Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 299 of 328
Found at i:89257856 original size:16 final size:17
Alignment explanation
Indices: 89257824--89257856 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
89257814 TGTCAAAATA
*
89257824 AAAATTAAAAAATTTAT
1 AAAATTAAAAAAGTTAT
89257841 AAAATT-AAAAAGTTAT
1 AAAATTAAAAAAGTTAT
89257857 TTTAAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
AAAATTAAAAAAGTTAT
Found at i:89259473 original size:3 final size:3
Alignment explanation
Indices: 89259465--89259946 Score: 104
Period size: 3 Copynumber: 161.0 Consensus size: 3
89259455 AACGATATGG
* * * * **
89259465 TAA TAA TAA TAG TAA TAGA GAA CAA CAA TACA TTAA TAA TAA TATA TGT
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TA-A -TAA TAA TAA TA-A TAA
* * * *
89259514 TAA TAA CAA TAA TAA TAA TATG TAA -AA -AA GGGAA TAA TAA T-A TAG
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA --TAA TAA TAA TAA TAA
* * ** * * * *
89259559 TAA AAA TGA TAA TAA T-A TGT TAA TAA GAA TAA TAG TAG TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
89259606 TAA AAA GGCAA TAG TAA TAA -AA TAA AAA TAA AAA TAA TAG TAA TAA
1 TAA TAA --TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
89259652 TGA TAA TAA TAA TAA TAA TAA TAG TAA TAA -AA CAGA GAGA AAA AAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TA-A TAA TAA
* * * * * * * *
89259698 GGAA -AA AAA AACA TAA CAA TAA -AA GTAA TAA TTA TTA TTA TTA TAA
1 -TAA TAA TAA TA-A TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA
* *
89259744 TAA TAA TAA T-A TAA -AA TTAA TGA T-A TAA TAA T-G TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
* ** * * * *
89259786 TAG GCA -AA TAA GT-A TAA AAA GAA -AA T-A TAA TCA TAG TAA TAA
1 TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* ** * * * *
89259828 TAG TTG TAG TAA TAA TAA TAA TAG TAA GAA TAA TAA TGA TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
89259875 CAA TAA TAG TAA T-A TAA TAG TAA CAG TAA TGA TAA TAA -ATA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
*
89259919 GTAA TAG TAA -AA TAA TAA TAA TAGA TAA
1 -TAA TAA TAA TAA TAA TAA TAA TA-A TAA
89259947 ACTAATTAAT
Statistics
Matches: 354, Mismatches: 88, Indels: 74
0.69 0.17 0.14
Matches are distributed among these distances:
2 36 0.10
3 283 0.80
4 29 0.08
5 6 0.02
ACGTcount: A:0.59, C:0.02, G:0.10, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:89259527 original size:22 final size:23
Alignment explanation
Indices: 89259499--89259592 Score: 85
Period size: 23 Copynumber: 4.3 Consensus size: 23
89259489 ACAATACATT
*
89259499 AATAATAAT-ATATGTTAATAAC
1 AATAATAATAATATGTTAATAAG
* *
89259521 AATAATAATAATATGTAAAAAAGGG
1 AATAATAATAATATGTTAATAA--G
89259546 AATAATAAT-ATA-G-T-A-AA-
1 AATAATAATAATATGTTAATAAG
*
89259563 AATGATAATAATATGTTAATAAG
1 AATAATAATAATATGTTAATAAG
89259586 AATAATA
1 AATAATA
89259593 GTAGTAGTAA
Statistics
Matches: 57, Mismatches: 6, Indels: 17
0.71 0.08 0.21
Matches are distributed among these distances:
17 8 0.14
18 3 0.05
19 1 0.02
20 3 0.05
21 2 0.04
22 11 0.19
23 17 0.30
24 3 0.05
25 9 0.16
ACGTcount: A:0.59, C:0.01, G:0.10, T:0.31
Consensus pattern (23 bp):
AATAATAATAATATGTTAATAAG
Found at i:89259881 original size:17 final size:17
Alignment explanation
Indices: 89259838--89259941 Score: 59
Period size: 17 Copynumber: 5.8 Consensus size: 17
89259828 TAGTTGTAGT
* *
89259838 AATAATAATAATAGTAAG
1 AATAATAGTAATA-TAAC
89259856 AATAATAATGATAATATAAC
1 AATAAT-A-G-TAATATAAC
*
89259876 AATAATAGTAATATAAT
1 AATAATAGTAATATAAC
* * *
89259893 AGTAACAGTAATGATAAT
1 AATAATAGTAAT-ATAAC
89259911 AA-ATATAAGTAATAGTAA-
1 AATA-AT-AGTAATA-TAAC
*
89259929 AATAATAATAATA
1 AATAATAGTAATA
89259942 GATAAACTAA
Statistics
Matches: 70, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
17 25 0.36
18 19 0.27
19 12 0.17
20 9 0.13
21 5 0.07
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.30
Consensus pattern (17 bp):
AATAATAGTAATATAAC
Found at i:89265198 original size:26 final size:26
Alignment explanation
Indices: 89265162--89265271 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
89265152 TGATACAAAT
89265162 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
89265188 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
89265214 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* * *
89265240 TGACAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
89265266 TGATAA
1 TGATAA
89265272 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:89266788 original size:26 final size:26
Alignment explanation
Indices: 89266759--89266811 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
89266749 TTTACAGTTT
89266759 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
89266785 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
89266811 T
1 T
89266812 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:89270368 original size:10 final size:10
Alignment explanation
Indices: 89270353--89270379 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
89270343 ACATTAACAA
89270353 ATAAAAAATT
1 ATAAAAAATT
89270363 ATAAAAAATT
1 ATAAAAAATT
89270373 ATAAAAA
1 ATAAAAA
89270380 TTTTAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:89270378 original size:9 final size:9
Alignment explanation
Indices: 89270356--89270394 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
89270346 TTAACAAATA
89270356 AAAAATTAT
1 AAAAATTAT
89270365 AAAAAATTAT
1 -AAAAATTAT
89270375 AAAAATT-T
1 AAAAATTAT
*
89270383 TAAAATTAT
1 AAAAATTAT
89270392 AAA
1 AAA
89270395 TATATATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 7 0.27
9 10 0.38
10 9 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:89274778 original size:15 final size:16
Alignment explanation
Indices: 89274739--89274770 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
89274729 TTTTAATTTT
*
89274739 TAATTTTTTGGGTTTG
1 TAATTTTTTAGGTTTG
89274755 TAATTTTTTAGGTTTG
1 TAATTTTTTAGGTTTG
89274771 ATTTTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.22, T:0.62
Consensus pattern (16 bp):
TAATTTTTTAGGTTTG
Found at i:89277040 original size:50 final size:50
Alignment explanation
Indices: 89276966--89277070 Score: 156
Period size: 50 Copynumber: 2.1 Consensus size: 50
89276956 TCAAAAGAAA
* * *
89276966 TTTTTTTTTTTTGGTCATGCCATTGATGTTGGTTACACCCATTTAATTGT
1 TTTTTTTTTTTTGATCATGCCATTGATATTGGCTACACCCATTTAATTGT
* *
89277016 TTTTTTTTTTTTGATCTTGCCATTGATATTGGCTGCACCCATTTAATTGT
1 TTTTTTTTTTTTGATCATGCCATTGATATTGGCTACACCCATTTAATTGT
*
89277066 GTTTT
1 TTTTT
89277071 GAATTTTTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.15, C:0.14, G:0.15, T:0.55
Consensus pattern (50 bp):
TTTTTTTTTTTTGATCATGCCATTGATATTGGCTACACCCATTTAATTGT
Found at i:89277094 original size:53 final size:50
Alignment explanation
Indices: 89276966--89277105 Score: 129
Period size: 50 Copynumber: 2.8 Consensus size: 50
89276956 TCAAAAGAAA
** * * * *
89276966 TTTTT-TTTTTTTGGTCATGCCATTGATGTTGGTTACACCCATTTAATTG
1 TTTTTATTTTTTTGACCATACCATTGATATTGGCTGCACCCATTTAATTG
* * * *
89277015 TTTTTTTTTTTTTGATCTTGCCATTGATATTGGCTGCACCCATTTAATTG
1 TTTTTATTTTTTTGACCATACCATTGATATTGGCTGCACCCATTTAATTG
* * *
89277065 TGTTTTGAATTTTTTTGACCATATCATTGATTTTAGCTGCA
1 T-TTTT--ATTTTTTTGACCATACCATTGATATTGGCTGCA
