Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 312 of 356
Found at i:101250791 original size:20 final size:20
Alignment explanation
Indices: 101250769--101250852 Score: 77
Period size: 20 Copynumber: 4.3 Consensus size: 20
101250759 TCCGAAATTC
101250769 AAAATATTTATAAAAATTT-
1 AAAATATTTATAAAAATTTA
* ***
101250788 CAAAT-TTTAT-ATTTTTTA
1 AAAATATTTATAAAAATTTA
*
101250806 AAAA-AATTATAAAAATTCTA
1 AAAATATTTATAAAAATT-TA
*
101250826 AAAATATATATAAAAATTTA
1 AAAATATTTATAAAAATTTA
101250846 AAAATAT
1 AAAATAT
101250853 AAATTTTTTT
Statistics
Matches: 49, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
17 4 0.08
18 12 0.24
19 7 0.14
20 15 0.31
21 11 0.22
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAATATTTATAAAAATTTA
Found at i:101250853 original size:20 final size:20
Alignment explanation
Indices: 101250802--101250853 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
101250792 TTTTATATTT
*
101250802 TTTAAAAAAAT-TATAAAAA
1 TTTAAAAATATATATAAAAA
101250821 TTCTAAAAATATATATAAAAA
1 TT-TAAAAATATATATAAAAA
101250842 TTTAAAAATATA
1 TTTAAAAATATA
101250854 AATTTTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 2 0.07
20 18 0.60
21 10 0.33
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
TTTAAAAATATATATAAAAA
Found at i:101255348 original size:17 final size:17
Alignment explanation
Indices: 101255320--101255353 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
101255310 AGGTCACTTT
101255320 ATAAATAATTATCAAAAA
1 ATAAATAATTAT-AAAAA
101255338 ATAAA-AATTATAAAAA
1 ATAAATAATTATAAAAA
101255354 GTTATTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 6 0.38
18 5 0.31
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
ATAAATAATTATAAAAA
Found at i:101260594 original size:19 final size:18
Alignment explanation
Indices: 101260559--101260594 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
101260549 GAAGCAAGCA
*
101260559 ATGATTGAAGAAATCAGG
1 ATGATTGAAAAAATCAGG
101260577 ATGATTGAAAAGAATCAG
1 ATGATTGAAAA-AATCAG
101260595 ACCTGGAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.06, G:0.25, T:0.22
Consensus pattern (18 bp):
ATGATTGAAAAAATCAGG
Found at i:101264835 original size:46 final size:46
Alignment explanation
Indices: 101264783--101264964 Score: 276
Period size: 46 Copynumber: 4.0 Consensus size: 46
101264773 TTTGACATGA
* * * * * *
101264783 TGCCATGGTGTCTTTCAACTATGGTTTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
101264829 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
101264875 TGGCATGGTATCTTTCAACCATGGTTTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
101264921 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
101264965 AGAGCACACT
Statistics
Matches: 125, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
45 4 0.03
46 121 0.97
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:101267384 original size:29 final size:30
Alignment explanation
Indices: 101267334--101267401 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
101267324 CACCGTTAAA
* * *
101267334 ATATTTTCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
101267364 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
101267393 AGTATTTAC
1 A-TATTTAC
101267402 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.04, T:0.49
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:101270524 original size:19 final size:18
Alignment explanation
Indices: 101270481--101270526 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
101270471 TATTAAAAAA
101270481 TAATTTTTTTATAATTTT
1 TAATTTTTTTATAATTTT
*
101270499 GATATTTTTTTCATAATTTT
1 TA-ATTTTTTT-ATAATTTT
101270519 TAATTTTT
1 TAATTTTT
101270527 AAAAAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.04
19 14 0.58
20 9 0.38
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (18 bp):
TAATTTTTTTATAATTTT
Found at i:101273023 original size:23 final size:23
Alignment explanation
Indices: 101272988--101273042 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
101272978 ATTTACAGTT
* *
101272988 TAATTAATTTTAAATTTACATAATA
1 TAATTAA--TTAAATTTAAATAAAA
* *
101273013 TTATTAATTAAGTTTAAATAAAA
1 TAATTAATTAAATTTAAATAAAA
101273036 TAATTAA
1 TAATTAA
101273043 ACTACATGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
23 19 0.76
25 6 0.24
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
TAATTAATTAAATTTAAATAAAA
Found at i:101273176 original size:21 final size:21
Alignment explanation
Indices: 101273146--101273189 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
101273136 TTTATCATTT
101273146 ATTTTCATAT-TAAATAAATAA
1 ATTTTCATATAT-AATAAATAA
* *
101273167 ATTTTTATATATAATATATAA
1 ATTTTCATATATAATAAATAA
101273188 AT
1 AT
101273190 GTAAAATGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
ATTTTCATATATAATAAATAA
Found at i:101278732 original size:47 final size:47
Alignment explanation
Indices: 101278671--101278800 Score: 163
Period size: 47 Copynumber: 2.8 Consensus size: 47
101278661 GTGCGAATAA
* *
101278671 TACCTTGATTTGGCTACGGGCCATGGTATAGGTA-TTCGGAGAGGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGG-GAGAAGT
* * * *
101278718 TACCTTGATTTGGCTATGGGCCATAGTATAAGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGAGAAGT
* * *
101278765 TACCTTAATTTTGCTACGGACCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
101278801 TATCGATTGT
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
47 66 0.94
48 4 0.06
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGGGAGAAGT
Found at i:101281526 original size:25 final size:25
Alignment explanation
Indices: 101281446--101281587 Score: 85
Period size: 25 Copynumber: 5.7 Consensus size: 25
101281436 AGCCACATAG
*
101281446 CGGGAAGCTCATGAGAG-C-TAAGTAA
1 CGGGAAGCTCATGAGAGCCATAA--AT
*** *
101281471 CGGGAAGCTCAT-ACGAGATGTATAT
1 CGGGAAGCTCATGA-GAGCCATAAAT
* * *
101281496 CAGGAAGCTCTTGCGAGCCATAAAT
1 CGGGAAGCTCATGAGAGCCATAAAT
* * *
101281521 CGGGAAACTCAAGAGAGCCATTAAT
1 CGGGAAGCTCATGAGAGCCATAAAT
* *
101281546 AGGGAAGCTCGTGAGAGCCA-AATAT
1 CGGGAAGCTCATGAGAGCCATAA-AT
* *
101281571 CGGGATGCTCAAGAGAG
1 CGGGAAGCTCATGAGAG
101281588 ATGTGGTGTG
Statistics
Matches: 87, Mismatches: 25, Indels: 10
0.71 0.20 0.08
Matches are distributed among these distances:
24 2 0.02
25 83 0.95
27 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.18
Consensus pattern (25 bp):
CGGGAAGCTCATGAGAGCCATAAAT
Found at i:101283909 original size:42 final size:42
Alignment explanation
Indices: 101283845--101284007 Score: 184
Period size: 42 Copynumber: 3.7 Consensus size: 42
101283835 TGAACGTCTC
** * *
101283845 TCGATGCCATAGTTCAACTATGGTTTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACAT-A
* * *
101283888 T-GATGCCATAGCCCAGTTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
*
101283929 TCGATGCCATAGCCTAGCTATGGTCTTACACGTATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC--AT--C-T-TCACATA
101283977 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
101284008 GGAAATCACT
Statistics
Matches: 101, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
41 2 0.02
42 59 0.58
43 1 0.01
44 2 0.02
47 1 0.01
48 36 0.36
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
Found at i:101283987 original size:48 final size:49
Alignment explanation
Indices: 101283915--101284008 Score: 163
Period size: 48 Copynumber: 1.9 Consensus size: 49
101283905 TATGGTCTTA
* *
101283915 CACATATTCATATATCGATGCCATAGCCTAGCTATGGTCTTACACGTAT
1 CACATATTCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAT
101283964 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG
1 CACATATTCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG
101284009 GAAATCACTT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
48 37 0.86
49 6 0.14
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.29
Consensus pattern (49 bp):
CACATATTCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAT
Found at i:101284061 original size:31 final size:31
Alignment explanation
Indices: 101284026--101284143 Score: 191
Period size: 31 Copynumber: 3.8 Consensus size: 31
101284016 CTTGTCACTT
*
101284026 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
101284057 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
101284088 GTAGCAGAAACTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
101284119 GTAGCCGAAGCTATCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
101284144 TGTCATTTGT
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 79 1.00
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:101284221 original size:50 final size:50
Alignment explanation
Indices: 101284119--101284295 Score: 255
Period size: 50 Copynumber: 3.5 Consensus size: 50
101284109 CACTGATCAG
* *
101284119 GTAGCCGAAGCTATCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCTGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* *
101284170 GTAGCTGGAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCTGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* * * *
101284220 GTTGCCGAAGCGATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCTGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* *
101284270 GTAGTTGAAGATATCACTTATCACTT
1 GTAGCTGAAGCTATCACTTATCACTT
101284296 GTTTCCATGG
Statistics
Matches: 110, Mismatches: 16, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
50 87 0.79
51 23 0.21
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (50 bp):
GTAGCTGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:101284653 original size:35 final size:35
