTTGTACAAGAAACACCACTATTAATTAACCCTATTGTGGAGTTTGTCTAAAAACGACGCT
*
4060371 AAAGTATTATTTATTAC
66 AAAGTATTATTTATTGC
* ** * * * * *
4060388 GGCGTTTGTTCGAA-AAACACCACTA-TAAAAAACCCTATTGCGGTA-TTTTTGCTACAGACGTC
1 GGCGTTTGTAC-AAGAAACACCACTATTAATTAACCCTATTGTGG-AGTTTGT-CTAAAAACGAC
* * * *
4060450 GCAAAATTACTACTCTATTGC
63 GCTAAAGTATTA-TTTATTGC
* * *
4060471 GGCGTTTGTACAAGAAACACCACTATTTATTAACCCTACTGTGGCGTTTGTCTAAAAACGACGCT
1 GGCGTTTGTACAAGAAACACCACTATTAATTAACCCTATTGTGGAGTTTGTCTAAAAACGACGCT
4060536 AAAGTATTATTTATTGC
66 AAAGTATTATTTATTGC
** * * * * * *
4060553 GGCGTTTGTGGTAA-AAACACCGCTA--AATTACTACTCTATTGTAGCGTTTGTGCTAAAAATGC
1 GGCGTTTGT-ACAAGAAACACCACTATTAATTA--ACCCTATTGTGGAGTTTGT-CTAAAAACGA
** * * *
4060615 CTATAAATTACTACTCTATTGC
62 CGCTAAAGTATTA-TTTATTGC
4060637 GGCGTTTGTACAAGAAAC
1 GGCGTTTGTACAAGAAAC
4060655 GCCGCTAAAG
Statistics
Matches: 207, Mismatches: 47, Indels: 24
0.74 0.17 0.09
Matches are distributed among these distances:
80 4 0.02
81 17 0.08
82 82 0.40
83 67 0.32
84 37 0.18
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32
Consensus pattern (82 bp):
GGCGTTTGTACAAGAAACACCACTATTAATTAACCCTATTGTGGAGTTTGTCTAAAAACGACGCT
AAAGTATTATTTATTGC
Found at i:4060577 original size:41 final size:42
Alignment explanation
Indices: 4060341--4060666 Score: 145
Period size: 42 Copynumber: 7.9 Consensus size: 42
4060331 TTGATTAACA
* * *
4060341 CTATTGTGGAGTTTGT-CTAAAAACGACGCTAAAGTATTA-T
1 CTATTGCGGCGTTTGTGCTAAAAACGACGCTAAAGTACTACT
* * * * * ** *
4060381 TTATTACGGCGTTTGTTCGAAAAAC-ACCACTATAA--AAAACC
1 CTATTGCGGCGTTTGTGCTAAAAACGA-CGCTA-AAGTACTACT
** * * * * * *
4060422 CTATTGCGGTATTTTTGCTACAGACGTCGCAAAATTACTACT
1 CTATTGCGGCGTTTGTGCTAAAAACGACGCTAAAGTACTACT
* * ** * *
4060464 CTATTGCGGCGTTTGTAC-AAGAAAC-ACCACT-ATTTATTAACC
1 CTATTGCGGCGTTTGTGCTAA-AAACGA-CGCTAAAGTACT-ACT
* * *
4060506 CTACTGTGGCGTTTGT-CTAAAAACGACGCTAAAGTATTA-T
1 CTATTGCGGCGTTTGTGCTAAAAACGACGCTAAAGTACTACT
* * *
4060546 TTATTGCGGCGTTTGTGGTAAAAAC-ACCGCTAAATTACTACT
1 CTATTGCGGCGTTTGTGCTAAAAACGA-CGCTAAAGTACTACT
** * * ** *
4060588 CTATTGTAGCGTTTGTGCTAAAAATGCCTATAAATTACTACT
1 CTATTGCGGCGTTTGTGCTAAAAACGACGCTAAAGTACTACT
* *
4060630 CTATTGCGGCGTTTGTAC-AAGAAACGCCGCTAAAGTA
1 CTATTGCGGCGTTTGTGCTAA-AAACGACGCTAAAGTA
4060667 TCAATTTGTG
Statistics
Matches: 205, Mismatches: 63, Indels: 34
0.68 0.21 0.11
Matches are distributed among these distances:
40 31 0.15
41 65 0.32
42 109 0.53
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32
Consensus pattern (42 bp):
CTATTGCGGCGTTTGTGCTAAAAACGACGCTAAAGTACTACT
Found at i:4063967 original size:39 final size:39
Alignment explanation
Indices: 4063922--4063997 Score: 134
Period size: 39 Copynumber: 1.9 Consensus size: 39
4063912 CATGTGGTGT
*
4063922 ACACAAAAACAAGCAGTAACACAGATTGAATAGATAATC
1 ACACAAAAACAAGCAGTAACACAAATTGAATAGATAATC
*
4063961 ACACAAAGACAAGCAGTAACACAAATTGAATAGATAA
1 ACACAAAAACAAGCAGTAACACAAATTGAATAGATAA
4063998 CCTTTGTAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.55, C:0.17, G:0.13, T:0.14
Consensus pattern (39 bp):