89277106 TCGGGGCATT
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
49 5 0.07
50 40 0.53
51 4 0.05
53 26 0.35
ACGTcount: A:0.18, C:0.14, G:0.15, T:0.53
Consensus pattern (50 bp):
TTTTTATTTTTTTGACCATACCATTGATATTGGCTGCACCCATTTAATTG
Found at i:89278127 original size:28 final size:30
Alignment explanation
Indices: 89278058--89278112 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
89278048 ACCTATCTAA
89278058 TAATTTAAATATAAACTATTTAATTTAATT
1 TAATTTAAATATAAACTATTTAATTTAATT
*
89278088 TAATTTATATATAAA-TATTT-ATTTA
1 TAATTTAAATATAAACTATTTAATTTA
89278113 TTCGTATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 5 0.21
29 5 0.21
30 14 0.58
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (30 bp):
TAATTTAAATATAAACTATTTAATTTAATT
Found at i:89289142 original size:26 final size:26
Alignment explanation
Indices: 89289106--89289187 Score: 121
Period size: 26 Copynumber: 3.2 Consensus size: 26
89289096 TGATACAAAT
* *
89289106 TGATAATGGGTCAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCTA
89289132 TGATAATGGGTTAGGTAAATGTT-TCA
1 TGATAATGGGTTAGGTAAATGTTCT-A
*
89289158 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCTA
89289184 TGAT
1 TGAT
89289188 GGGAATTTCA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
25 1 0.02
26 50 0.98
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCTA
Found at i:89293733 original size:24 final size:23
Alignment explanation
Indices: 89293706--89293750 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
89293696 TTAGTTATAC
89293706 TTAATTATTGGTTTTGTTAATTTG
1 TTAATTATTGG-TTTGTTAATTTG
*
89293730 TTAATTATTTGTTTGTTAATT
1 TTAATTATTGGTTTGTTAATT
89293751 GGTATTGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.22, C:0.00, G:0.13, T:0.64
Consensus pattern (23 bp):
TTAATTATTGGTTTGTTAATTTG
Found at i:89293762 original size:23 final size:23
Alignment explanation
Indices: 89293707--89293754 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
89293697 TAGTTATACT
* *
89293707 TAATTATTGGTTTTGTTAATTTGT
1 TAATTATTTG-TTTGTTAATTTGG
89293731 TAATTATTTGTTTGTTAA-TTGG
1 TAATTATTTGTTTGTTAATTTGG
89293753 TA
1 TA
89293755 TTGTATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 5 0.23
23 8 0.36
24 9 0.41
ACGTcount: A:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (23 bp):
TAATTATTTGTTTGTTAATTTGG
Found at i:89294077 original size:127 final size:127
Alignment explanation
Indices: 89293921--89294238 Score: 485
Period size: 127 Copynumber: 2.5 Consensus size: 127
89293911 TGAAAATTCC
** * *
89293921 TTAAAACAAAGGCAATGTTTGATGTTTGGAAATTCGGGGAATCGTGCCCTATCGTGCTAGGTTTC
1 TTAAAAC-AAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTC
* *
89293986 GATTTTCC-GTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTTGTGTTTCCCAAATT
65 GA-TTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCGTATTTCCCAAATT
* *
89294049 TTAAAACAAGGTAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATAGTGCTGGGTTTCG
1 TTAAAACAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCG
* * *
89294114 ATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTTGAATTTCACTCGTATTTTCTAAATT
66 ATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCGTATTTCCCAAATT
* * *
89294176 TTAAAGCAAGGCAATGTTCAATGTTTGAAAATTCGAGGAATCGTGCCCTACCGTGCTGGGTTT
1 TTAAAACAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTT
89294239 TGGTTTTTCG
Statistics
Matches: 173, Mismatches: 16, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
126 5 0.03
127 161 0.93
128 7 0.04
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.37
Consensus pattern (127 bp):
TTAAAACAAGGCAATGTTCAATGTTTGGAAATTCGAGGAATCGTGCCCTATCGTGCTGGGTTTCG
ATTTCCTGTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCGTATTTCCCAAATT
Found at i:89295727 original size:22 final size:21
Alignment explanation
Indices: 89295695--89295744 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 21
89295685 AACTAATGGC
*
89295695 ATATATACATAATATATATAT
1 ATATACACATAATATATATAT
89295716 ATAATACACATAATATATATAT
1 AT-ATACACATAATATATATAT
89295738 ATATACA
1 ATATACA
89295745 TATTAGAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 7 0.26
22 20 0.74
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATACACATAATATATATAT
Found at i:89296280 original size:11 final size:12
Alignment explanation
Indices: 89296264--89296300 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
89296254 AAAAAAAAAA
89296264 GGAAGAGAG-AG
1 GGAAGAGAGAAG
89296275 GGAAGAGAGAAG
1 GGAAGAGAGAAG
89296287 GG-AGAGAGAAG
1 GGAAGAGAGAAG
89296298 GGA
1 GGA
89296301 GGGGGAAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 20 0.83
12 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (12 bp):
GGAAGAGAGAAG
Found at i:89296301 original size:11 final size:11
Alignment explanation
Indices: 89296262--89296311 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
89296252 GGAAAAAAAA
*
89296262 AAGGAAGAGAG
1 AAGGGAGAGAG
89296273 -AGGGAAGAGAG
1 AAGGG-AGAGAG
89296284 AAGGGAGAGAG
1 AAGGGAGAGAG
* *
89296295 AAGGGAGGGGG
1 AAGGGAGAGAG
89296306 AAGGGA
1 AAGGGA
89296312 AATCGGTCGG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 3 0.09
11 27 0.79
12 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (11 bp):
AAGGGAGAGAG
Found at i:89296606 original size:14 final size:15
Alignment explanation
Indices: 89296571--89296606 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
89296561 TTTTTTGGTT
89296571 TTTTTTTGCTGGAAA
1 TTTTTTTGCTGGAAA
89296586 TTTTTTT-CTGGAAA
1 TTTTTTTGCTGGAAA
89296600 TTTTTTT
1 TTTTTTT
89296607 TTGGTGCTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.17, C:0.06, G:0.14, T:0.64
Consensus pattern (15 bp):
TTTTTTTGCTGGAAA
Found at i:89296607 original size:15 final size:16
Alignment explanation
Indices: 89296570--89296607 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
89296560 TTTTTTTGGT
89296570 TTTTTTTTGCTGGAAA
1 TTTTTTTTGCTGGAAA
89296586 -TTTTTTT-CTGGAAA
1 TTTTTTTTGCTGGAAA
89296600 TTTTTTTT
1 TTTTTTTT
89296608 TGGTGCTGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.16, C:0.05, G:0.13, T:0.66
Consensus pattern (16 bp):
TTTTTTTTGCTGGAAA
Found at i:89296621 original size:33 final size:33
Alignment explanation
Indices: 89296569--89296642 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
89296559 TTTTTTTTGG
*
89296569 TTTTTTTT-TGCTGGAAATTTTTTTCTGGAAAT
1 TTTTTTTTGTGCTGGAAATTTTTTGCTGGAAAT
**
89296601 TTTTTTTTGGTGCTGG-AATTTTTTGCTGGATTT
1 TTTTTTTT-GTGCTGGAAATTTTTTGCTGGAAAT
89296634 TTTTTTTTG
1 TTTTTTTTG
89296643 CTTCCCCTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 9 0.24
33 22 0.59
34 6 0.16
ACGTcount: A:0.12, C:0.05, G:0.19, T:0.64
Consensus pattern (33 bp):
TTTTTTTTGTGCTGGAAATTTTTTGCTGGAAAT
Found at i:89297086 original size:35 final size:35
Alignment explanation
Indices: 89297046--89297151 Score: 194
Period size: 35 Copynumber: 3.0 Consensus size: 35
89297036 GGGGTGTGTG
*
89297046 ATGGTGCTGGCGGCAGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
*
89297081 GTGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
89297116 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
89297151 A
1 A
89297152 GAGGCAAGTG
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.23, C:0.12, G:0.49, T:0.16
Consensus pattern (35 bp):
ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
Found at i:89297936 original size:48 final size:50
Alignment explanation
Indices: 89297860--89298006 Score: 183
Period size: 54 Copynumber: 2.9 Consensus size: 50
89297850 ATATGACCTA
**
89297860 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAACAA-AA-
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAATAAC
* *
89297908 AGG-TACAACTCACCTCTCGCAATATGAGTTGCTTTTTGAAAGACAGAAATTAAC
1 AGGCT-CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-A-A-CAA-TAAC
*
89297962 AGGCTCAACTCACCTCTCGCAATGTGAGTTGATTTTTGAAAAACA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA
89298007 GGAATTGGAA
Statistics
Matches: 84, Mismatches: 7, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
47 1 0.01
48 36 0.43
49 1 0.01
50 1 0.01
51 3 0.04
52 1 0.01
53 3 0.04
54 37 0.44
55 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (50 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAATAAC
Found at i:89298242 original size:147 final size:140
Alignment explanation
Indices: 89298063--89298651 Score: 980
Period size: 147 Copynumber: 4.1 Consensus size: 140
89298053 TCAACTCACC
89298063 TATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
1 TATGAGTTGA-TTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
* *
89298128 TCGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGC
65 TCGCAATATGAGTTGATTTTGAAAC----A-T--AAATTGAAATTACCTCAACGTGTCTTGAGGC
89298193 TCAACTCACCTCTCGCAA
123 TCAACTCACCTCTCGCAA
*
89298211 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTTAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
89298276 CGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA
66 CGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA
*
89298341 CCTCTCGCCA
131 CCTCTCGCAA
*
89298351 TATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCTCAACT
1 TATGAGTTGATTTTGAAAC----A-T--AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACT
89298416 CACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCT
59 CACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCT
*
89298481 TAACTCACCTCTCGCAA
124 CAACTCACCTCTCGCAA
89298498 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
89298563 CGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA
66 CGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA
89298628 CCTCTCGCAA
131 CCTCTCGCAA
*
89298638 TGTGAGTTGATTTT
1 TATGAGTTGATTTT
89298652 CTGTCACTTG
Statistics
Matches: 423, Mismatches: 11, Indels: 22
0.93 0.02 0.05
Matches are distributed among these distances:
140 196 0.46
142 2 0.00
143 2 0.00
144 1 0.00
145 1 0.00
147 211 0.50
148 10 0.02
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (140 bp):
TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA
CCTCTCGCAA
Found at i:89298275 original size:70 final size:70
Alignment explanation
Indices: 89298162--89298651 Score: 863
Period size: 70 Copynumber: 6.9 Consensus size: 70
89298152 CATAAATTGA
*
89298162 AAATTGAAATTACCTCAACGTGTTTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
89298227 AACAT
66 AACAT
*
89298232 AAATTGAAATTACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
89298297 AACAT
66 AACAT
*
89298302 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCCATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
89298367 AACATAAATT
66 AAC----A-T
*
89298377 GAAAATTGAAATTACCTCAACGTGTTTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 --AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
89298442 GAAACAT
64 GAAACAT
*
89298449 AAATTGAAATTACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
89298514 AACAT
66 AACAT
89298519 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
89298584 AACAT
66 AACAT
*
89298589 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATGTGAGTTGATTTT
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
89298652 CTGTCACTTG
Statistics
Matches: 403, Mismatches: 10, Indels: 14
0.94 0.02 0.03
Matches are distributed among these distances:
70 333 0.83
72 1 0.00
73 1 0.00
74 1 0.00
75 1 0.00
77 66 0.16
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (70 bp):
AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
AACAT
Found at i:89298347 original size:217 final size:217
Alignment explanation
Indices: 89298063--89298651 Score: 1093
Period size: 217 Copynumber: 2.7 Consensus size: 217
89298053 TCAACTCACC
89298063 TATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
1 TATGAGTTGA-TTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
89298128 TCGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGC
65 TCGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGC
89298193 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTT
130 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTT
89298258 GAGGCTTAACTCACCTCTCGCAA
195 GAGGCTTAACTCACCTCTCGCAA
89298281 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
89298346 CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
66 CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
89298411 CAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTG
131 CAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTG
89298476 AGGCTTAACTCACCTCTCGCAA
196 AGGCTTAACTCACCTCTCGCAA
89298498 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
* *
89298563 CGCAATATGAGTTGATTTTGAAAC----A-T--AAATTGAAATTACCTCAACGTGTCTTGAGGCT
66 CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
*
89298621 CAACTCACCTCTCGCAATGTGAGTTGATTTT
131 CAACTCACCTCTCGCAATATGAGTTGATTTT
89298652 CTGTCACTTG
Statistics
Matches: 368, Mismatches: 3, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
210 61 0.17
212 1 0.00
213 1 0.00
217 295 0.80
218 10 0.03
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (217 bp):
TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
CAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTG
AGGCTTAACTCACCTCTCGCAA
Found at i:89304734 original size:48 final size:50
Alignment explanation
Indices: 89304658--89304804 Score: 183
Period size: 54 Copynumber: 2.9 Consensus size: 50
89304648 ATATGACCTA
**
89304658 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAACAA-AA-
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAATAAC
* *
89304706 AGG-TACAACTCACCTCTCGCAATATGAGTTGCTTTTTGAAAGACAGAAATTAAC
1 AGGCT-CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-A-A-CAA-TAAC
*
89304760 AGGCTCAACTCACCTCTCGCAATGTGAGTTGATTTTTGAAAAACA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA
89304805 GGAATTGGAA
Statistics
Matches: 84, Mismatches: 7, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
47 1 0.01
48 36 0.43
49 1 0.01
50 1 0.01
51 3 0.04
52 1 0.01
53 3 0.04
54 37 0.44
55 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (50 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAATAAC
Found at i:89305084 original size:70 final size:70
Alignment explanation
Indices: 89304861--89305448 Score: 980
Period size: 70 Copynumber: 8.2 Consensus size: 70
89304851 TCAACTCACC
89304861 TATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
1 TATGAGTTGA-TTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
*
89304926 TCGCCA
65 TCGCAA
89304932 TATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGT-TTGAGGCTCAACT