Alignment explanation
Indices: 101284601--101284669 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
101284591 GGCATGTGAT
101284601 CAATTTATACACAAGTCATTCATATATTTTTCCTA
1 CAATTTATACACAAGTCATTCATATATTTTTCCTA
**
101284636 CAATTTATACATGAGTCATTCATATATTTTTCCT
1 CAATTTATACACAAGTCATTCATATATTTTTCCT
101284670 CCTCCTCCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (35 bp):
CAATTTATACACAAGTCATTCATATATTTTTCCTA
Found at i:101290249 original size:18 final size:17
Alignment explanation
Indices: 101290222--101290256 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
101290212 AAAATTTGGG
*
101290222 AGAGATTTGAGATGTAAA
1 AGAGAGTTGAGAT-TAAA
101290240 AGAGAGTTGAGATTAAA
1 AGAGAGTTGAGATTAAA
101290257 TTGAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.46, C:0.00, G:0.29, T:0.26
Consensus pattern (17 bp):
AGAGAGTTGAGATTAAA
Found at i:101290421 original size:28 final size:28
Alignment explanation
Indices: 101290381--101290447 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
101290371 AAACGTTTAC
101290381 ATTTTGAAAAAGTTCCTAAATGGAAGCA
1 ATTTTGAAAAAGTTCCTAAATGGAAGCA
101290409 ATTTTGAAAAAGTTCCTAAATGGAAGCA
1 ATTTTGAAAAAGTTCCTAAATGGAAGCA
* *
101290437 TTTTTGTAAAA
1 ATTTTGAAAAA
101290448 TTAACCTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (28 bp):
ATTTTGAAAAAGTTCCTAAATGGAAGCA
Found at i:101298111 original size:18 final size:18
Alignment explanation
Indices: 101298088--101298180 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
101298078 CCCAACTACT
* *
101298088 GTATACGTGAACAGTCCC
1 GTATACGTGAATAGTACC
*
101298106 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
101298124 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
101298142 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
101298160 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
101298178 GTA
1 GTA
101298181 AACGGTCGTA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 68 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:101298146 original size:36 final size:36
Alignment explanation
Indices: 101298088--101298180 Score: 159
Period size: 36 Copynumber: 2.6 Consensus size: 36
101298078 CCCAACTACT
* *
101298088 GTATACGTGAACAGTCCCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
*
101298124 GTATACGTGAATAGTACTGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
101298160 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
101298181 AACGGTCGTA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTGAATAGTGCC
Found at i:101300787 original size:76 final size:76
Alignment explanation
Indices: 101300661--101300814 Score: 308
Period size: 76 Copynumber: 2.0 Consensus size: 76
101300651 AACAGAAAAT
101300661 ATTTAAAACTACAAACTCCTACTAAATTCGAATTAATATCTTGAAACGATGTTATATCCATATGA
1 ATTTAAAACTACAAACTCCTACTAAATTCGAATTAATATCTTGAAACGATGTTATATCCATATGA
101300726 GCAGTGTTCCC
66 GCAGTGTTCCC
101300737 ATTTAAAACTACAAACTCCTACTAAATTCGAATTAATATCTTGAAACGATGTTATATCCATATGA
1 ATTTAAAACTACAAACTCCTACTAAATTCGAATTAATATCTTGAAACGATGTTATATCCATATGA
101300802 GCAGTGTTCCC
66 GCAGTGTTCCC
101300813 AT
1 AT
101300815 AAAAACCTTG
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 78 1.00
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.33
Consensus pattern (76 bp):
ATTTAAAACTACAAACTCCTACTAAATTCGAATTAATATCTTGAAACGATGTTATATCCATATGA
GCAGTGTTCCC
Found at i:101310355 original size:22 final size:23
Alignment explanation
Indices: 101310327--101310374 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
101310317 CTCGATCCTA
*
101310327 TTTT-AAATCTACTCATATTATT
1 TTTTAAAATATACTCATATTATT
* *
101310349 TTTTAAAATATATTTATATTATT
1 TTTTAAAATATACTCATATTATT
101310372 TTT
1 TTT
101310375 AATTTAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTTAAAATATACTCATATTATT
Found at i:101310384 original size:23 final size:24
Alignment explanation
Indices: 101310341--101310392 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
101310331 AAATCTACTC
101310341 ATATTATTTTTTAAAATATATTT-
1 ATATTATTTTTTAAAATATATTTA
**
101310364 ATATTA-TTTTTAATTTAATATTTA
1 ATATTATTTTTTAAAAT-ATATTTA
101310388 ATATT
1 ATATT
101310393 TAATATATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 8 0.32
23 12 0.48
24 5 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
ATATTATTTTTTAAAATATATTTA
Found at i:101312579 original size:30 final size:30
Alignment explanation
Indices: 101312544--101312602 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
101312534 TATAGAAAGA
*
101312544 TAACTTACATTAGTAGATAATCTAAACGCG
1 TAACTTACATTAATAGATAATCTAAACGCG
101312574 TAACTTACATTAATAGATAATCTAAACGC
1 TAACTTACATTAATAGATAATCTAAACGC
101312603 CTCCTTAGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (30 bp):
TAACTTACATTAATAGATAATCTAAACGCG
Found at i:101314948 original size:57 final size:56
Alignment explanation
Indices: 101314843--101314997 Score: 265
Period size: 57 Copynumber: 2.8 Consensus size: 56
101314833 GTTATATTAG
* * *
101314843 GATATTATTATGAGATATTATCTTTTAACAATTTGATTCCTAATGTGATATTATAT
1 GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATGTGATATTATAA
*
101314899 GATATTATTATGGGATATTATCTTTTTAGTAATTTGATTCCTAATGTGATATTATAA
1 GATATTATTATGGGATATTATC-TTTTAGCAATTTGATTCCTAATGTGATATTATAA
101314956 GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTA
1 GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTA
101314998 CGTAACTACT
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
56 40 0.43
57 53 0.57
ACGTcount: A:0.32, C:0.07, G:0.13, T:0.48
Consensus pattern (56 bp):
GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATGTGATATTATAA
Found at i:101318505 original size:156 final size:157
Alignment explanation
Indices: 101318208--101318507 Score: 512
Period size: 156 Copynumber: 1.9 Consensus size: 157
101318198 CCATCATTTG
101318208 TGAGCTCAAGTGGCTGAAGACCTTGCTATTGAGCTTAAATGTTCATCATTCTAAAGTAATTCCTT
1 TGAGCTCAAGTGGCTGAAGACCTTGCTATTGAGCTTAAATGTTCATCATTCTAAAGTAATTCCTT
101318273 TATTTTTGTGATAGTCAATCTGCGCTGCATATTGCACAGAATCCCGTATTTCACGAGCATACTAA
66 TATTTTTGTGATAGTCAATCTGCGCTGCATATTGCACAGAATCCCGTATTTCACGAGCATACTAA
101318338 ACATATTGAAGTGGCTTCCATTACTTA
131 ACATATTGAAGTGGCTTCCATTACTTA
* **
101318365 TGAGCTCAAGTGGCTGAAGGCCTTGCTATTGAGCTTAGGTGTTCATCATTCTAAAGTAATTCCTT
1 TGAGCTCAAGTGGCTGAAGACCTTGCTATTGAGCTTAAATGTTCATCATTCTAAAGTAATTCCTT
* * * **
101318430 TA-TTTTGTGATAGTCAATTTGCGCTGTATATTGCACAGAATCCCTTATTTCACGAGTGTACTAA
66 TATTTTTGTGATAGTCAATCTGCGCTGCATATTGCACAGAATCCCGTATTTCACGAGCATACTAA
*
101318494 ATATATTGAAGTGG
131 ACATATTGAAGTGG
101318508 ATTGTCACTT
Statistics
Matches: 134, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
156 70 0.52
157 64 0.48
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (157 bp):
TGAGCTCAAGTGGCTGAAGACCTTGCTATTGAGCTTAAATGTTCATCATTCTAAAGTAATTCCTT
TATTTTTGTGATAGTCAATCTGCGCTGCATATTGCACAGAATCCCGTATTTCACGAGCATACTAA
ACATATTGAAGTGGCTTCCATTACTTA
Found at i:101318751 original size:13 final size:13
Alignment explanation
Indices: 101318733--101318758 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
101318723 CTAATGGGAA
101318733 ATTATAGGATATT
1 ATTATAGGATATT
101318746 ATTATAGGATATT
1 ATTATAGGATATT
101318759 GTCTTTTAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
ATTATAGGATATT
Found at i:101318873 original size:17 final size:17
Alignment explanation
Indices: 101318851--101318885 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
101318841 TCGGCAATTA
*
101318851 ATAAAATTTTTAAATAT
1 ATAAAATTATTAAATAT
*
101318868 ATAAAATTATTGAATAT
1 ATAAAATTATTAAATAT
101318885 A
1 A
101318886 ATTGAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
ATAAAATTATTAAATAT
Found at i:101319415 original size:24 final size:21
Alignment explanation
Indices: 101319368--101319418 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
101319358 ATTTTTAAAG
101319368 ATTACTTATTTTTATAATTCT
1 ATTACTTATTTTTATAATTCT
*
101319389 ATTACTTATTTTTTTAATTCT
1 ATTACTTATTTTTATAATTCT
*
101319410 AATA-TTATT
1 ATTACTTATT
101319419 AATAAAATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 5 0.18
21 23 0.82
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (21 bp):
ATTACTTATTTTTATAATTCT
Found at i:101319834 original size:7 final size:7
Alignment explanation
Indices: 101319822--101319851 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
101319812 AATGTGTTAA
101319822 AAATTGC
1 AAATTGC
101319829 AAATTGC
1 AAATTGC
101319836 AAATTGC
1 AAATTGC
101319843 AAATTGC
1 AAATTGC
101319850 AA
1 AA
101319852 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (7 bp):
AAATTGC
Found at i:101321615 original size:22 final size:24
Alignment explanation
Indices: 101321590--101321634 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
101321580 TTTTTTACTC
*
101321590 AATTTAA-TA-AAAAATCAAATTA
1 AATTTAATTATAAAAATAAAATTA
101321612 AATTTAATTATAAAAATAAAATT
1 AATTTAATTATAAAAATAAAATT
101321635 TATCAACTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AATTTAATTATAAAAATAAAATTA
Found at i:101321681 original size:3 final size:3
Alignment explanation
Indices: 101321673--101321706 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
101321663 CTCACGACCC
101321673 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
101321707 CAATCACGTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:101324501 original size:73 final size:73
Alignment explanation
Indices: 101324382--101324567 Score: 354
Period size: 73 Copynumber: 2.5 Consensus size: 73
101324372 ACAACTTGAC