ACACAAAAACAAGCAGTAACACAAATTGAATAGATAATC
Found at i:4065039 original size:3 final size:3
Alignment explanation
Indices: 4065031--4065060 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4065021 GAGGCTGTTT
4065031 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4065061 ATGTACAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4072989 original size:39 final size:39
Alignment explanation
Indices: 4072922--4072998 Score: 120
Period size: 39 Copynumber: 1.9 Consensus size: 39
4072912 TTATTCCTAT
4072922 AATATTTTTTAATATTTTTTAAGTTAAATAAATAAATATG
1 AATATTTTTTAATATTTTTTAAG-TAAATAAATAAATATG
*
4072962 AATATTTTTTTATATTTTTTTAA-TAAATAAATAAATA
1 AATATTTTTTAATA-TTTTTTAAGTAAATAAATAAATA
4072999 CAATATATGT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
39 14 0.40
40 13 0.37
41 8 0.23
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (39 bp):
AATATTTTTTAATATTTTTTAAGTAAATAAATAAATATG
Found at i:4076058 original size:21 final size:22
Alignment explanation
Indices: 4076032--4076072 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
4076022 CCAGGACAAG
4076032 GAGTATCAGTACT-CCTTTAAT
1 GAGTATCAGTACTACCTTTAAT
*
4076053 GAGTATCGGTACTACCTTTA
1 GAGTATCAGTACTACCTTTA
4076073 TAATTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.37
Consensus pattern (22 bp):
GAGTATCAGTACTACCTTTAAT
Found at i:4080828 original size:236 final size:231
Alignment explanation
Indices: 4080421--4080890 Score: 854
Period size: 236 Copynumber: 2.0 Consensus size: 231
4080411 ATATATTCAT
4080421 ATGCTACTAACATGTTTGTTCATCTTTTTTGAATTCAATTTTTTAAGTGTTATGCTTTTAAAGTC
1 ATGCTACTAACATGTTTGTTCATCTTTTTTGAATTCAATTTTTTAAGTGTTATGCTTTTAAAGTC
4080486 AAATTTTTTGTTTGGAATGCAATTATGGGGGGATCTTTTGATTTTTCAATGATTTATGATACAAT
66 AAATTTTTTGTTTGGAATGCAATTATGGGGGGATCTTTTGATTTTTCAATGATTTATGATACAAT
*
4080551 TTACTACTTACTCTCCATTGTTATTTTTGAACCTTAAAGTTAAATTATTT-TTATAACAAAAAAG
131 TTACTACTTACTCTCCATTGTTATTTTTGAACCTTAAAGTTAAATTATTTAATATAACAAAAAA-
4080615 GGGGGTGAAGTTAGGTTTG-AAAATTCAATTTCAAGA
195 GGGGGTGAAGTTAGGTTTGAAAAATTCAATTTCAAGA
4080651 ATGCTACTAACATGTTTGTTCATCTTTTTTGAAATTCAATTTTTTTAAGTGTTATGCTTTTAAAG
1 ATGCTACTAACATGTTTGTTCATCTTTTTTG-AATTCAA-TTTTTTAAGTGTTATGCTTTTAAAG
4080716 TCAAATTTTTTGTTTGGAATGCAATTATTGAGGGGGATCTTTTGATTTTTCAAATGATTTTATGA
64 TCAAATTTTTTGTTTGGAATGCAATTA-TG-GGGGGATCTTTTGATTTTTC-AATGA-TTTATGA
4080781 TACAATTTACTACTTACTCTCCATTGTTATTTTTGAACCTTAAAGTTAAATTATTTAATATAACA
125 TACAATTTACTACTTACTCTCCATTGTTATTTTTGAACCTTAAAGTTAAATTATTTAATATAACA
4080846 AAAAAGGGGGTGAAGTTAGGTTTGAAAAATTCAATTTCAAGA
190 AAAAAGGGGGTGAAGTTAGGTTTGAAAAATTCAATTTCAAGA
4080888 ATG
1 ATG
4080891 AAAAAGGGAG
Statistics
Matches: 231, Mismatches: 1, Indels: 9
0.96 0.00 0.04
Matches are distributed among these distances:
230 31 0.13
231 7 0.03
232 52 0.23
233 2 0.01
234 20 0.09
235 5 0.02
236 82 0.35
237 32 0.14
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (231 bp):
ATGCTACTAACATGTTTGTTCATCTTTTTTGAATTCAATTTTTTAAGTGTTATGCTTTTAAAGTC
AAATTTTTTGTTTGGAATGCAATTATGGGGGGATCTTTTGATTTTTCAATGATTTATGATACAAT