1 TATGAGTTGATTTTGAAAC----A-T--AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACT
89304996 CACCTCTCGCAA
59 CACCTCTCGCAA
*
89305008 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTTAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
89305073 CGCAA
66 CGCAA
89305078 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
*
89305143 CGCCA
66 CGCAA
*
89305148 TATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCTCAACT
1 TATGAGTTGATTTTGAAAC----A-T--AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACT
89305213 CACCTCTCGCAA
59 CACCTCTCGCAA
*
89305225 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTTAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
89305290 CGCAA
66 CGCAA
89305295 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
89305360 CGCAA
66 CGCAA
89305365 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
89305430 CGCAA
66 CGCAA
*
89305435 TGTGAGTTGATTTT
1 TATGAGTTGATTTT
89305449 CTGTCACTTG
Statistics
Matches: 492, Mismatches: 10, Indels: 31
0.92 0.02 0.06
Matches are distributed among these distances:
69 23 0.05
70 319 0.65
71 11 0.02
72 2 0.00
73 1 0.00
74 2 0.00
75 2 0.00
76 43 0.09
77 89 0.18
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (70 bp):
TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
CGCAA
Found at i:89305248 original size:217 final size:217
Alignment explanation
Indices: 89304861--89305448 Score: 1084
Period size: 217 Copynumber: 2.7 Consensus size: 217
89304851 TCAACTCACC
89304861 TATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
1 TATGAGTTGA-TTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
89304926 TCGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTG-TTTGAGGC
65 TCGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGC
89304990 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTT
130 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTT
89305055 GAGGCTTAACTCACCTCTCGCAA
195 GAGGCTTAACTCACCTCTCGCAA
89305078 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
89305143 CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
66 CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
89305208 CAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTG
131 CAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTG
89305273 AGGCTTAACTCACCTCTCGCAA
196 AGGCTTAACTCACCTCTCGCAA
89305295 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
* *
89305360 CGCAATATGAGTTGATTTTGAAAC----A-T--AAATTGAAATTACCTCAACGTGTCTTGAGGCT
66 CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
*
89305418 CAACTCACCTCTCGCAATGTGAGTTGATTTT
131 CAACTCACCTCTCGCAATATGAGTTGATTTT
89305449 CTGTCACTTG
Statistics
Matches: 367, Mismatches: 3, Indels: 9
0.97 0.01 0.02
Matches are distributed among these distances:
210 61 0.17
212 1 0.00
213 1 0.00
216 110 0.30
217 194 0.53
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (217 bp):
TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
CAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTG
AGGCTTAACTCACCTCTCGCAA
Found at i:89309302 original size:2 final size:2
Alignment explanation
Indices: 89309297--89309348 Score: 58
Period size: 2 Copynumber: 28.0 Consensus size: 2
89309287 AACTAATGGC
*
89309297 AT AT AT AC AT A- AT AT AT AT AT AT A- AT A- AT A- 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
*
89309335 AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT
89309349 TAGAAATGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
1 4 0.10
2 38 0.90
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:89309319 original size:17 final size:17
Alignment explanation
Indices: 89309297--89309337 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
89309287 AACTAATGGC
89309297 ATATATACATAAT-ATAT
1 ATATATA-ATAATAATAT
89309314 ATATATAATAATAATAT
1 ATATATAATAATAATAT
89309331 ATATATA
1 ATATATA
89309338 TATATACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 5 0.22
17 18 0.78
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATATAATAATAATAT
Found at i:89309330 original size:15 final size:16
Alignment explanation
Indices: 89309266--89309335 Score: 65
Period size: 15 Copynumber: 4.4 Consensus size: 16
89309256 GTATTTAAGA
*
89309266 ATATATACATAAGAA-
1 ATATATACATAATAAT
***
89309281 ATATATA-ACTAATGGC
1 ATATATACA-TAATAAT
89309297 ATATATACATAATATAT
1 ATATATACATAATA-AT
89309314 ATATATA-ATAATAAT
1 ATATATACATAATAAT
89309329 ATATATA
1 ATATATA
89309336 TATATATACA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
14 1 0.02
15 19 0.42
16 17 0.38
17 8 0.18
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (16 bp):
ATATATACATAATAAT
Found at i:89309881 original size:11 final size:12
Alignment explanation
Indices: 89309865--89309901 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
89309855 AGAAAAAAAA
89309865 GGAAGAGAG-AG
1 GGAAGAGAGAAG
89309876 GGAAGAGAGAAG
1 GGAAGAGAGAAG
89309888 GG-AGAGAGAAG
1 GGAAGAGAGAAG
89309899 GGA
1 GGA
89309902 GGGGGAAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 20 0.83
12 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (12 bp):
GGAAGAGAGAAG
Found at i:89309902 original size:11 final size:11
Alignment explanation
Indices: 89309863--89309912 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
89309853 AAAGAAAAAA
*
89309863 AAGGAAGAGAG
1 AAGGGAGAGAG
89309874 -AGGGAAGAGAG
1 AAGGG-AGAGAG
89309885 AAGGGAGAGAG
1 AAGGGAGAGAG
* *
89309896 AAGGGAGGGGG
1 AAGGGAGAGAG
89309907 AAGGGA
1 AAGGGA
89309913 AATCCGGTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 3 0.09
11 27 0.79
12 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (11 bp):
AAGGGAGAGAG
Found at i:89310025 original size:16 final size:16
Alignment explanation
Indices: 89310001--89310043 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
89309991 AAAAAAAATC
* *
89310001 TTTTTTTTTTTTTTTA
1 TTTTATTTTTTTTATA
*
89310017 TTTTATTTTATTTATA
1 TTTTATTTTTTTTATA
89310033 TTTTATGTTTT
1 TTTTAT-TTTT
89310044 AATATATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.14, C:0.00, G:0.02, T:0.84
Consensus pattern (16 bp):
TTTTATTTTTTTTATA
Found at i:89310206 original size:14 final size:15
Alignment explanation
Indices: 89310172--89310206 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
89310162 TTTTTTGGTT
89310172 TTTTTTTGCTGGAAA
1 TTTTTTTGCTGGAAA
89310187 -TTTTTT-CTGGAAA
1 TTTTTTTGCTGGAAA
89310200 TTTTTTT
1 TTTTTTT
89310207 TGGTGCTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.17, C:0.06, G:0.14, T:0.63
Consensus pattern (15 bp):
TTTTTTTGCTGGAAA
Found at i:89310214 original size:32 final size:30
Alignment explanation
Indices: 89310170--89310243 Score: 96
Period size: 32 Copynumber: 2.4 Consensus size: 30
89310160 TTTTTTTTGG
89310170 TTTTTTTTTGCTGGAAATTTTTT-CTGGAAA
1 TTTTTTTTTGCTGG-AATTTTTTGCTGGAAA
**
89310200 TTTTTTTTGGTGCTGGAATTTTTTGCTGGATT
1 TTTTTTTT--TGCTGGAATTTTTTGCTGGAAA
89310232 TTTTTTTTTGCT
1 TTTTTTTTTGCT
89310244 TCCCCTCTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
30 12 0.31
31 8 0.21
32 19 0.49
ACGTcount: A:0.12, C:0.07, G:0.19, T:0.62
Consensus pattern (30 bp):
TTTTTTTTTGCTGGAATTTTTTGCTGGAAA
Found at i:89310229 original size:13 final size:14
Alignment explanation