101324382 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
101324447 CACTAACA
66 CACTAACA
101324455 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
101324520 CACTAACA
66 CACTAACA
* *
101324528 AACTTAGTTGAAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
101324568 AATAATAATA
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
73 111 1.00
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.28
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:101324576 original size:3 final size:3
Alignment explanation
Indices: 101324568--101324593 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
101324558 ATTACATCCA
101324568 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
101324594 AACATGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:101328929 original size:3 final size:3
Alignment explanation
Indices: 101328921--101328955 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
101328911 ATTACATCCA
101328921 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
101328956 AACATGTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:101330927 original size:3 final size:3
Alignment explanation
Indices: 101330919--101330959 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
101330909 ATCACATGTT
101330919 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
101330960 TGGATGTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:101331038 original size:73 final size:73
Alignment explanation
Indices: 101330960--101331145 Score: 363
Period size: 73 Copynumber: 2.5 Consensus size: 73
101330950 TATTATTATT
*
101330960 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
101331025 ATTTTAAG
66 ATTTTAAG
101331033 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
101331098 ATTTTAAG
66 ATTTTAAG
101331106 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
101331146 GTCAAGTTGT
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 112 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:101335504 original size:73 final size:73
Alignment explanation
Indices: 101335385--101335570 Score: 363
Period size: 73 Copynumber: 2.5 Consensus size: 73
101335375 TATTATTATT
*
101335385 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
101335450 ATTTTAAG
66 ATTTTAAG
101335458 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
101335523 ATTTTAAG
66 ATTTTAAG
101335531 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
101335571 GTCAAGTTGT
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 112 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:101336670 original size:43 final size:44
Alignment explanation
Indices: 101336560--101336688 Score: 136
Period size: 43 Copynumber: 2.9 Consensus size: 44
101336550 TACATATGGG
* * *
101336560 TTCGCATACATAGTTAAAGGGATCACATAGCAGTTTCACATAAGGGA
1 TTCGCATA-ACAGTTAAAGGGATCACATAACAGTTTTAC--AAGGGA
** *
101336607 -TCGCATAACAGTTAGGGGGATCGCATAACAGTTTTACAA-GGA
1 TTCGCATAACAGTTAAAGGGATCACATAACAGTTTTACAAGGGA
* * *
101336649 TTCGCATAACAGCTAAAGGGATCACATAATAGTTCTACAA
1 TTCGCATAACAGTTAAAGGGATCACATAACAGTTTTACAA
101336689 TAGCGTTCGC
Statistics
Matches: 69, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
42 3 0.04
43 35 0.51
45 24 0.35
46 7 0.10
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (44 bp):
TTCGCATAACAGTTAAAGGGATCACATAACAGTTTTACAAGGGA
Found at i:101340019 original size:19 final size:20
Alignment explanation
Indices: 101339968--101340020 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
101339958 TAAAAAATTC
101339968 AAAAATATATATAATCTATAA
1 AAAAATATATA-AATCTATAA
*
101339989 AAAAACATATAAAT-TAT-A
1 AAAAATATATAAATCTATAA
101340007 AAAAATATGATAAA
1 AAAAATAT-ATAAA
101340021 CGAAAAGAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 8 0.28
19 8 0.28
20 3 0.10
21 10 0.34
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (20 bp):
AAAAATATATAAATCTATAA
Found at i:101340090 original size:18 final size:20
Alignment explanation
Indices: 101340067--101340104 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
101340057 AATGTAAAAA
101340067 AAAAC-TTGTAA-AAATTAT
1 AAAACTTTGTAACAAATTAT
101340085 AAAACTTTGTAACAAATTAT
1 AAAACTTTGTAACAAATTAT
101340105 TTAAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 6 0.33
20 7 0.39
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (20 bp):
AAAACTTTGTAACAAATTAT
Found at i:101340139 original size:20 final size:20
Alignment explanation
Indices: 101340116--101340165 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
101340106 TAAAATTTAC
*
101340116 TAAAAATATAAAAAAAGTTG
1 TAAAAATATAAAAAAAGTTA
* ** *
101340136 TAAATATATTTAAAAATTTA
1 TAAAAATATAAAAAAAGTTA
101340156 TAAAAATATA
1 TAAAAATATA
101340166 TTTAAAATTT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (20 bp):
TAAAAATATAAAAAAAGTTA
Found at i:101340180 original size:20 final size:22
Alignment explanation
Indices: 101340084--101340183 Score: 81
Period size: 21 Copynumber: 4.8 Consensus size: 22
101340074 GTAAAAATTA
* *
101340084 TAAAACTTTGTAACAAAT-TATT
1 TAAAAATTTATAA-AAATATATT
101340106 T-AAAATTTACTAAAAATATA--
1 TAAAAATTTA-TAAAAATATATT
* * *
101340126 AAAAAAGTTGT--AAATATATT
1 TAAAAATTTATAAAAATATATT
101340146 TAAAAATTTATAAAAATATATT
1 TAAAAATTTATAAAAATATATT
101340168 T-AAAATTTA-AAAAATA
1 TAAAAATTTATAAAAATA
101340184 GATACCTGAT
Statistics
Matches: 63, Mismatches: 8, Indels: 16
0.72 0.09 0.18
Matches are distributed among these distances:
18 7 0.11
20 16 0.25
21 24 0.38
22 16 0.25
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (22 bp):
TAAAAATTTATAAAAATATATT
Found at i:101342141 original size:27 final size:26
Alignment explanation
Indices: 101342061--101342141 Score: 67
Period size: 27 Copynumber: 3.0 Consensus size: 26
101342051 TCTACTTTGC
* *
101342061 AAAAATTAG-AAAATATGTTTGATAAAT
1 AAAAA-TAGAAAAATAT-TTTCAAAAAT
** *
101342088 AAAAATAGAAATTTATTTTCAATAAT
1 AAAAATAGAAAAATATTTTCAAAAAT
101342114 AAAAATAGTAAAAATATTCTT-AAAAAT
1 AAAAATAG-AAAAATATT-TTCAAAAAT
101342141 A
1 A
101342142 TAAGAAAAAG
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
26 18 0.42
27 23 0.53
28 2 0.05
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.33
Consensus pattern (26 bp):
AAAAATAGAAAAATATTTTCAAAAAT
Found at i:101342565 original size:26 final size:26
Alignment explanation
Indices: 101342535--101342585 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
101342525 TCATTAGAAG
*
101342535 TAGATCTTTATTCCATTTATATTTCA
1 TAGATCTCTATTCCATTTATATTTCA
*
101342561 TAGATCTCTATTCTATTTATATTTC
1 TAGATCTCTATTCCATTTATATTTC
101342586 TTATACCTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.16, G:0.04, T:0.55
Consensus pattern (26 bp):
TAGATCTCTATTCCATTTATATTTCA
Found at i:101350537 original size:42 final size:42
Alignment explanation
Indices: 101350472--101350560 Score: 142
Period size: 42 Copynumber: 2.1 Consensus size: 42
101350462 TCCTAATTGG
*
101350472 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAATATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
* *
101350514 GAAAATAGTTCCCTTCTTTTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
*
101350556 TAAAA
1 GAAAA
101350561 ATATTCATAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.51, C:0.13, G:0.06, T:0.30
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
Found at i:101354982 original size:26 final size:26
Alignment explanation
Indices: 101354936--101354987 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
101354926 TTCAAAAGTG
*
101354936 AAAAAATATGTTTAATAAATGGAAAT
1 AAAAAATATGTTTAATAAATGAAAAT
101354962 AAAAAAT-TGTTTTCAAT-AATGAAAAT
1 AAAAAATATG-TTT-AATAAATGAAAAT
101354988 CGTGAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
25 2 0.09
26 18 0.78
27 3 0.13
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.33
Consensus pattern (26 bp):
AAAAAATATGTTTAATAAATGAAAAT
Found at i:101356979 original size:11 final size:12
Alignment explanation
Indices: 101356957--101356981 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
101356947 TAATTCGAAG
101356957 TTGAATTTTTTT
1 TTGAATTTTTTT
101356969 TTGAATTTTTTT
1 TTGAATTTTTTT
101356981 T
1 T
101356982 ATAAACATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (12 bp):
TTGAATTTTTTT
Found at i:101367611 original size:24 final size:24
Alignment explanation
Indices: 101367543--101367611 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
101367533 TTGATAGTTT
*
101367543 TAAAATTGATAAGTTATACCATATTTG
1 TAAATTTGATAAGTTAT---ATATTTG
* *
101367570 TAATTTTGA-AATGGTATATATTTG
1 TAAATTTGATAA-GTTATATATTTG
101367594 TAAATTTGATAAGTTATA
1 TAAATTTGATAAGTTATA
101367612 CCATATTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
24 20 0.57
25 2 0.06
26 2 0.06
27 11 0.31
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (24 bp):
TAAATTTGATAAGTTATATATTTG
Found at i:101367640 original size:51 final size:51
Alignment explanation
Indices: 101367543--101367645 Score: 152
Period size: 51 Copynumber: 2.0 Consensus size: 51
101367533 TTGATAGTTT
* * **
101367543 TAAAATTGATAAGTTATACCATATTTGTAATTTTGAAATGGTATATATTTG
1 TAAAATTGATAAGTTATACCATATTTATAATTATGAAATGACATATATTTG
* *
101367594 TAAATTTGATAAGTTATACCATATTTATAATTATGAAATTACATATATTTG
1 TAAAATTGATAAGTTATACCATATTTATAATTATGAAATGACATATATTTG
101367645 T
1 T
101367646 TGAAGAAATT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.46
Consensus pattern (51 bp):
TAAAATTGATAAGTTATACCATATTTATAATTATGAAATGACATATATTTG
Found at i:101387009 original size:16 final size:16
Alignment explanation