TTACTACTTACTCTCCATTGTTATTTTTGAACCTTAAAGTTAAATTATTTAATATAACAAAAAAG
GGGGTGAAGTTAGGTTTGAAAAATTCAATTTCAAGA
Found at i:4087196 original size:18 final size:18
Alignment explanation
Indices: 4087169--4087203 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4087159 GTTTTTAAGG
4087169 AGTGGGCATTCGGGACAT
1 AGTGGGCATTCGGGACAT
*
4087187 AGTGGTCATTCGGGACA
1 AGTGGGCATTCGGGACA
4087204 AGTTTAAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.23, C:0.17, G:0.37, T:0.23
Consensus pattern (18 bp):
AGTGGGCATTCGGGACAT
Found at i:4094000 original size:20 final size:21
Alignment explanation
Indices: 4093975--4094019 Score: 83
Period size: 20 Copynumber: 2.2 Consensus size: 21
4093965 TTGAGTTATA
4093975 AAATAATAATTAAATAA-TTT
1 AAATAATAATTAAATAATTTT
4093995 AAATAATAATTAAATAATTTT
1 AAATAATAATTAAATAATTTT
4094016 AAAT
1 AAAT
4094020 TTAAATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAATAATAATTAAATAATTTT
Found at i:4094002 original size:12 final size:11
Alignment explanation
Indices: 4093975--4094012 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
4093965 TTGAGTTATA
4093975 AAATAATAATT
1 AAATAATAATT
4093986 AAATAAT--TT
1 AAATAATAATT
4093995 AAATAATAATT
1 AAATAATAATT
4094006 AAATAAT
1 AAATAAT
4094013 TTTAAATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 9 0.36
11 16 0.64
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
AAATAATAATT
Found at i:4094028 original size:13 final size:13
Alignment explanation
Indices: 4094010--4094034 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4094000 ATAATTAAAT
4094010 AATTTTAAATTTA
1 AATTTTAAATTTA
4094023 AATTTTAAATTT
1 AATTTTAAATTT
4094035 GTATGATATA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
AATTTTAAATTTA
Found at i:4094081 original size:22 final size:24
Alignment explanation
Indices: 4094056--4094103 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 24
4094046 ATATATATAT
* *
4094056 TATACAATTATAGAA-AATTT-AA
1 TATAAAATTATAAAACAATTTGAA
4094078 TATAAAATTATAAAACAATTTGAA
1 TATAAAATTATAAAACAATTTGAA
4094102 TA
1 TA
4094104 CTTGTATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 13 0.59
23 5 0.23
24 4 0.18
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.35
Consensus pattern (24 bp):
TATAAAATTATAAAACAATTTGAA
Found at i:4094700 original size:21 final size:21
Alignment explanation
Indices: 4094659--4094703 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4094649 ACAAAATTAT
*
4094659 TGATGTGACATTTTTCAATGG
1 TGATGTGACATTATTCAATGG
*
4094680 TGATGTGATATTATT-ATATGG
1 TGATGTGACATTATTCA-ATGG
4094701 TGA
1 TGA
4094704 CACATCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.27, C:0.04, G:0.24, T:0.44
Consensus pattern (21 bp):
TGATGTGACATTATTCAATGG
Found at i:4102399 original size:14 final size:16
Alignment explanation
Indices: 4102370--4102401 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
4102360 CGTTCATGAA
4102370 CGTTCGATTATATGTT
1 CGTTCGATTATATGTT
4102386 CGTTC-ATT-TATGTT
1 CGTTCGATTATATGTT
4102400 CG
1 CG