Indices: 89310173--89310205 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
89310163 TTTTTGGTTT
89310173 TTTTTTGCTGGAAA
1 TTTTTTGCTGGAAA
89310187 TTTTTT-CTGGAAA
1 TTTTTTGCTGGAAA
89310200 TTTTTT
1 TTTTTT
89310206 TTGGTGCTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.18, C:0.06, G:0.15, T:0.61
Consensus pattern (14 bp):
TTTTTTGCTGGAAA
Found at i:89310684 original size:35 final size:35
Alignment explanation
Indices: 89310644--89310749 Score: 194
Period size: 35 Copynumber: 3.0 Consensus size: 35
89310634 GGGGTGTGTG
*
89310644 ATGGTGCTGGCGGCAGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
*
89310679 GTGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
89310714 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
89310749 A
1 A
89310750 GAGGCAAGTG
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
35 68 1.00
ACGTcount: A:0.23, C:0.12, G:0.49, T:0.16
Consensus pattern (35 bp):
ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
Found at i:89311534 original size:48 final size:50
Alignment explanation
Indices: 89311458--89311604 Score: 183
Period size: 54 Copynumber: 2.9 Consensus size: 50
89311448 ATATGACCTA
**
89311458 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAACAA-AA-
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAATAAC
* *
89311506 AGG-TACAACTCACCTCTCGCAATATGAGTTGCTTTTTGAAAGACAGAAATTAAC
1 AGGCT-CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-A-A-CAA-TAAC
*
89311560 AGGCTCAACTCACCTCTCGCAATGTGAGTTGATTTTTGAAAAACA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA
89311605 GGAATTGGAA
Statistics
Matches: 84, Mismatches: 7, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
47 1 0.01
48 36 0.43
49 1 0.01
50 1 0.01
51 3 0.04
52 1 0.01
53 3 0.04
54 37 0.44
55 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (50 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAATAAC
Found at i:89311884 original size:70 final size:70
Alignment explanation
Indices: 89311661--89312248 Score: 980
Period size: 70 Copynumber: 8.2 Consensus size: 70
89311651 TCAACTCACC
89311661 TATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
1 TATGAGTTGA-TTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
*
89311726 TCGCCA
65 TCGCAA
89311732 TATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGT-TTGAGGCTCAACT
1 TATGAGTTGATTTTGAAAC----A-T--AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACT
89311796 CACCTCTCGCAA
59 CACCTCTCGCAA
*
89311808 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTTAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
89311873 CGCAA
66 CGCAA
89311878 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
*
89311943 CGCCA
66 CGCAA
*
89311948 TATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCTCAACT
1 TATGAGTTGATTTTGAAAC----A-T--AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACT
89312013 CACCTCTCGCAA
59 CACCTCTCGCAA
*
89312025 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTTAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
89312090 CGCAA
66 CGCAA
89312095 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
89312160 CGCAA
66 CGCAA
89312165 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
89312230 CGCAA
66 CGCAA
*
89312235 TGTGAGTTGATTTT
1 TATGAGTTGATTTT
89312249 CTGTCACTTG
Statistics
Matches: 492, Mismatches: 10, Indels: 31
0.92 0.02 0.06
Matches are distributed among these distances:
69 23 0.05
70 319 0.65
71 11 0.02
72 2 0.00
73 1 0.00
74 2 0.00
75 2 0.00
76 43 0.09
77 89 0.18
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (70 bp):
TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
CGCAA
Found at i:89312048 original size:217 final size:217
Alignment explanation
Indices: 89311661--89312248 Score: 1084
Period size: 217 Copynumber: 2.7 Consensus size: 217
89311651 TCAACTCACC
89311661 TATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
1 TATGAGTTGA-TTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
89311726 TCGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTG-TTTGAGGC
65 TCGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGC
89311790 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTT
130 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTT
89311855 GAGGCTTAACTCACCTCTCGCAA
195 GAGGCTTAACTCACCTCTCGCAA
89311878 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
89311943 CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
66 CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
89312008 CAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTG
131 CAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTG
89312073 AGGCTTAACTCACCTCTCGCAA
196 AGGCTTAACTCACCTCTCGCAA
89312095 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
* *
89312160 CGCAATATGAGTTGATTTTGAAAC----A-T--AAATTGAAATTACCTCAACGTGTCTTGAGGCT
66 CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
*
89312218 CAACTCACCTCTCGCAATGTGAGTTGATTTT
131 CAACTCACCTCTCGCAATATGAGTTGATTTT
89312249 CTGTCACTTG
Statistics
Matches: 367, Mismatches: 3, Indels: 9
0.97 0.01 0.02
Matches are distributed among these distances:
210 61 0.17
212 1 0.00
213 1 0.00
216 110 0.30
217 194 0.53
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (217 bp):
TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
CAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTG
AGGCTTAACTCACCTCTCGCAA
Found at i:89324574 original size:22 final size:21
Alignment explanation
Indices: 89324542--89324591 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 21
89324532 AACTAATGGC
*
89324542 ATATATACATAATATATATAT
1 ATATACACATAATATATATAT
89324563 ATAATACACATAATATATATAT
1 AT-ATACACATAATATATATAT
89324585 ATATACA
1 ATATACA
89324592 TATTAGAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 7 0.26
22 20 0.74
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATACACATAATATATATAT
Found at i:89325446 original size:14 final size:15
Alignment explanation
Indices: 89325411--89325446 Score: 65
Period size: 14 Copynumber: 2.5 Consensus size: 15
89325401 TTTTTGGTTT
89325411 TTTTTTTGCTGGAAA
1 TTTTTTTGCTGGAAA
89325426 TTTTTTT-CTGGAAA
1 TTTTTTTGCTGGAAA
89325440 TTTTTTT
1 TTTTTTT
89325447 TGGTGCTGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.17, C:0.06, G:0.14, T:0.64
Consensus pattern (15 bp):
TTTTTTTGCTGGAAA
Found at i:89325447 original size:15 final size:16
Alignment explanation
Indices: 89325410--89325448 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
89325400 TTTTTTGGTT
89325410 TTTTTTTTGCTGGAAA
1 TTTTTTTTGCTGGAAA
89325426 -TTTTTTT-CTGGAAA
1 TTTTTTTTGCTGGAAA
89325440 TTTTTTTTG
1 TTTTTTTTG
89325449 GTGCTGGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.15, C:0.05, G:0.15, T:0.64
Consensus pattern (16 bp):
TTTTTTTTGCTGGAAA
Found at i:89325460 original size:32 final size:32
Alignment explanation
Indices: 89325408--89325483 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
89325398 TTTTTTTTGG
* *
89325408 TTTTTTTTTTGCTGGAAATTTTTTTCTGGAAA
1 TTTTTTTTGTGCTGGAAATTTTTTGCTGGAAA
*
89325440 TTTTTTTTGGTGCTGG-AATTTTTTGCTGG-AT
1 TTTTTTTT-GTGCTGGAAATTTTTTGCTGGAAA
*
89325471 TTTTTTTTTTGCT
1 TTTTTTTTGTGCT
89325484 TCCCCTCTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
30 4 0.10
31 9 0.23
32 20 0.51
33 6 0.15