Indices: 101386988--101387018 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
101386978 GATAATAAGT
101386988 AAACATAACATATATG
1 AAACATAACATATATG
*
101387004 AAACATAGCATATAT
1 AAACATAACATATAT
101387019 TAAGAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.13, G:0.06, T:0.26
Consensus pattern (16 bp):
AAACATAACATATATG
Found at i:101392021 original size:13 final size:13
Alignment explanation
Indices: 101392003--101392029 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
101391993 AGAAGTAAGC
101392003 TTCTAAAGCTTAG
1 TTCTAAAGCTTAG
101392016 TTCTAAAGCTTAG
1 TTCTAAAGCTTAG
101392029 T
1 T
101392030 AAGTTCACAT
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTCTAAAGCTTAG
Found at i:101392509 original size:53 final size:54
Alignment explanation
Indices: 101392439--101392646 Score: 224
Period size: 53 Copynumber: 3.9 Consensus size: 54
101392429 TTTCCTTTTT
* *
101392439 GAACTTACCATTGCCATGTCTTGACATGGTCTTA-AGTGGTATCCTTGCCTTAT-
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACA-TGGTATCCTTGCCTTATA
* * * *
101392492 GAACTCACCAATACCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATA
* ** * * * *
101392546 GTAACTTATCAATGCCATATCTTGACATGGTCTTACATGATTTACTTTCCTTATA
1 G-AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * *
101392601 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
101392647 ATCTTACCAA
Statistics
Matches: 128, Mismatches: 22, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
52 2 0.02
53 42 0.33
54 42 0.33
55 41 0.32
56 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (54 bp):
GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:101392578 original size:108 final size:109
Alignment explanation
Indices: 101392440--101392638 Score: 285
Period size: 108 Copynumber: 1.8 Consensus size: 109
101392430 TTCCTTTTTG
* * * *
101392440 AACTTACCATTGCCATGTCTTGACATGGTCTTA-AGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 AACTTACCAATGCCATATCTTGACATGGTCTTACA-TGATATACTTGCCTTATAGAACTCACCAA
101392503 TACCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TACCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * * * *
101392548 AACTTATCAATGCCATATCTTGACATGGTCTTACATGATTTACTTTCCTTATAGAACTTATCAAT
1 AACTTACCAATGCCATATCTTGACATGGTCTTACATGATATACTTGCCTTATAGAACTCACCAAT
*
101392613 GCCATGCCTTGGCATGGTCTTACATG
66 ACCATGCCTTGGCATGGTCTTACATG
101392639 ATATCCTTAT
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
108 43 0.54
109 36 0.46
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.36
Consensus pattern (109 bp):
AACTTACCAATGCCATATCTTGACATGGTCTTACATGATATACTTGCCTTATAGAACTCACCAAT
ACCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:101392579 original size:55 final size:54
Alignment explanation
Indices: 101392425--101392638 Score: 213
Period size: 54 Copynumber: 4.0 Consensus size: 54
101392415 TTATTCAAGA
* * * * *
101392425 ACCTTTTCCTTTTTGAACTTACCATTGCCATGTCTTGACATGGTCTTA-AGTGGT
1 ACCTTTGCCTTATAGAACTTACCAATGCCATGCCTTGACATGGTCTTACA-TGGT
* * * *
101392479 ATCC-TTGCCTTAT-GAACTCACCAATACCATGCCTTGGCATGGTCTTACATGGG
1 A-CCTTTGCCTTATAGAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGT
* ** *
101392532 ACCTTTGCCTTATAGTAACTTATCAATGCCATATCTTGACATGGTCTTACATGATTT
1 ACCTTTGCCTTATAG-AACTTACCAATGCCATGCCTTGACATGGTCTTACATG--GT
* *
101392589 A-CTTT-CCTTATAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATG
1 ACCTTTGCCTTATAGAACTTACCAATGCCATGCCTTGACATGGTCTTACATG
101392639 ATATCCTTAT
Statistics
Matches: 134, Mismatches: 19, Indels: 14
0.80 0.11 0.08
Matches are distributed among these distances:
52 2 0.01
53 42 0.31
54 44 0.33
55 41 0.31
56 4 0.03
57 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.16, T:0.37
Consensus pattern (54 bp):
ACCTTTGCCTTATAGAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGT
Found at i:101392680 original size:47 final size:47
Alignment explanation
Indices: 101392625--101392746 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
101392615 CATGCCTTGG
* * *
101392625 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCAAGTTCCAAA
101392672 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCAAGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCAAGTTCCAAA
*
101392719 CATAGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
101392747 GTGTCAATGC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCAAGTTCCAAA
Found at i:101392962 original size:44 final size:44
Alignment explanation
Indices: 101392886--101392969 Score: 114
Period size: 44 Copynumber: 1.9 Consensus size: 44
101392876 TCCTTAGCCG
* **
101392886 TCAATTCCTCCTTAAATGCCATGTTATGACCATGGACTTTTCCA
1 TCAATTCCTCCTTAAATGCCATGCTACAACCATGGACTTTTCCA
* * *
101392930 TCAATTCTTCCTTAATTGCCATGCTACAACCATGGGCTTT
1 TCAATTCCTCCTTAAATGCCATGCTACAACCATGGACTTT
101392970 GAGATATCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.37
Consensus pattern (44 bp):
TCAATTCCTCCTTAAATGCCATGCTACAACCATGGACTTTTCCA
Found at i:101393551 original size:30 final size:31
Alignment explanation
Indices: 101393508--101393565 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
101393498 CTAACTCAAA
101393508 CTTTGGCAAAATTATAATTTTACCCCTAAAC
1 CTTTGGCAAAATTATAATTTTACCCCTAAAC
* *
101393539 CTTT-GCAGAATTATAATTTTGCCCCTA
1 CTTTGGCAAAATTATAATTTTACCCCTA
101393566 GGCTCAGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (31 bp):
CTTTGGCAAAATTATAATTTTACCCCTAAAC
Found at i:101395004 original size:29 final size:29
Alignment explanation
Indices: 101394971--101395026 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
101394961 AATTTTTAGT
101394971 ATATTCATCCATGACACAAATTTCATAGC
1 ATATTCATCCATGACACAAATTTCATAGC
101395000 ATATTCATCCATGACACAAATTTCATA
1 ATATTCATCCATGACACAAATTTCATA
101395027 CCTTGATAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.32
Consensus pattern (29 bp):
ATATTCATCCATGACACAAATTTCATAGC
Found at i:101400335 original size:18 final size:19
Alignment explanation
Indices: 101400313--101400387 Score: 55
Period size: 19 Copynumber: 3.8 Consensus size: 19
101400303 TAAGCATAAG
*
101400313 AAAAATAAAACAAATA-ATT
1 AAAAATAAAA-AAATAGATA
*
101400332 AAAAATAAGAAAATAGATAA
1 AAAAATAAAAAAATAGAT-A
*
101400352 AAATAATATAACAAATA-ATA
1 AAA-AATA-AAAAAATAGATA
*
101400372 AATAAATAATAAAATA
1 AA-AAATAAAAAAATA
101400388 AAATAAAGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
18 5 0.11
19 17 0.38
20 10 0.22
21 7 0.16
22 6 0.13
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.21
Consensus pattern (19 bp):
AAAAATAAAAAAATAGATA
Found at i:101400368 original size:40 final size:41
Alignment explanation
Indices: 101400308--101400387 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 41
101400298 AAATTTAAGC
*
101400308 ATAAGAAAAATAAAACAAATAATTAA-AAATAAGAAAATAG
1 ATAAGAAAAATAAAACAAATAATAAATAAATAAGAAAATAG
* *
101400348 ATAA-AAATAATATAACAAATAATAAATAAATAATAAAATA
1 ATAAGAAA-AATAAAACAAATAATAAATAAATAAGAAAATA
101400388 AAATAAAGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
39 3 0.09
40 20 0.57
41 12 0.34
ACGTcount: A:0.72, C:0.03, G:0.04, T:0.21
Consensus pattern (41 bp):
ATAAGAAAAATAAAACAAATAATAAATAAATAAGAAAATAG
Found at i:101400690 original size:30 final size:30
Alignment explanation
Indices: 101400634--101400690 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
101400624 GCCCAATCTT
**
101400634 CACACGGCCATGTGTCCAAGTTGTGTGGCA
1 CACACGGCCATGTGTCCAAGCCGTGTGGCA
101400664 CACACGGCCATGTGTCCAAGCCGTGTG
1 CACACGGCCATGTGTCCAAGCCGTGTG
101400691 ATCTCCTTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.19, C:0.30, G:0.30, T:0.21
Consensus pattern (30 bp):
CACACGGCCATGTGTCCAAGCCGTGTGGCA
Found at i:101407175 original size:35 final size:35
Alignment explanation
Indices: 101407136--101407202 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
101407126 GTTTTTAGGG
*
101407136 TTAGGGTTTTGCTAAAATAAGTTAAGGTTTAGTGT
1 TTAGGGTTTTGCTAAAACAAGTTAAGGTTTAGTGT
* * *
101407171 TTAGGTTTTTGTTAAAACAAGTTAGGGTTTAG
1 TTAGGGTTTTGCTAAAACAAGTTAAGGTTTAG
101407203 AATTTTAGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.28, C:0.03, G:0.25, T:0.43
Consensus pattern (35 bp):
TTAGGGTTTTGCTAAAACAAGTTAAGGTTTAGTGT
Found at i:101407317 original size:35 final size:34
Alignment explanation
Indices: 101407260--101407389 Score: 153
Period size: 35 Copynumber: 3.9 Consensus size: 34
101407250 AAAAATTATT
* *
101407260 TAAATTAAGG-TTTATGGTTTTTAAATAAATTAAG
1 TAAATTAGGGTTTTA-GGGTTTTAAATAAATTAAG
*
101407294 TAAATTAGGGGTTTTAAGGTTTTAAATAAATTAAGG
1 TAAATTA-GGGTTTTAGGGTTTTAAATAAATTAA-G
*
101407330 T---TTA-GGATTTAGGGTTTTTAAATAAATTAAG
1 TAAATTAGGGTTTTAGGG-TTTTAAATAAATTAAG
101407361 TAAATTAGGGTTTTAGGGTTTTAAATAAA
1 TAAATTAGGGTTTTAGGGTTTTAAATAAA
101407390 CTAAATTAGG
Statistics
Matches: 82, Mismatches: 6, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
31 10 0.12
32 15 0.18
33 3 0.04
34 21 0.26
35 27 0.33
36 6 0.07
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.42
Consensus pattern (34 bp):
TAAATTAGGGTTTTAGGGTTTTAAATAAATTAAG
Found at i:101407417 original size:21 final size:22
Alignment explanation
Indices: 101407373--101407424 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
101407363 AATTAGGGTT
101407373 TTAGGGTTTTAAATAAACTAAA
1 TTAGGGTTTTAAATAAACTAAA
*
101407395 TTAGGGTTTTAAA-AAATTAAA
1 TTAGGGTTTTAAATAAACTAAA
*
101407416 TTAAGGTTT
1 TTAGGGTTT
101407425 ATGGTTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 15 0.54
22 13 0.46
ACGTcount: A:0.42, C:0.02, G:0.15, T:0.40
Consensus pattern (22 bp):