4102402 AACAGAGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 3 0.19
16 5 0.31
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.50
Consensus pattern (16 bp):
CGTTCGATTATATGTT
Found at i:4102706 original size:23 final size:23
Alignment explanation
Indices: 4102666--4102715 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
4102656 GTGTTTGTGT
* **
4102666 TGTTCGTTTATTGTGTTCATTTA
1 TGTTCATTTATTACGTTCATTTA
* *
4102689 TGTTCATTTATTACGTTCGTTTG
1 TGTTCATTTATTACGTTCATTTA
4102712 TGTT
1 TGTT
4102716 TGTTTTCGTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.12, C:0.10, G:0.18, T:0.60
Consensus pattern (23 bp):
TGTTCATTTATTACGTTCATTTA
Found at i:4102727 original size:20 final size:20
Alignment explanation
Indices: 4102702--4102740 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4102692 TCATTTATTA
* *
4102702 CGTTCGTTTGTGTTTGTTTT
1 CGTTCGTTTATGTTCGTTTT
4102722 CGTTCGTTTATGTTCGTTT
1 CGTTCGTTTATGTTCGTTT
4102741 ATCATTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.03, C:0.13, G:0.23, T:0.62
Consensus pattern (20 bp):
CGTTCGTTTATGTTCGTTTT
Found at i:4102817 original size:16 final size:16
Alignment explanation
Indices: 4102796--4102828 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4102786 AAAAAAAATT
*
4102796 TGTTCGTTTATGTTCG
1 TGTTCGTTTACGTTCG
4102812 TGTTCGTTTACGTTCG
1 TGTTCGTTTACGTTCG
4102828 T
1 T
4102829 TTATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.15, G:0.24, T:0.55
Consensus pattern (16 bp):
TGTTCGTTTACGTTCG
Found at i:4105231 original size:35 final size:35
Alignment explanation
Indices: 4105188--4105281 Score: 154
Period size: 35 Copynumber: 2.7 Consensus size: 35
4105178 TGATAATTGT
*
4105188 AAAA-CATCTTATAATTGTAAATATCTAATAACTG
1 AAAATCATCTGATAATTGTAAATATCTAATAACTG
*
4105222 AAAATCATCTGATAAATGTAAATATCTAATAACTG
1 AAAATCATCTGATAATTGTAAATATCTAATAACTG
*
4105257 AAAATCATCTGCTAATTGTAAATAT
1 AAAATCATCTGATAATTGTAAATAT
4105282 ATGATAATAG
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
34 4 0.07
35 51 0.93
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.34
Consensus pattern (35 bp):
AAAATCATCTGATAATTGTAAATATCTAATAACTG
Found at i:4105279 original size:18 final size:18
Alignment explanation
Indices: 4105176--4105313 Score: 113
Period size: 18 Copynumber: 7.8 Consensus size: 18
4105166 TTAATTTATG
*
4105176 TCTGATAATTGTAAAACA
1 TCTGATAATTGTAAATCA
*
4105194 TCTTATAATTGTAAAT-A
1 TCTGATAATTGTAAATCA
* * *
4105211 TCTAATAACTGAAAATCA
1 TCTGATAATTGTAAATCA
*
4105229 TCTGATAAATGTAAAT-A
1 TCTGATAATTGTAAATCA
* * *
4105246 TCTAATAACTGAAAATCA
1 TCTGATAATTGTAAATCA
*
4105264 TCTGCTAATTGTAAAT-A
1 TCTGATAATTGTAAATCA
* * *
4105281 TATGATAATAGTGAAAT-G
1 TCTGATAATTGT-AAATCA
*
4105299 TCTGATAACTGTAAA
1 TCTGATAATTGTAAA
4105314 CATTTAGAAT
Statistics
Matches: 95, Mismatches: 22, Indels: 7
0.77 0.18 0.06
Matches are distributed among these distances:
17 41 0.43
18 54 0.57
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (18 bp):
TCTGATAATTGTAAATCA
Found at i:4105791 original size:16 final size:16