ACGTcount: A:0.12, C:0.07, G:0.18, T:0.63
Consensus pattern (32 bp):
TTTTTTTTGTGCTGGAAATTTTTTGCTGGAAA
Found at i:89325475 original size:14 final size:15
Alignment explanation
Indices: 89325410--89325477 Score: 63
Period size: 15 Copynumber: 4.5 Consensus size: 15
89325400 TTTTTTGGTT
89325410 TTTTTTTTGCTGGAA
1 TTTTTTTTGCTGGAA
*
89325425 ATTTTTTT-CTGGAAA
1 TTTTTTTTGCTGG-AA
89325440 TTTTTTTTGGTGCTGGAA
1 -TTTTTTT--TGCTGGAA
89325458 --TTTTTTGCTGG-A
1 TTTTTTTTGCTGGAA
89325470 TTTTTTTT
1 TTTTTTTT
89325478 TTTGCTTCCC
Statistics
Matches: 44, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
12 1 0.02
13 6 0.14
14 10 0.23
15 14 0.32
16 6 0.14
18 3 0.07
19 4 0.09
ACGTcount: A:0.13, C:0.06, G:0.19, T:0.62
Consensus pattern (15 bp):
TTTTTTTTGCTGGAA
Found at i:89325925 original size:35 final size:35
Alignment explanation
Indices: 89325885--89325990 Score: 185
Period size: 35 Copynumber: 3.0 Consensus size: 35
89325875 GGGGTGTGTG
*
89325885 ATGGTGCTGGCGGCAGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
*
89325920 GTGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
*
89325955 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTAGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
89325990 A
1 A
89325991 GAGGCAAGTG
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 67 1.00
ACGTcount: A:0.24, C:0.12, G:0.48, T:0.16
Consensus pattern (35 bp):
ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
Found at i:89326584 original size:17 final size:17
Alignment explanation
Indices: 89326571--89326662 Score: 51
Period size: 17 Copynumber: 5.2 Consensus size: 17
89326561 CATTTTTTAT
89326571 TTTTTTAAATTTTTAAA
1 TTTTTTAAATTTTTAAA
** *
89326588 TTTTTTATCTTTTACAAA
1 TTTTTTAAATTTT-TAAA
*
89326606 TTTTTAATATAATTTTAATAA
1 TTTTT--TA-AATTTTTA-AA
* * **
89326627 TTTTCTATATTTTTGGA
1 TTTTTTAAATTTTTAAA
*
89326644 TTTTTT-ATTTTTTAAA
1 TTTTTTAAATTTTTAAA
89326660 TTT
1 TTT
89326663 AAAAAATTAA
Statistics
Matches: 54, Mismatches: 16, Indels: 11
0.67 0.20 0.14
Matches are distributed among these distances:
16 9 0.17
17 17 0.31
18 13 0.24
19 2 0.04
20 3 0.06
21 10 0.19
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.65
Consensus pattern (17 bp):
TTTTTTAAATTTTTAAA
Found at i:89327549 original size:9 final size:9
Alignment explanation
Indices: 89327535--89327631 Score: 81
Period size: 9 Copynumber: 10.4 Consensus size: 9
89327525 TTTTTCACAA
89327535 AAAAATATT
1 AAAAATATT
89327544 AAAAATCA-T
1 AAAAAT-ATT
*
89327553 AAATATATAT
1 AAAAATAT-T
*
89327563 AAAATTATT
1 AAAAATATT
89327572 AAAAATATT
1 AAAAATATT
*
89327581 AAAAACATT
1 AAAAATATT
*
89327590 AAATATTATT
1 AAA-AATATT
89327600 AAAAAATATAT
1 -AAAAATAT-T
*
89327611 AAAAA-AAT
1 AAAAATATT
*
89327619 AAAACTATT
1 AAAAATATT
89327628 AAAA
1 AAAA
89327632 TTTATACAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 14
0.74 0.12 0.15
Matches are distributed among these distances:
8 6 0.09
9 39 0.56
10 21 0.30
11 4 0.06
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (9 bp):
AAAAATATT
Found at i:89327599 original size:19 final size:18
Alignment explanation
Indices: 89327539--89327604 Score: 71
Period size: 19 Copynumber: 3.6 Consensus size: 18
89327529 TCACAAAAAA
89327539 ATATTAAAAATCA-TAAAT
1 ATATTAAAAA-CATTAAAT
** *
89327557 ATATATAAAATTATTAAAA
1 ATAT-TAAAAACATTAAAT
89327576 ATATTAAAAACATTAAAT
1 ATATTAAAAACATTAAAT
89327594 ATTATTAAAAA
1 A-TATTAAAAA
89327605 ATATATAAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
18 17 0.44
19 22 0.56
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
ATATTAAAAACATTAAAT
Found at i:89327637 original size:28 final size:28
Alignment explanation
Indices: 89327531--89327631 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 28
89327521 ATATTTTTTC
* * *
89327531 ACAA-AAAAATATTAAAAAT-CATAAAT
1 ACAATAAAATTATTAAAAATATATAAAA
*
89327557 ATATATAAAATTATTAAAAATAT-TAAAA
1 ACA-ATAAAATTATTAAAAATATATAAAA
*
89327585 ACATTAAATATTATTAAAAAATATATAAAA
1 ACAATAAA-ATTATT-AAAAATATATAAAA
*
89327615 A-AATAAAACTATTAAAA
1 ACAATAAAATTATTAAAA
89327632 TTTATACAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
26 2 0.03
27 9 0.15
28 31 0.51
29 13 0.21
30 6 0.10
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (28 bp):
ACAATAAAATTATTAAAAATATATAAAA
Found at i:89327657 original size:9 final size:9
Alignment explanation
Indices: 89327543--89327974 Score: 83
Period size: 10 Copynumber: 45.7 Consensus size: 9
89327533 AAAAAAATAT
*
89327543 TAAAAATCA
1 TAAAAATTA
*
89327552 TAAATA-TA
1 TAAAAATTA
89327560 TATAAAATTA
1 TA-AAAATTA
89327570 TTAAAAA-TA
1 -TAAAAATTA
*
89327579 TTAAAAA-CA
1 -TAAAAATTA
*
89327588 TTAAATATTA
1 -TAAAAATTA
89327598 TTAAAAAATATA
1 -T-AAAAAT-TA
*
89327610 TAAAAA-AA
1 TAAAAATTA
*
89327618 T-AAAACTA
1 TAAAAATTA
*
89327626 TTAAAATTTA
1 -TAAAAATTA
*
89327636 TACAAACTTA
1 TA-AAAATTA
89327646 TAAAAATTA
1 TAAAAATTA
89327655 TAAAAAAATTAA
1 T--AAAAATT-A
89327667 TAAAAATTA
1 TAAAAATTA
89327676 TAAAAA-TA
1 TAAAAATTA
*
89327684 T-AAAATTC
1 TAAAAATTA
* *
89327692 TAATGAATTC
1 TAA-AAATTA
** *
89327702 T-AATTTTT
1 TAAAAATTA
89327710 TATAAAATTAA
1 TA-AAAATT-A
89327721 TTAAACATATT-
1 -TAAA-A-ATTA
89327732 TAAAAATTTA
1 TAAAAA-TTA
*
89327742 TGAAGACA-TA
1 T-AA-AAATTA
*
89327752 TAAAAATTCT
1 TAAAAATT-A
89327762 TAAAAACTTA
1 TAAAAA-TTA
**
89327772 TAAAAAAACA
1 T-AAAAATTA
*
89327782 TAAAAA-AA
1 TAAAAATTA
*
89327790 TAAATA-T-
1 TAAAAATTA
89327797 TAAAAA-TA
1 TAAAAATTA
*
89327805 TTAAAATTGA
1 TAAAAATT-A
*
89327815 TATAAACTTA
1 TA-AAAATTA
89327825 TAAAAATTA
1 TAAAAATTA
* *
89327834 TAGGAAATCA
1 TA-AAAATTA
89327844 TAAAAATTA
1 TAAAAATTA
89327853 T-AAAA-TA
1 TAAAAATTA
** *
89327860 TAGTCACTTA
1 TA-AAAATTA
*
89327870 TAAAAA-AA
1 TAAAAATTA
89327878 CTATAAAATTA
1 -TA-AAAATTA
89327889 -ATAAAATATA
1 TA-AAAAT-TA
*
89327899 TAAAATTTTA
1 TAAAA-ATTA
*
89327909 TGAAAACTTA
1 T-AAAAATTA
*
89327919 TGAAAATTCA
1 TAAAAATT-A
89327929 TAAAAACTTA
1 TAAAAA-TTA
89327939 TAAATAA-TA
1 TAAA-AATTA
89327948 TAATAAATTA
1 TAA-AAATTA
*
89327958 TTATAAATTA
1 -TAAAAATTA
89327968 TATAAAA
1 TA-AAAA
89327975 AATTATTTAA
Statistics
Matches: 316, Mismatches: 55, Indels: 103
0.67 0.12 0.22
Matches are distributed among these distances:
7 17 0.05
8 33 0.10
9 94 0.30
10 116 0.37
11 44 0.14
12 9 0.03
13 3 0.01
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.34
Consensus pattern (9 bp):
TAAAAATTA
Found at i:89327669 original size:12 final size:11
Alignment explanation
Indices: 89327647--89327681 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
89327637 ACAAACTTAT
89327647 AAAAATTATAA
1 AAAAATTATAA
*
89327658 AAAAATTA-AT
1 AAAAATTATAA
89327668 AAAAATTATAA
1 AAAAATTATAA
89327679 AAA
1 AAA
89327682 TATAAAATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:89327750 original size:22 final size:21
Alignment explanation
Indices: 89327708--89327759 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
89327698 ATTCTAATTT
*
89327708 TTTATAAAATTAATTAAACATA
1 TTTA-AAAATTAATGAAACATA
*
89327730 TTTAAAAATTTATGAAGACATA
1 TTTAAAAATTAATGAA-ACATA
89327752 --TAAAAATT
1 TTTAAAAATT
89327760 CTTAAAAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 8 0.30
21 10 0.37
22 9 0.33
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (21 bp):