TTAGGGTTTTAAATAAACTAAA
Found at i:101407442 original size:30 final size:29
Alignment explanation
Indices: 101407259--101407495 Score: 121
Period size: 34 Copynumber: 7.7 Consensus size: 29
101407249 TAAAAATTAT
*
101407259 TTAAATTAAGGTTTATGGTTTTTAAATAAA
1 TTAAATTAAGGTTTAAGG-TTTTAAATAAA
*
101407289 TTAAGTAAATTAGGGGTTTTAAGGTTTTAAATAAA
1 -T---TAAATTA-AGG-TTTAAGGTTTTAAATAAA
* * *
101407324 TTAAGGTTTAGGATTTAGGGTTTTTAAATAAA
1 TTAA-ATTAAGG-TTTAAGG-TTTTAAATAAA
* *
101407356 TTAAGTAAATTAGGGTTTTAGGGTTTTAAATAAA
1 -T---TAAATTAAGG-TTTAAGGTTTTAAATAAA
*
101407390 CTAAATT-A-G-----GGTTTTAAA-AAA
1 TTAAATTAAGGTTTAAGGTTTTAAATAAA
*
101407411 TTAAATTAAGGTTTATGGTTATTAAATAAA
1 TTAAATTAAGGTTTAAGGTT-TTAAATAAA
* *
101407441 TTAAGTAATTTAGAGTTCTAGGGTTTTAAATAAA
1 TT-A--AATTAAG-GTT-TAAGGTTTTAAATAAA
*
101407475 TTAAATTAGGGTTTAAGGTTT
1 TTAAATTAAGGTTTAAGGTTT
101407496 AAGGTTAAAT
Statistics
Matches: 162, Mismatches: 19, Indels: 52
0.70 0.08 0.22
Matches are distributed among these distances:
21 9 0.06
22 10 0.06
23 1 0.01
28 5 0.03
29 12 0.07
30 14 0.09
31 18 0.11
32 13 0.08
33 8 0.05
34 33 0.20
35 30 0.19
36 9 0.06
ACGTcount: A:0.39, C:0.01, G:0.18, T:0.42
Consensus pattern (29 bp):
TTAAATTAAGGTTTAAGGTTTTAAATAAA
Found at i:101407445 original size:85 final size:88
Alignment explanation
Indices: 101407311--101407488 Score: 263
Period size: 85 Copynumber: 2.1 Consensus size: 88
101407301 GGGGTTTTAA
* * * * *
101407311 GGTTTTAAATAAATTAAGGTTTAGGATTTAGGGTTTTTAAATAAATTAAGTAAATTAGGGTTTTA
1 GGTTTTAAATAAATTAAGATTAAGGATTTAGGGTTATTAAATAAATTAAGTAAATTAGAGTTCTA
101407376 GGGTTTTAAATAAACTAAATTAG
66 GGGTTTTAAATAAACTAAATTAG
* *
101407399 GGTTTTAAA-AAATTAA-ATTAAGG-TTTATGGTTATTAAATAAATTAAGTAATTTAGAGTTCTA
1 GGTTTTAAATAAATTAAGATTAAGGATTTAGGGTTATTAAATAAATTAAGTAAATTAGAGTTCTA
*
101407461 GGGTTTTAAATAAATTAAATTAG
66 GGGTTTTAAATAAACTAAATTAG
101407484 GGTTT
1 GGTTT
101407489 AAGGTTTAAG
Statistics
Matches: 82, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
85 61 0.74
86 5 0.06
87 7 0.09
88 9 0.11
ACGTcount: A:0.39, C:0.01, G:0.18, T:0.42
Consensus pattern (88 bp):
GGTTTTAAATAAATTAAGATTAAGGATTTAGGGTTATTAAATAAATTAAGTAAATTAGAGTTCTA
GGGTTTTAAATAAACTAAATTAG
Found at i:101407877 original size:126 final size:126
Alignment explanation
Indices: 101407586--101408092 Score: 759
Period size: 126 Copynumber: 4.0 Consensus size: 126
101407576 ATTTTTATCT
* * *
101407586 TGAAAAAATAATTTTAAGAAGACGTTTCTGAACAAATAATGTCAAAAACGCTTCAAGCAGGATGC
1 TGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGCAGGATGC
* * * *
101407651 ACTGTCAGCAAAAATACAGAAAAAATGCTCCCATGTGGAAGCTCTTTTTCTACAGTAGTT-A
66 ACTGTCAGCAAAATTATAGAAAAAA-GCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCA
* *
101407712 CTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGTAGGATG
1 -TGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGCAGGATG
* * * * *
101407777 CACTATCAGCAAAATTATGGAAAAAAGCTACCACGTGGTCCCTCTTTTTCTACAGTAGTTCA
65 CACTGTCAGCAAAATTATAGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCA
*
101407839 TGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAATACTTCAAGCAGGATGC
1 TGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGCAGGATGC
*
101407904 ACTGTCAGCAAAATTATAGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCC
66 ACTGTCAGCAAAATTATAGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCA
* * * *
101407965 T-AAAAAATAATTTAGAGAAGATGTTTCTGAACAAATAGTGCCAAAAAAACTTCAAGCAGGATGC
1 TGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGCAGGATGC
* * *
101408029 AATGTCAGCAAAATTTCTA-AAAAAAGCTCCCATGTGGACGCTCTTTTTCTACAGTAGTTCA
66 ACTGTCAGCAAAA-TTATAGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCA
101408090 TGA
1 TGA
101408093 TCAGCCTTAG
Statistics
Matches: 348, Mismatches: 29, Indels: 7
0.91 0.08 0.02
Matches are distributed among these distances:
125 112 0.32
126 152 0.44
127 84 0.24
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (126 bp):
TGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGCAGGATGC
ACTGTCAGCAAAATTATAGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCA
Found at i:101408078 original size:251 final size:253
Alignment explanation
Indices: 101407586--101408092 Score: 777
Period size: 251 Copynumber: 2.0 Consensus size: 253
101407576 ATTTTTATCT
*
101407586 TGAAAAAATAATTTTAAGAAGACGTTTCTGAACAAATAATGTCAAAAACGCTTCAAGCAGGATGC
1 TGAAAAAATAATTTTAAGAAGACGTTTCTGAACAAATAATGTCAAAAACACTTCAAGCAGGATGC
*
101407651 ACTGTCAGCAAAAATACAGAAAAAATGCTCCCATGTGGAAGCTCTTTTTCTACAGTAGTTACTGA
66 ACTGTCAGCAAAAATACAGAAAAAATGCTCCCACGTGGAAGCTCTTTTTCTACAGTAGTTACTGA
* * ** * *
101407716 AAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGTAGGATGCACT
131 AAAAATAATTTAGAGAAGACGTTTCTGAACAAATAGTGCCAAAAAAACTTCAAGCAGGATGCAAT
* *
101407781 ATCAGCAAAATTATGGAAAAAAGCTACCACGTGGTCCCTCTTTTTCTACAGTAGTTCA
196 ATCAGCAAAATTATGAAAAAAAGCTACCACGTGGACCCTCTTTTTCTACAGTAGTTCA
* * *
101407839 TGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAATACTTCAAGCAGGATGC
1 TGAAAAAATAATTTTAAGAAGACGTTTCTGAACAAATAATGTCAAAAACACTTCAAGCAGGATGC
* * * *
101407904 ACTGTCAGCAAAATTATAGAAAAAA-GCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTCCT-A
66 ACTGTCAGCAAAAATACAGAAAAAATGCTCCCACGTGGAAGCTCTTTTTCTACAGTAGTTACTGA
*
101407967 AAAAATAATTTAGAGAAGATGTTTCTGAACAAATAGTGCCAAAAAAACTTCAAGCAGGATGCAAT
131 AAAAATAATTTAGAGAAGACGTTTCTGAACAAATAGTGCCAAAAAAACTTCAAGCAGGATGCAAT
* * * * *
101408032 GTCAGCAAAATT-TCTAAAAAAAGCTCCCATGTGGACGCTCTTTTTCTACAGTAGTTCA
196 ATCAGCAAAATTAT-GAAAAAAAGCTACCACGTGGACCCTCTTTTTCTACAGTAGTTCA
101408090 TGA
1 TGA
101408093 TCAGCCTTAG
Statistics
Matches: 230, Mismatches: 23, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
250 1 0.00
251 111 0.48
252 34 0.15
253 84 0.37
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (253 bp):
TGAAAAAATAATTTTAAGAAGACGTTTCTGAACAAATAATGTCAAAAACACTTCAAGCAGGATGC
ACTGTCAGCAAAAATACAGAAAAAATGCTCCCACGTGGAAGCTCTTTTTCTACAGTAGTTACTGA
AAAAATAATTTAGAGAAGACGTTTCTGAACAAATAGTGCCAAAAAAACTTCAAGCAGGATGCAAT
ATCAGCAAAATTATGAAAAAAAGCTACCACGTGGACCCTCTTTTTCTACAGTAGTTCA
Found at i:101411133 original size:25 final size:28
Alignment explanation
Indices: 101411097--101411178 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 28
101411087 TATTCTGCCT
101411097 TATTCAAAAAAACTTATATTTTATTAAAA
1 TATT-AAAAAAACTTATATTTTATTAAAA
*
101411126 -A-T-ATAAAA-TTA-ATTTACTATTAAAA
1 TATTAAAAAAACTTATATTT--TATTAAAA
*
101411151 TATTAAAAACAACTTATTTTTTATTAAA
1 TATTAAAAA-AACTTATATTTTATTAAA
101411179 TAAAATAATA
Statistics
Matches: 42, Mismatches: 3, Indels: 16
0.69 0.05 0.26
Matches are distributed among these distances:
23 4 0.10
24 3 0.07
25 13 0.31
26 1 0.02
27 2 0.05
28 4 0.10
29 9 0.21
30 3 0.07
31 3 0.07
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (28 bp):
TATTAAAAAAACTTATATTTTATTAAAA
Found at i:101411650 original size:30 final size:30
Alignment explanation
Indices: 101411614--101411672 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
101411604 TGAAGGGGTT
101411614 GTGATTGTGTGGGCGCTGTTGATGGGCCCG
1 GTGATTGTGTGGGCGCTGTTGATGGGCCCG
* *
101411644 GTGATTGTGTGGGTGTTGTTGATGGGCCC
1 GTGATTGTGTGGGCGCTGTTGATGGGCCC
101411673 ATGCCGTCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.07, C:0.14, G:0.46, T:0.34
Consensus pattern (30 bp):
GTGATTGTGTGGGCGCTGTTGATGGGCCCG
Found at i:101419230 original size:307 final size:307
Alignment explanation
Indices: 101418676--101419288 Score: 1199
Period size: 307 Copynumber: 2.0 Consensus size: 307
101418666 ATTAGTTGTT
*
101418676 TCATTTTGTTGCATACATTTTTTTATGTTATATAGAATAAATTTATGAATTAATTGTAATACCCT
1 TCATTTTGTTGCATACATTTTTTTATGTTATATAGAATAAATTTATGAATTAATTGTAATAACCT
*
101418741 ATATTTGGTTTGATCGTCGAATCAAAGCTATGGAACACCATATTAACCTCCTAAGTAACTCTATA
66 ATACTTGGTTTGATCGTCGAATCAAAGCTATGGAACACCATATTAACCTCCTAAGTAACTCTATA
101418806 TTAACTCCCAATCTAACTTCTAACACACCAGCAGATAACAACATAGAATGTGCTTAAGTTATTAA
131 TTAACTCCCAATCTAACTTCTAACACACCAGCAGATAACAACATAGAATGTGCTTAAGTTATTAA
101418871 TGTGCAGCGAAATGACAAATAAGTACTTAAAGCAAAACTCTTTTAACCAGCTCACATACAAATAA
196 TGTGCAGCGAAATGACAAATAAGTACTTAAAGCAAAACTCTTTTAACCAGCTCACATACAAATAA
101418936 GGGTTCACATACTTGTGGGGGGTTTCGAATAATAAAAAAAATAAAAC
261 GGGTTCACATACTTGTGGGGGGTTTCGAATAATAAAAAAAATAAAAC
101418983 TCATTTTGTTGCATACATTTTTTTATGTTATATAGAATAAATTTATGAATTAATTGTAATAACCT
1 TCATTTTGTTGCATACATTTTTTTATGTTATATAGAATAAATTTATGAATTAATTGTAATAACCT
101419048 ATACTTGGTTTGATCGTCGAATCAAAGCTATGGAACACCATATTAACCTCCTAAGTAACTCTATA
66 ATACTTGGTTTGATCGTCGAATCAAAGCTATGGAACACCATATTAACCTCCTAAGTAACTCTATA
101419113 TTAACTCCCAATCTAACTTCTAACACACCAGCAGATAACAACATAGAATGTGCTTAAGTTATTAA
131 TTAACTCCCAATCTAACTTCTAACACACCAGCAGATAACAACATAGAATGTGCTTAAGTTATTAA
*
101419178 TGTGCAGCGGAATGACAAATAAGTACTTAAAGCAAAACTCTTTTAACCAGCTCACATACAAATAA
196 TGTGCAGCGAAATGACAAATAAGTACTTAAAGCAAAACTCTTTTAACCAGCTCACATACAAATAA
101419243 GGGTTCACATACTTGTGGGGGGTTTCGAATAATAAAAAAAATAAAA
261 GGGTTCACATACTTGTGGGGGGTTTCGAATAATAAAAAAAATAAAA
101419289 GTTACTTTTT
Statistics
Matches: 303, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
307 303 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (307 bp):
TCATTTTGTTGCATACATTTTTTTATGTTATATAGAATAAATTTATGAATTAATTGTAATAACCT
ATACTTGGTTTGATCGTCGAATCAAAGCTATGGAACACCATATTAACCTCCTAAGTAACTCTATA
TTAACTCCCAATCTAACTTCTAACACACCAGCAGATAACAACATAGAATGTGCTTAAGTTATTAA
TGTGCAGCGAAATGACAAATAAGTACTTAAAGCAAAACTCTTTTAACCAGCTCACATACAAATAA
GGGTTCACATACTTGTGGGGGGTTTCGAATAATAAAAAAAATAAAAC
Found at i:101425266 original size:39 final size:39