Alignment explanation
Indices: 4105770--4105808 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
4105760 AAATTTGTCT
4105770 GACAGAAGCTGTTTTG
1 GACAGAAGCTGTTTTG
4105786 GACAGAAGCTGTTTTG
1 GACAGAAGCTGTTTTG
4105802 GACAGAA
1 GACAGAA
4105809 TTGCTGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.26
Consensus pattern (16 bp):
GACAGAAGCTGTTTTG
Found at i:4107785 original size:266 final size:265
Alignment explanation
Indices: 4107305--4107836 Score: 1014
Period size: 266 Copynumber: 2.0 Consensus size: 265
4107295 CATCATACAT
4107305 GCTTGAAAATTAATATCAACATCAAAAACATAATAATCTTTCATTAATTCTTCAAACTCTAAAAA
1 GCTTGAAAATTAATATCAACATCAAAAACATAATAATCTTTCATTAATTCTTCAAACTCTAAAAA
4107370 CCCTACATAAACCCTAACCTTCAATCTCAACATATAAGCATCTTCACTATGAAATATGGTACCAA
66 CCCTACATAAACCCTAACCTTCAATCTCAACATATAAGCATCTTCACTATGAAATATGGTACCAA
4107435 AATGATAGAGAATTTCATGTAGATTAATTCTCTATAATAGCTTAATCAAAAAATCAAGTGCATAA
131 AATGATAGAGAATTTCATGTAGATTAATTCTCTATAATAGCTTAATCAAAAAATCAAGTGCATAA
4107500 CTTAAAAAATCAAAAAACAAATTTTTTCTTACCTTGAGCAAGGTGGTTCAGCCAAGATAAGAACA
196 CTTAAAAAATC-AAAAACAAATTTTTTCTTACCTTGAGCAAGGTGGTTCAGCCAAGATAAGAACA
4107565 AGATGC
260 AGATGC
4107571 GCTTGAAAATTAATATCAACATCAAAAACATAATAATCTTTCATTAATTCTTCAAACTCTAAAAA
1 GCTTGAAAATTAATATCAACATCAAAAACATAATAATCTTTCATTAATTCTTCAAACTCTAAAAA
4107636 CCCTACATAAACCCTAACCTTCAATCTCAACATATAAGCATCTTCACTATGAAATATTGGTACC-
66 CCCTACATAAACCCTAACCTTCAATCTCAACATATAAGCATCTTCACTATGAAATA-TGGTACCA
4107700 AAATGATAGAGAATTTCATGTAGATTAATTCTCTATATAATAGCTTAATCAAAAAATCAAGTGCA
130 AAATGATAGAGAATTTCATGTAGATTAATTCTC--TATAATAGCTTAATCAAAAAATCAAGTGCA
4107765 TAACTTAAAAAATC-AAAACAAATTTTTTCTTACCTTGAGCAAGGTGGTTCAGCCAAGATAAGAA
193 TAACTTAAAAAATCAAAAACAAATTTTTTCTTACCTTGAGCAAGGTGGTTCAGCCAAGATAAGAA
4107829 CAAGATGC
258 CAAGATGC
4107837 TGAAAATGGC
Statistics
Matches: 263, Mismatches: 0, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
266 212 0.81
267 7 0.03
268 44 0.17
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.29
Consensus pattern (265 bp):
GCTTGAAAATTAATATCAACATCAAAAACATAATAATCTTTCATTAATTCTTCAAACTCTAAAAA
CCCTACATAAACCCTAACCTTCAATCTCAACATATAAGCATCTTCACTATGAAATATGGTACCAA
AATGATAGAGAATTTCATGTAGATTAATTCTCTATAATAGCTTAATCAAAAAATCAAGTGCATAA
CTTAAAAAATCAAAAACAAATTTTTTCTTACCTTGAGCAAGGTGGTTCAGCCAAGATAAGAACAA
GATGC
Found at i:4110936 original size:2 final size:2
Alignment explanation
Indices: 4110931--4110964 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4110921 TTTTCACCTT
4110931 TA 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 TA
4110965 AACATGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4115749 original size:16 final size:17
Alignment explanation
Indices: 4115719--4115751 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4115709 AGTTTTTAAC
4115719 TGAGAAATTTAAAGATT
1 TGAGAAATTTAAAGATT
*
4115736 TGAG-AATTTGAAGATT
1 TGAGAAATTTAAAGATT
4115752 GTTTCTTATC
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:0.42, C:0.00, G:0.21, T:0.36
Consensus pattern (17 bp):
TGAGAAATTTAAAGATT
Done.