TTTAAAAATTAATGAAACATA
Found at i:89327950 original size:19 final size:19
Alignment explanation
Indices: 89327928--89327980 Score: 61
Period size: 22 Copynumber: 2.6 Consensus size: 19
89327918 ATGAAAATTC
*
89327928 ATAAAAACTTATAAATAAT
1 ATAAAAAATTATAAATAAT
*
89327947 ATAATAAATTATTATAAATTAT
1 ATAA-AAA--ATTATAAATAAT
89327969 ATAAAAAATTAT
1 ATAAAAAATTAT
89327981 TTAAACCCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 9 0.31
20 3 0.10
21 3 0.10
22 14 0.48
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAAAAAATTATAAATAAT
Found at i:89327961 original size:22 final size:22
Alignment explanation
Indices: 89327936--89327985 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
89327926 TCATAAAAAC
*
89327936 TTATAAATAATATAATAAATTA
1 TTATAAATAATATAAAAAATTA
*
89327958 TTATAAATTATATAAAAAATTA
1 TTATAAATAATATAAAAAATTA
89327980 TT-TAAA
1 TTATAAA
89327986 CCCCTAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
TTATAAATAATATAAAAAATTA
Found at i:89328601 original size:16 final size:18
Alignment explanation
Indices: 89328570--89328602 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
89328560 ATTTTTTAGA
89328570 TTTTTATAAATATTTATT
1 TTTTTATAAATATTTATT
89328588 TTTTTA-AAAT-TTTAT
1 TTTTTATAAATATTTAT
89328603 AAACTTATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 4 0.27
18 6 0.40
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTATAAATATTTATT
Found at i:89330120 original size:3 final size:3
Alignment explanation
Indices: 89330112--89330160 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
89330102 AAGAGATAGT
89330112 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
89330160 G
1 G
89330161 GAGATAGCGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:89334327 original size:23 final size:23
Alignment explanation
Indices: 89334276--89334327 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
89334266 ACATGATTAG
*
89334276 TAATTAGTTAAGTTAATTAAATA
1 TAATTAGTTAAATTAATTAAATA
* *
89334299 TGATTAGTTAAATTAATTAAATT
1 TAATTAGTTAAATTAATTAAATA
89334322 TAATTA
1 TAATTA
89334328 ACCTATAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (23 bp):
TAATTAGTTAAATTAATTAAATA
Found at i:89338590 original size:19 final size:19
Alignment explanation
Indices: 89338566--89338603 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
89338556 TTTCATGGTC
89338566 TAGCCTCTAGTAAGATGAA
1 TAGCCTCTAGTAAGATGAA
89338585 TAGCCTCTAGTAAGATGAA
1 TAGCCTCTAGTAAGATGAA
89338604 AACTAGATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (19 bp):
TAGCCTCTAGTAAGATGAA
Found at i:89338691 original size:23 final size:23
Alignment explanation
Indices: 89338665--89338709 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
89338655 AGACCCATGA
*
89338665 CATGATAT-GTCTATTGGAATATT
1 CATGATATAGCCT-TTGGAATATT
*
89338688 CATGGTATAGCCTTTGGAATAT
1 CATGATATAGCCTTTGGAATAT
89338710 GTAAATTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (23 bp):
CATGATATAGCCTTTGGAATATT
Found at i:89341215 original size:18 final size:17
Alignment explanation
Indices: 89341185--89341221 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
89341175 AATAGAAATT
89341185 AAAAACCAAAAATAAAA
1 AAAAACCAAAAATAAAA
*
89341202 AAAAACACACAAATAAAA
1 AAAAAC-CAAAAATAAAA
89341220 AA
1 AA
89341222 TCCAAATTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.81, C:0.14, G:0.00, T:0.05
Consensus pattern (17 bp):
AAAAACCAAAAATAAAA
Found at i:89347012 original size:40 final size:40
Alignment explanation
Indices: 89346953--89347160 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
89346943 CAATTGAATG
* * * *
89346953 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
89346993 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
89347033 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
89347073 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
89347113 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
89347153 ATATCCGG
1 ATATCCGG
89347161 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:89347091 original size:80 final size:80
Alignment explanation
Indices: 89346955--89347160 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
89346945 ATTGAATGAT
* * ** * * *
89346955 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
89347019 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
89347035 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
89347100 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
89347115 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
89347161 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:89355033 original size:40 final size:40
Alignment explanation
Indices: 89354974--89355181 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
89354964 CAATTGAATG
* * * *
89354974 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
89355014 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
89355054 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
89355094 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
89355134 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
89355174 ATATCCGG
1 ATATCCGG
89355182 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:89355112 original size:80 final size:80
Alignment explanation
Indices: 89354976--89355181 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
89354966 ATTGAATGAT
* * ** * * *
89354976 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
89355040 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
89355056 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
89355121 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
89355136 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
89355182 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:89365276 original size:56 final size:54
Alignment explanation
Indices: 89365176--89365336 Score: 162
Period size: 56 Copynumber: 2.9 Consensus size: 54
89365166 AGGGAAAGAA
* **
89365176 GCCAAAGTGAAAACCCGTAAAGGGCGCTTTGAGACTTTTCAAAAAAAAAAAAAGG
1 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTAAT-AAAAAAAAAAAAAGG
** * * ***
89365231 GTCCAAAGTGTGAACCCGCAAAAGGCGCTTTGAGACTAA-ATAAAAATGGAAAGG
1 G-CCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTAATAAAAAAAAAAAAAGG
* * * *
89365285 GCCGAAGTGAAAACCCGCAAAGGGCACTTTGAGACTCAATAACAATAAAAAA
1 GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACT-AATAAAAAAAAAAAA
89365337 GGAAAAAGAG
Statistics
Matches: 82, Mismatches: 21, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
53 30 0.37
54 14 0.17
55 7 0.09
56 31 0.38
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.16
Consensus pattern (54 bp):
GCCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTAATAAAAAAAAAAAAAGG
Found at i:89365301 original size:53 final size:53
Alignment explanation
Indices: 89365177--89365338 Score: 166
Period size: 53 Copynumber: 3.0 Consensus size: 53
89365167 GGGAAAGAAG
*
89365177 CCAAAGTGAAAACCCGTAAAGGGCGCTTTGAGACTTTTCAAA-AAAAAAAAAAGGGT
1 CCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGAC---T-AAATAAAAAAAAAAGGGT
** * **
89365233 CCAAAGTGTGAACCCGCAAAAGGCGCTTTGAGACTAAATAAAAATGGAAAGGG-
1 CCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTAAATAAAAA-AAAAAGGGT
* * *