Alignment explanation
Indices: 101425223--101425326 Score: 145
Period size: 39 Copynumber: 2.7 Consensus size: 39
101425213 CATAGTCACT
* * *
101425223 TTTAAGCATATATCACATTACACATATAATCACATAACA
1 TTTAAGCATATATCACAATACTCATATAATCACACAACA
* *
101425262 TTTAAGAATATACCACAATACTCATATAATCACACAACA
1 TTTAAGCATATATCACAATACTCATATAATCACACAACA
* *
101425301 TTCAAACATATATCACAATACTCATA
1 TTTAAGCATATATCACAATACTCATA
101425327 GCATGTTTAT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.47, C:0.22, G:0.02, T:0.29
Consensus pattern (39 bp):
TTTAAGCATATATCACAATACTCATATAATCACACAACA
Found at i:101427505 original size:6 final size:6
Alignment explanation
Indices: 101427494--101427562 Score: 138
Period size: 6 Copynumber: 11.5 Consensus size: 6
101427484 ACACATATAC
101427494 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT ACATAT
101427542 ACATAT ACATAT ACATAT ACA
1 ACATAT ACATAT ACATAT ACA
101427563 ATTTTTGTTC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 63 1.00
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (6 bp):
ACATAT
Found at i:101433143 original size:29 final size:28
Alignment explanation
Indices: 101433110--101433165 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
101433100 TACAGGGGTT
* *
101433110 TTCACATGGCCGAACACACGCCCGTGTCC
1 TTCACACGACCGAA-ACACGCCCGTGTCC
*
101433139 TTCACACGACCTAAACACGCCCGTGTC
1 TTCACACGACCGAAACACGCCCGTGTC
101433166 GTCACCCGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 13 0.54
29 11 0.46
ACGTcount: A:0.23, C:0.41, G:0.18, T:0.18
Consensus pattern (28 bp):
TTCACACGACCGAAACACGCCCGTGTCC
Found at i:101437792 original size:40 final size:40
Alignment explanation
Indices: 101437727--101437863 Score: 139
Period size: 40 Copynumber: 3.4 Consensus size: 40
101437717 TCGAGAATAT
* * *
101437727 AAAGTGGATAGGATTCGTTCCTGATTCACTATAATACCTC
1 AAAGTGGATAGGATTTGTTCTTGATTCACTATAATAACTC
* ** * *
101437767 AAAGTGGATAGTATTTGTTCTTGATTCACTATGGTAATTT
1 AAAGTGGATAGGATTTGTTCTTGATTCACTATAATAACTC
* * * **
101437807 AAAGTGAATAGGATTTATTCTTGATTCATTATGGTAACTC
1 AAAGTGGATAGGATTTGTTCTTGATTCACTATAATAACTC
* *
101437847 AAGGCGGATAGGATTTG
1 AAAGTGGATAGGATTTG
101437864 ACCTGAAAAG
Statistics
Matches: 79, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (40 bp):
AAAGTGGATAGGATTTGTTCTTGATTCACTATAATAACTC
Found at i:101437921 original size:78 final size:78
Alignment explanation
Indices: 101437828--101438058 Score: 331
Period size: 78 Copynumber: 2.9 Consensus size: 78
101437818 GATTTATTCT
* **
101437828 TGATTCATTATGGTAACTCAAGGCGGATAGGATTTGACCTGAAAAGGTAATCCTGATTTGCTACA
1 TGATTCATTATGGTAACTCAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
*
101437893 GTTATATGATATA
66 GTTACATGATATA
* *
101437906 TGATTCATTATGGTAAC-CAAAGGTGGATAGGATTTGACCTTAAAAGGGTAATCCTAATTCACTA
1 TGATTCATTATGGTAACTC-AAGGTGGATAGGATTTGACCTGAAAA-GGTAATCCTGATTCACTA
101437970 C-GATTACATGATATA
64 CAG-TTACATGATATA
* * * *
101437985 TGATTCCTTATGATAACTTAAGGTGGGTAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
1 TGATTCATTATGGTAACTCAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
101438050 GTTACATGA
66 GTTACATGA
101438059 GATGTGACTC
Statistics
Matches: 136, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
77 1 0.01
78 68 0.50
79 67 0.49
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (78 bp):
TGATTCATTATGGTAACTCAAGGTGGATAGGATTTGACCTGAAAAGGTAATCCTGATTCACTACA
GTTACATGATATA
Found at i:101440285 original size:15 final size:15
Alignment explanation
Indices: 101440265--101440294 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
101440255 AAGATATTTT
101440265 AACAAATAAAATTAA
1 AACAAATAAAATTAA
*
101440280 AACAAATGAAATTAA
1 AACAAATAAAATTAA
101440295 CAAAAAATAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.07, G:0.03, T:0.20
Consensus pattern (15 bp):
AACAAATAAAATTAA
Found at i:101441867 original size:37 final size:37
Alignment explanation
Indices: 101441807--101441893 Score: 99
Period size: 37 Copynumber: 2.4 Consensus size: 37
101441797 ATATAAAATA
*
101441807 AAATT-ATCA-AATTAAAAAGTCCAACTTAACC-CACGG
1 AAATTGATCATAATT-ACAAGTCCAACTTAACCTC-CGG
* * *
101441843 ACATTGATCATAATTACAAGTCCAACTTGACCTCCGT
1 AAATTGATCATAATTACAAGTCCAACTTAACCTCCGG
101441880 AAATTGATCATAAT
1 AAATTGATCATAAT
101441894 CACACTTGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
36 4 0.09
37 34 0.79
38 5 0.12
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (37 bp):
AAATTGATCATAATTACAAGTCCAACTTAACCTCCGG
Found at i:101445348 original size:39 final size:40
Alignment explanation
Indices: 101445252--101445340 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
101445242 ACTGTGTGGC
* * * * *
101445252 TGGCTGTGTACGACACACGGTCGTGTGACTATTGAAGGTG
1 TGGCCGTGTGCGACACACGGCCATGTGACTAGTGAAGGTG
*
101445292 TGGCCGTGTGCGACACACGGCCATGTGA-TAGTGAATGTG
1 TGGCCGTGTGCGACACACGGCCATGTGACTAGTGAAGGTG
101445331 TGGCCGTGTG
1 TGGCCGTGTG
101445341 GGCCACACAG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 19 0.44
40 24 0.56
ACGTcount: A:0.18, C:0.19, G:0.37, T:0.26
Consensus pattern (40 bp):
TGGCCGTGTGCGACACACGGCCATGTGACTAGTGAAGGTG
Found at i:101450064 original size:12 final size:12
Alignment explanation
Indices: 101450047--101450094 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
101450037 TGTCATTAAC
101450047 ATATAAAACCAA
1 ATATAAAACCAA
*
101450059 ATATAAAACTTTAA
1 ATATAAAAC--CAA
101450073 CATATAAAACCAA
1 -ATATAAAACCAA
101450086 ATATAAAAC
1 ATATAAAAC
101450095 TTTACTCCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 18 0.58
13 2 0.06
14 2 0.06
15 9 0.29
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (12 bp):
ATATAAAACCAA
Found at i:101450080 original size:27 final size:27
Alignment explanation
Indices: 101450042--101450098 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
101450032 CAGTATGTCA
101450042 TTAACATATAAAACCAAATATAAAACT
1 TTAACATATAAAACCAAATATAAAACT
101450069 TTAACATATAAAACCAAATATAAAACT
1 TTAACATATAAAACCAAATATAAAACT
101450096 TTA
1 TTA
101450099 CTCCCACTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (27 bp):
TTAACATATAAAACCAAATATAAAACT
Found at i:101453206 original size:28 final size:28
Alignment explanation
Indices: 101453174--101453232 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
101453164 ATATGAATTG
* *
101453174 AATTCAATTGTGAATATAATTTATTATA
1 AATTCAATTGTGAATATAATTCATCATA
101453202 AATTCAATTGTGAATATAATTCATCATA
1 AATTCAATTGTGAATATAATTCATCATA
101453230 AAT
1 AAT
101453233 AAAGATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (28 bp):
AATTCAATTGTGAATATAATTCATCATA
Found at i:101466655 original size:21 final size:21
Alignment explanation
Indices: 101466629--101466669 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
101466619 AGACGAGCAA
* *
101466629 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
101466650 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
101466670 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:101468608 original size:16 final size:16
Alignment explanation
Indices: 101468575--101468608 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
101468565 GGAGATTGTT
* *
101468575 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
101468591 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
101468607 AA
1 AA
101468609 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:101470749 original size:17 final size:17
Alignment explanation
Indices: 101470729--101470762 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
101470719 ATTAATTAAT
101470729 TTAACTAATTTAATTTC
1 TTAACTAATTTAATTTC
* *
101470746 TTAATTAATTTATTTTC
1 TTAACTAATTTAATTTC
101470763 CCAACCCAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (17 bp):
TTAACTAATTTAATTTC
Found at i:101474411 original size:15 final size:15
Alignment explanation
Indices: 101474393--101474436 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
101474383 TAAATTATTT
101474393 TATTTTTTAATTTAA
1 TATTTTTTAATTTAA
** *
101474408 TATTTAATAATTTTA
1 TATTTTTTAATTTAA
*
101474423 TATTTTTTTATTTA
1 TATTTTTTAATTTA
101474437 TTAAAATATT
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTTTTAATTTAA
Found at i:101475788 original size:14 final size:14
Alignment explanation
Indices: 101475769--101475814 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
101475759 CTACATTTTC
*
101475769 TCTTCTTCTCCTCT
1 TCTTCTTCTCCTAT
101475783 TCTTCTT-T--TAT
1 TCTTCTTCTCCTAT
101475794 TCTTCTTCTCCTAT
1 TCTTCTTCTCCTAT
101475808 TCTTCTT
1 TCTTCTT
101475815 TTTACCTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
11 9 0.32
12 1 0.04
13 1 0.04
14 17 0.61
ACGTcount: A:0.04, C:0.33, G:0.00, T:0.63
Consensus pattern (14 bp):
TCTTCTTCTCCTAT
Found at i:101475800 original size:25 final size:25
Alignment explanation
Indices: 101475769--101475816 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
101475759 CTACATTTTC
*
101475769 TCTTCTTCTCCTCTTCTTCTTTTAT
1 TCTTCTTCTCCTATTCTTCTTTTAT
101475794 TCTTCTTCTCCTATTCTTCTTTT
1 TCTTCTTCTCCTATTCTTCTTTT
101475817 TACCTAAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.04, C:0.31, G:0.00, T:0.65
Consensus pattern (25 bp):
TCTTCTTCTCCTATTCTTCTTTTAT
Found at i:101481300 original size:18 final size:18
Alignment explanation
Indices: 101481266--101481300 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
101481256 TTAGATAATT
*
101481266 TAATTTTTCCAATTTAAA
1 TAATTTTTCCAACTTAAA
*
101481284 TAATTTTTTCAACTTAA
1 TAATTTTTCCAACTTAA
101481301 TTCCAATTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTTTTCCAACTTAAA
Found at i:101483177 original size:39 final size:39
Alignment explanation
Indices: 101483099--101483179 Score: 92
Period size: 39 Copynumber: 2.1 Consensus size: 39
101483089 TGAAATTCAA
*
101483099 AAAAAAATTATAAATTATTATAAAAATCGTGAAAAATAT
1 AAAAAAATTATAAATTATTATAAAAATAGTGAAAAATAT
* * * **
101483138 AAAAAATTTA-AAATTCATTATCAAAATATTGAATGATAT
1 AAAAAAATTATAAATT-ATTATAAAAATAGTGAAAAATAT
101483177 AAA
1 AAA
101483180 TATAAAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
38 5 0.14
39 30 0.86
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.32
Consensus pattern (39 bp):
AAAAAAATTATAAATTATTATAAAAATAGTGAAAAATAT
Found at i:101488148 original size:20 final size:18
Alignment explanation
Indices: 101488103--101488140 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
101488093 GAAAGGCTGA
*
101488103 GAAAGAAAAGGGAATTGG
1 GAAAGAAAAGGGAATGGG
101488121 GAAAGAAAAGGGAATCGGG
1 GAAAGAAAAGGGAAT-GGG
101488140 G
1 G
101488141 GAGAGAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.47, C:0.03, G:0.42, T:0.08
Consensus pattern (18 bp):
GAAAGAAAAGGGAATGGG
Found at i:101488163 original size:62 final size:60
Alignment explanation
Indices: 101488096--101488210 Score: 160
Period size: 62 Copynumber: 1.9 Consensus size: 60
101488086 AGTCAGAGAA
*
101488096 AGGCTGAGAAAGAAAAG-GGAATTGGGAAAGAAAAGGGAATCGGGGGAGAGAAATAGAAGTAC
1 AGGCTGAGAAAG-AAAGTGGAATCGGGAAAG--AAGGGAATCGGGGGAGAGAAATAGAAGTAC
* * *
101488158 AGGCTGAGAAAGAGAGTGGAATCGGGAAAGAAGGGAATTGGGGGGGAGAAATA
1 AGGCTGAGAAAGAAAGTGGAATCGGGAAAGAAGGGAATCGGGGGAGAGAAATA
101488211 AAACGGCGTC
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
60 21 0.44
61 3 0.06
62 24 0.50
ACGTcount: A:0.43, C:0.04, G:0.42, T:0.10
Consensus pattern (60 bp):
AGGCTGAGAAAGAAAGTGGAATCGGGAAAGAAGGGAATCGGGGGAGAGAAATAGAAGTAC
Found at i:101488361 original size:38 final size:40
Alignment explanation
Indices: 101488292--101488400 Score: 186
Period size: 38 Copynumber: 2.8 Consensus size: 40
101488282 ATAAATTACT
101488292 TTTTGCGGCGTTTTTATCATAAACGCCGCTATTGATTGCC
1 TTTTGCGGCGTTTTTATCATAAACGCCGCTATTGATTGCC
* *
101488332 TTTTGCGGCG-TTTTAT-ATAAACGCCGCTATTGCTTGTC
1 TTTTGCGGCGTTTTTATCATAAACGCCGCTATTGATTGCC
101488370 TTTTGCGGCGTTTTTATCATAAACGCCGCTA
1 TTTTGCGGCGTTTTTATCATAAACGCCGCTA
101488401 ATTTTTGACT
Statistics
Matches: 65, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
38 30 0.46
39 12 0.18
40 23 0.35
ACGTcount: A:0.17, C:0.22, G:0.20, T:0.40
Consensus pattern (40 bp):
TTTTGCGGCGTTTTTATCATAAACGCCGCTATTGATTGCC
Found at i:101488413 original size:40 final size:40
Alignment explanation
Indices: 101488292--101488413 Score: 178
Period size: 38 Copynumber: 3.1 Consensus size: 40
101488282 ATAAATTACT
*
101488292 TTTTGCGGCGTTTTTATCATAAACGCCGCTATTGATTGCC
1 TTTTGCGGCGTTTTTATCATAAACGCCGCTATTGATTGAC
* *
101488332 TTTTGCGGCG-TTTTAT-ATAAACGCCGCTATTGCTTGTC
1 TTTTGCGGCGTTTTTATCATAAACGCCGCTATTGATTGAC
*
101488370 TTTTGCGGCGTTTTTATCATAAACGCCGCTAATT-TTTGAC
1 TTTTGCGGCGTTTTTATCATAAACGCCGCT-ATTGATTGAC
101488410 TTTT
1 TTTT
101488414 TTATAATTTT
Statistics
Matches: 75, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
38 30 0.40
39 12 0.16
40 30 0.40
41 3 0.04
ACGTcount: A:0.17, C:0.20, G:0.19, T:0.43
Consensus pattern (40 bp):
TTTTGCGGCGTTTTTATCATAAACGCCGCTATTGATTGAC
Found at i:101488436 original size:22 final size:21
Alignment explanation
Indices: 101488411--101488468 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
101488401 ATTTTTGACT
101488411 TTTTTATAATTTTTATATTAAA
1 TTTTTATAATTTTTATATT-AA
101488433 TTTTTAT-ATCTTTTATATTAA
1 TTTTTATAAT-TTTTATATTAA
*
101488454 TTTTAAATAATTTTT
1 TTTT-TATAATTTTT
101488469 TTAAAAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 8 0.25
22 22 0.69
23 2 0.06
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTTATAATTTTTATATTAA
Found at i:101489041 original size:14 final size:14
Alignment explanation
Indices: 101489022--101489088 Score: 89
Period size: 14 Copynumber: 4.7 Consensus size: 14
101489012 CCAGAAAAGT
101489022 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
101489036 AAATCATTTTTCAAG
1 AAATCA-TTTTCCAG
*
101489051 AAATTATTTTCCAG
1 AAATCATTTTCCAG
*
101489065 AAATTATTTTCCAG
1 AAATCATTTTCCAG
*
101489079 AAAACATTTT
1 AAATCATTTT
101489089 ACCTGCAAAC
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
14 35 0.74
15 12 0.26
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.40
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:101489255 original size:7 final size:7
Alignment explanation
Indices: 101489229--101489361 Score: 56
Period size: 7 Copynumber: 18.7 Consensus size: 7
101489219 AATCATACAA
101489229 CATAACC
1 CATAACC
* *
101489236 CTTAAATC
1 CAT-AACC
101489244 CATAACC
1 CATAACC
101489251 CATAACC
1 CATAACC
*
101489258 CCTAACC
1 CATAACC
101489265 CATAACC
1 CATAACC
*
101489272 CCTAACTC
1 CATAAC-C
101489280 C-TAACAC
1 CATAAC-C
*
101489287 C-TAAAC
1 CATAACC
*
101489293 CTTAAACC
1 CAT-AACC
*
101489301 C-CAACC
1 CATAACC
* *
101489307 CTTAAAC
1 CATAACC
*
101489314 CATAAAC
1 CATAACC
** *
101489321 TGTAAAC
1 CATAACC
*
101489328 CATAATC
1 CATAACC
101489335 CATAAACC
1 CAT-AACC
*
101489343 CATAATC
1 CATAACC
*
101489350 CATAATC
1 CATAACC
101489357 CATAA
1 CATAA
101489362 ACCTTAAAAT
Statistics
Matches: 99, Mismatches: 21, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
6 7 0.07
7 75 0.76
8 17 0.17
ACGTcount: A:0.42, C:0.37, G:0.01, T:0.20
Consensus pattern (7 bp):
CATAACC
Found at i:101489265 original size:14 final size:14
Alignment explanation
Indices: 101489246--101489290 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
101489236 CTTAAATCCA
101489246 TAACCCATAACCCC
1 TAACCCATAACCCC
101489260 TAACCCATAACCCC
1 TAACCCATAACCCC
*
101489274 TAACTCC-TAACACC
1 TAAC-CCATAACCCC
101489288 TAA
1 TAA
101489291 ACCTTAAACC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 27 0.93
15 2 0.07
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.18
Consensus pattern (14 bp):
TAACCCATAACCCC
Found at i:101489269 original size:21 final size:21
Alignment explanation
Indices: 101489229--101489361 Score: 72
Period size: 21 Copynumber: 6.2 Consensus size: 21
101489219 AATCATACAA
* * *
101489229 CATAACCCTTAAATCCATAACC
1 CATAACCCCT-AACCCATAAAC
*
101489251 CATAACCCCTAACCCATAACC
1 CATAACCCCTAACCCATAAAC
* *
101489272 CCTAACTCCTAACACC-TAAAC
1 CATAACCCCTAAC-CCATAAAC
* *
101489293 CTTAAACCCC-AACCCTTAAAC
1 CAT-AACCCCTAACCCATAAAC
* ** * *
101489314 CATAAACTGTAAACCATAATC
1 CATAACCCCTAACCCATAAAC
* * *
101489335 CATAAACCCATAATCCATAATC
1 CAT-AACCCCTAACCCATAAAC
101489357 CATAA
1 CATAA
101489362 ACCTTAAAAT
Statistics
Matches: 88, Mismatches: 18, Indels: 11
0.75 0.15 0.09
Matches are distributed among these distances:
20 5 0.06
21 50 0.57
22 33 0.38
ACGTcount: A:0.42, C:0.37, G:0.01, T:0.20
Consensus pattern (21 bp):
CATAACCCCTAACCCATAAAC
Found at i:101489369 original size:7 final size:7
Alignment explanation
Indices: 101489309--101489369 Score: 59
Period size: 7 Copynumber: 8.6 Consensus size: 7
101489299 CCCCAACCCT
101489309 TAAACCA
1 TAAACCA
**
101489316 TAAACTG
1 TAAACCA
101489323 TAAACCA
1 TAAACCA
*
101489330 TAATCCA
1 TAAACCA
101489337 TAAACCCA
1 TAAA-CCA
*
101489345 TAATCCA
1 TAAACCA
*
101489352 TAATCCA
1 TAAACCA
*
101489359 TAAACCT
1 TAAACCA
101489366 TAAA
1 TAAA
101489370 ATAGTAACTC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
7 38 0.86
8 6 0.14
ACGTcount: A:0.49, C:0.26, G:0.02, T:0.23
Consensus pattern (7 bp):
TAAACCA
Found at i:101489674 original size:24 final size:24
Alignment explanation
Indices: 101489647--101489695 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
101489637 TTAAAATAAC
*
101489647 AATTAATTTTTATATAGACTTTTA
1 AATTAATTTTTATATAAACTTTTA
101489671 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
101489695 A
1 A
101489696 TAAATATACG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (24 bp):
AATTAATTTTTATATAAACTTTTA
Found at i:101490364 original size:41 final size:40
Alignment explanation
Indices: 101490307--101490462 Score: 222
Period size: 41 Copynumber: 3.8 Consensus size: 40
101490297 AGTTATATGA
*
101490307 CTTTTAGTGGCGTTTTACCAAAAGCGCCGCTACTACTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTA-TACTCTGT
* *
101490348 CTTTTAGCGGCGTTTTACCAAAAACGCCGCTAATGCTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCT-ATACTCTGT
* * * *
101490389 CTTTTAGCGTCGTTTTACCAAAAGCACCGCCAAAGCTCTGT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATA-CTCTGT
101490430 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAT
1 CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTAT
101490463 TGCTTAGTTT
Statistics
Matches: 100, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
40 1 0.01
41 98 0.98
42 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (40 bp):
CTTTTAGCGGCGTTTTACCAAAAGCGCCGCTATACTCTGT
Found at i:101490444 original size:82 final size:82
Alignment explanation
Indices: 101490307--101490485 Score: 247
Period size: 82 Copynumber: 2.2 Consensus size: 82
101490297 AGTTATATGA
* * * *
101490307 CTTTTAGTGGCGTTTTACCAAAAGCGCCGCTACTACTCTGTCTTTTAGCGGCGTTTTACCAAAAA
1 CTTTTAGCGGCGTTTTACCAAAAGCACCGCCACAACTCTGTCTTTTAGCGGCGTTTTACCAAAAA
101490372 CGCCGCTAATGCTCT-GT
66 CGCCGCTAATGCT-TAGT
*
101490389 CTTTTAGCGTCGTTTTACCAAAAGCACCGCCA-AAGCTCTGTCTTTTAGCGGCGTTTTACCAAAA
1 CTTTTAGCGGCGTTTTACCAAAAGCACCGCCACAA-CTCTGTCTTTTAGCGGCGTTTTACCAAAA
* *
101490453 GCGCCGCTATTGCTTAGT
65 ACGCCGCTAATGCTTAGT
*
101490471 -TTTTAGCGGCATTTT
1 CTTTTAGCGGCGTTTT
101490486 TGATAAAACG
Statistics
Matches: 86, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
81 15 0.17
82 71 0.83
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.34
Consensus pattern (82 bp):
CTTTTAGCGGCGTTTTACCAAAAGCACCGCCACAACTCTGTCTTTTAGCGGCGTTTTACCAAAAA
CGCCGCTAATGCTTAGT
Found at i:101492066 original size:22 final size:21
Alignment explanation
Indices: 101492036--101492080 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
101492026 TTTTAAATGC
*
101492036 TTAACATTTTCTTAAAATATT
1 TTAACATTTCCTTAAAATATT
101492057 TTAAGCATTTCCTTAAAATATT
1 TTAA-CATTTCCTTAAAATATT
101492079 TT
1 TT
101492081 TTTTAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.51
Consensus pattern (21 bp):
TTAACATTTCCTTAAAATATT
Found at i:101492420 original size:34 final size:34
Alignment explanation
Indices: 101492382--101492451 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 34
101492372 AAATATAAAA
101492382 AACCTTAAACCCT-ATTTTAAATAAACAAAACCCT
1 AACCTTAAACCCTAATTTT-AATAAACAAAACCCT
*
101492416 AACCTTAAATCCTAATTTTAATAAACAAAACCCT
1 AACCTTAAACCCTAATTTTAATAAACAAAACCCT
101492450 AA
1 AA
101492452 TCCTATTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
34 29 0.85
35 5 0.15
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (34 bp):
AACCTTAAACCCTAATTTTAATAAACAAAACCCT
Found at i:101495933 original size:21 final size:21
Alignment explanation
Indices: 101495909--101495956 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
101495899 TTCTGTTCTG
*
101495909 CTCCGCCTCCCTCGCTGCTGC
1 CTCCGCCTCCCGCGCTGCTGC
101495930 CTCCGCCTCCCGCGCTGCTGC
1 CTCCGCCTCCCGCGCTGCTGC
101495951 CTCCGC
1 CTCCGC
101495957 TCTAAGTTGA
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:0.00, C:0.58, G:0.21, T:0.21
Consensus pattern (21 bp):
CTCCGCCTCCCGCGCTGCTGC
Found at i:101502355 original size:23 final size:23
Alignment explanation
Indices: 101502329--101502378 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
101502319 GTTCAAGTTT
101502329 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
101502352 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
101502375 ATTT
1 ATTT
101502379 GATTAATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (23 bp):
ATTTAAAGGGCTGCAATTCATAC
Found at i:101506009 original size:27 final size:27
Alignment explanation
Indices: 101505974--101506029 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
101505964 TTAAGTTTTT
* *
101505974 AATTCCAAAAT-TAAACCCTAAACCCTA
1 AATTACAAAATCTAAACCCCAAA-CCTA
*
101506001 AATTACAAACTCTAAACCCCAAACCTA
1 AATTACAAAATCTAAACCCCAAACCTA
101506028 AA
1 AA
101506030 ATCCCAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 15 0.60
28 10 0.40
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (27 bp):
AATTACAAAATCTAAACCCCAAACCTA
Found at i:101506340 original size:7 final size:7
Alignment explanation
Indices: 101506317--101506372 Score: 58
Period size: 7 Copynumber: 8.0 Consensus size: 7
101506307 TAAGACCCTG
*
101506317 ACCCTAT
1 ACCCTAA
*
101506324 ACCATAA
1 ACCCTAA
101506331 ACCCTAA
1 ACCCTAA
101506338 ACCCTAA
1 ACCCTAA
*
101506345 ACCCCAA
1 ACCCTAA
* *
101506352 ACACTAG
1 ACCCTAA
*
101506359 ACCTTAA
1 ACCCTAA
101506366 ACCCTAA
1 ACCCTAA
101506373 TTAACCCCTA
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.43, C:0.39, G:0.02, T:0.16
Consensus pattern (7 bp):
ACCCTAA
Found at i:101506779 original size:14 final size:13
Alignment explanation
Indices: 101506729--101506794 Score: 51
Period size: 14 Copynumber: 4.7 Consensus size: 13
101506719 ATAAACCTCA
101506729 AACCCTAAATCAT
1 AACCCTAAATCAT
* * *
101506742 AAAACATAAATAAT
1 -AACCCTAAATCAT
101506756 CAACCCTAAATCAT
1 -AACCCTAAATCAT
*
101506770 AACCCTTAAACCCAT
1 AACCC-TAAA-TCAT
101506785 AACCCCTAAA
1 AA-CCCTAAA
101506795 CCTATAAAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
13 5 0.12
14 24 0.59
15 9 0.22
16 3 0.07
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (13 bp):
AACCCTAAATCAT
Found at i:101506787 original size:15 final size:15
Alignment explanation
Indices: 101506767--101506801 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
101506757 AACCCTAAAT
*
101506767 CATAACCCTTAAACC
1 CATAACCCCTAAACC
101506782 CATAACCCCTAAACC
1 CATAACCCCTAAACC
*
101506797 TATAA
1 CATAA
101506802 AAATATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.43, C:0.37, G:0.00, T:0.20
Consensus pattern (15 bp):
CATAACCCCTAAACC
Found at i:101509269 original size:25 final size:23
Alignment explanation
Indices: 101509231--101509288 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
101509221 AAAAAAATTG
101509231 TAAAAATTACAAATTGATGTAAAAAA
1 TAAAAA-TACAAATTGAT-T-AAAAA
* *
101509257 TAAAAATAGAAATTTATTAAAAA
1 TAAAAATACAAATTGATTAAAAA
101509280 TAGAAAATA
1 TA-AAAATA
101509289 TATATATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 7 0.24
24 7 0.24
25 9 0.31
26 6 0.21
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.28
Consensus pattern (23 bp):
TAAAAATACAAATTGATTAAAAA
Found at i:101516913 original size:23 final size:22
Alignment explanation
Indices: 101516867--101516923 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
101516857 ATAGTGATAT
* *
101516867 TAAAAAATAATAGCTATAAAAA
1 TAAAAAATAATAACCATAAAAA
* *
101516889 TAAAAAAATAATAACCATGACAA
1 T-AAAAAATAATAACCATAAAAA
*
101516912 TAAAGAATAATA
1 TAAAAAATAATA
101516924 GTAATAATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
22 11 0.38
23 18 0.62
ACGTcount: A:0.67, C:0.07, G:0.05, T:0.21
Consensus pattern (22 bp):
TAAAAAATAATAACCATAAAAA
Found at i:101517243 original size:44 final size:44
Alignment explanation
Indices: 101517164--101517282 Score: 120
Period size: 44 Copynumber: 2.7 Consensus size: 44
101517154 ATATTAAGTT
* * *
101517164 ACAATAGTAAAATAATAATAGTGATAATAAT--AGTAT-ATTAGATA
1 ACAATAATAAAATAAT-A-AGTAATAATAATAGAGTATAAATAG-TA
101517208 ACAATAATAAAATAATAAGTAATAATAATAGAGTATAAATAGTA
1 ACAATAATAAAATAATAAGTAATAATAATAGAGTATAAATAGTA
***
101517252 GTTATAATAATAATAATAA-TAATAATAATAG
1 ACAATAATAA-AATAATAAGTAATAATAATAG
101517283 TGACGATAGT
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
42 11 0.17
43 1 0.02
44 41 0.63
45 12 0.18
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (44 bp):
ACAATAATAAAATAATAAGTAATAATAATAGAGTATAAATAGTA
Found at i:101517301 original size:3 final size:3
Alignment explanation
Indices: 101517113--101517281 Score: 105
Period size: 3 Copynumber: 55.7 Consensus size: 3
101517103 TTAATTAGTT
* * * *
101517113 TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TGAA -AA CAA AAA TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
* * * * * * *
101517158 TAA GTTA CAA TAG TAA -AA TAA TAA TAG TGA TAA TAA TAG T-A TAT
1 TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
101517202 TAGA TAA CAA TAA TAA -AA TAA TAA GTAA TAA TAA TAGA GT-A TAAA
1 TA-A TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TA-A -TAA T-AA
* * *
101517247 TAG TAG TTA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
101517282 GTGACGATAG
Statistics
Matches: 128, Mismatches: 26, Indels: 24
0.72 0.15 0.13
Matches are distributed among these distances:
2 8 0.06
3 107 0.84
4 12 0.09
5 1 0.01
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:101517461 original size:23 final size:23
Alignment explanation
Indices: 101517411--101517455 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
101517401 TTAATAACAA
101517411 TAATAATAATATATAAAAATAGG
1 TAATAATAATATATAAAAATAGG
* *
101517434 AAATAATAATATGGTAAAAATA
1 TAATAATAATAT-ATAAAAATA
101517456 TTAATATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (23 bp):
TAATAATAATATATAAAAATAGG
Found at i:101519608 original size:14 final size:14
Alignment explanation
Indices: 101519539--101519608 Score: 83
Period size: 13 Copynumber: 5.1 Consensus size: 14
101519529 AACCGTGAAT
*
101519539 CTCAAACCCCGAA-
1 CTCAAACCCCAAAC
101519552 CTCAAACCCCAAA-
1 CTCAAACCCCAAAC
*
101519565 CTCAAACCCTAAAC
1 CTCAAACCCCAAAC
*
101519579 C-CAAAACCCAAAAC
1 CTC-AAACCCCAAAC
101519593 CTCAAACCCCAAAC
1 CTCAAACCCCAAAC
101519607 CT
1 CT
101519609 TGATGTTGGG
Statistics
Matches: 50, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
13 25 0.50
14 24 0.48
15 1 0.02
ACGTcount: A:0.44, C:0.46, G:0.01, T:0.09
Consensus pattern (14 bp):
CTCAAACCCCAAAC
Found at i:101522711 original size:27 final size:25
Alignment explanation
Indices: 101522654--101522720 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 25
101522644 TAAAAATAAA
*
101522654 AAAATTATAAAAATATATATACACT
1 AAAATTATAAAAATATATAAACACT
* *
101522679 ATAAATTTATAAAAATATATAAATATGT
1 A-AAA-TTATAAAAATATATAAACA-CT
101522707 AAAATTACTAAAAA
1 AAAATTA-TAAAAA
101522721 GTATGTCTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
25 1 0.03
26 6 0.17
27 26 0.74
28 2 0.06
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.33
Consensus pattern (25 bp):
AAAATTATAAAAATATATAAACACT
Found at i:101522840 original size:19 final size:21
Alignment explanation
Indices: 101522798--101522841 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
101522788 TTTATTACTT
**
101522798 TATATATTCTAAAATTTTATA
1 TATATATTCTAAAATAATATA
101522819 TATATATT-TAAAATAATA-A
1 TATATATTCTAAAATAATATA
101522838 TATA
1 TATA
101522842 AATAACATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.24
20 8 0.38
21 8 0.38
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
TATATATTCTAAAATAATATA
Done.