89365286 CCGAAGTGAAAACCCGCAAAGGGCACTTTGAGACTCAATAACAATAAAAAAGG
1 CCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTAAATAA-AA-AAAAAAGG
89365339 AAAAAGAGAA
Statistics
Matches: 88, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
52 3 0.03
53 41 0.47
54 13 0.15
55 1 0.01
56 30 0.34
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.15
Consensus pattern (53 bp):
CCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGACTAAATAAAAAAAAAAGGGT
Found at i:89365350 original size:53 final size:53
Alignment explanation
Indices: 89365243--89365350 Score: 117
Period size: 53 Copynumber: 2.0 Consensus size: 53
89365233 CCAAAGTGTG
* ** * *** *
89365243 AACCCGCAAAAGGCGCTTTGAGACTAAATAAAAATGGAAAGGGCCGAAGTGAA
1 AACCCGCAAAAGGCACTTTGAGACTAAATAAAAATAAAAAAGGAAAAAGAGAA
* * *
89365296 AACCCGCAAAGGGCACTTTGAGACTCAATAACAATAAAAAAGGAAAAAGAGAA
1 AACCCGCAAAAGGCACTTTGAGACTAAATAAAAATAAAAAAGGAAAAAGAGAA
89365349 AA
1 AA
89365351 GGAGAGGCCA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.49, C:0.17, G:0.22, T:0.12
Consensus pattern (53 bp):
AACCCGCAAAAGGCACTTTGAGACTAAATAAAAATAAAAAAGGAAAAAGAGAA
Found at i:89366588 original size:43 final size:45
Alignment explanation
Indices: 89366527--89366611 Score: 104
Period size: 43 Copynumber: 1.9 Consensus size: 45
89366517 CTCATCTCTC
**
89366527 TGAGGTAACAAGAGAGCAGGTTGAAGAATG-AG-TCTTATCTTCT
1 TGAGGTAACAAGAGAGCAGACTGAAGAATGAAGATCTTATCTTCT
* *
89366570 TGAGGTAGCAAG-GAAGCAGACTGAAGAGTGAAGATCTTATCT
1 TGAGGTAACAAGAG-AGCAGACTGAAGAATGAAGATCTTATCT
89366612 CCCAAAGTAG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
42 1 0.03
43 24 0.69
44 2 0.06
45 8 0.23
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (45 bp):
TGAGGTAACAAGAGAGCAGACTGAAGAATGAAGATCTTATCTTCT
Found at i:89366772 original size:163 final size:163
Alignment explanation
Indices: 89366502--89366825 Score: 436
Period size: 163 Copynumber: 2.0 Consensus size: 163
89366492 CAATGGAGCA
* *
89366502 GATTTTACCACCAGCCTCATCTCTCTGAGGTAACAAGAGAGCAGGTTGAAGAATGAGTCTTATCT
1 GATTTTACCACCAGCCTCATCCCTCTGAGGTAACAAGAGAGCAGGTTAAAGAATGAGTCTTATCT
* * *
89366567 TCTTGAGGTAGCAAGGAAGCAGACTGAAGAGTGAAGATCTTATCTCCCAAAGTAGTAGCGGAGCA
66 TCTTGAGGAAGCAAGAAAGCAGACTGAAGAGTGAAGATCTTATCTCCCAAAGCAGTAGCGGAGCA
* *
89366632 GATCGAAAAAGGCAAATCTTATCTTCATGTATC
131 GATCGAAAAAGACAAATCTTATCTCCATGTATC
* * * * *
89366665 GATTTTATCACTAGCCTTATCCCTCTGGGGTAGCAAGAGAGCAGGTTAAAG-ATGGAGTCTTATC
1 GATTTTACCACCAGCCTCATCCCTCTGAGGTAACAAGAGAGCAGGTTAAAGAAT-GAGTCTTATC
** * * *
89366729 TT-TCTGAGGAAGCAAGAAATTAGACTGAAGATTGAAGATCTTATTTCCCTAAGCAGTAGCGGAG
65 TTCT-TGAGGAAGCAAGAAAGCAGACTGAAGAGTGAAGATCTTATCTCCCAAAGCAGTAGCGGAG
* * *
89366793 CAGATCGGAGATGACAAATCTTATCTCCATGTA
129 CAGATCGAAAAAGACAAATCTTATCTCCATGTA
89366826 CCGGCAATGG
Statistics
Matches: 139, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
162 3 0.02
163 136 0.98
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (163 bp):
GATTTTACCACCAGCCTCATCCCTCTGAGGTAACAAGAGAGCAGGTTAAAGAATGAGTCTTATCT
TCTTGAGGAAGCAAGAAAGCAGACTGAAGAGTGAAGATCTTATCTCCCAAAGCAGTAGCGGAGCA
GATCGAAAAAGACAAATCTTATCTCCATGTATC
Found at i:89369630 original size:21 final size:20
Alignment explanation
Indices: 89369592--89369632 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
89369582 ACATGTACAA
89369592 TTTATATAATTACTTAATTT
1 TTTATATAATTACTTAATTT
89369612 TTTATCATACATTA-TTAATTT
1 TTTAT-ATA-ATTACTTAATTT
89369633 CATGCTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 10 0.53
22 4 0.21
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTATATAATTACTTAATTT
Found at i:89382044 original size:19 final size:22
Alignment explanation
Indices: 89382005--89382044 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
89381995 AGAAACCCAA
89382005 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
89382027 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
89382045 GTGTGGGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:89382144 original size:27 final size:27
Alignment explanation
Indices: 89382113--89382245 Score: 137
Period size: 27 Copynumber: 4.9 Consensus size: 27
89382103 CTGCCAGAAT
* *
89382113 AGATAATGTGACAGAGTCACCAGATAC
1 AGATAATGTGGCAGAGCCACCAGATAC
*
89382140 AGATAATCGTGGCAGAGCCACTAGA-AC
1 AGATAAT-GTGGCAGAGCCACCAGATAC
89382167 AGATATATGTGGCAGAGCCACCAGAT-C
1 AGATA-ATGTGGCAGAGCCACCAGATAC
* * *
89382194 AGATATTTGTAGCAGAGCCACCAGAT-T
1 AGATA-ATGTGGCAGAGCCACCAGATAC
* *
89382221 AGATATTTGTGGCATAGCCACCAGA
1 AGATA-ATGTGGCAGAGCCACCAGA
89382246 ACGCTTCCTC
Statistics
Matches: 94, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
27 78 0.83
28 16 0.17
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.20
Consensus pattern (27 bp):
AGATAATGTGGCAGAGCCACCAGATAC
Found at i:89382209 original size:54 final size:55
Alignment explanation
Indices: 89382106--89382245 Score: 176
Period size: 54 Copynumber: 2.6 Consensus size: 55
89382096 AGCATGGCTG
* * *
89382106 CCAGAATAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAATAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTAGCAGAGCCA
* * * *
89382160 CTAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATATTTGTAGCAGAGCCA
1 CCAGAATAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTAGCAGAGCCA
* * *
89382214 CCAGATTAGATATTTGTGGCATAGCCACCAGA
1 CCAGAATAGATATATGTGGCAGAGCCACCAGA
89382246 ACGCTTCCTC
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
54 55 0.75
55 18 0.25
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.20
Consensus pattern (55 bp):
CCAGAATAGATATATGTGGCAGAGCCACCAGATACAGATAATCGTAGCAGAGCCA
Found at i:89383901 original size:26 final size:26
Alignment explanation
Indices: 89383865--89383974 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
89383855 CATTAAATTC
89383865 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
89383891 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
89383917 TTATCATGAAATATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
89383943 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
89383969 TTATCA
1 TTATCA
89383975 ATTTGTACCA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.38, C:0.24, G:0.04, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:89390239 original size:2 final size:2
Alignment explanation
Indices: 89390232--89390259 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
89390222 TTATTATAGA
89390232 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
89390260 GATTTACTAA
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:89391035 original size:18 final size:19
Alignment explanation
Indices: 89390986--89391028 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
89390976 TAAATGGATA
*
89390986 ATTATCTAATT-AAT-TTT
1 ATTATTTAATTAAATATTT
89391003 ATTATTTAATTAAATATTT
1 ATTATTTAATTAAATATTT
89391022 ATT-TTTA
1 ATTATTTA
89391029 GATAAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 10 0.43
18 7 0.30
19 6 0.26
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTATTTAATTAAATATTT
Found at i:89392491 original size:26 final size:29
Alignment explanation
Indices: 89392461--89392524 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 29
89392451 AAGCAATAGG
*
89392461 TAATAATAAATATAATAAT-AG-A-AATA
1 TAATAATAAAGATAATAATAAGTATAATA
* *
89392487 TAATATTAAAGATAATACTAAGTATAATA
1 TAATAATAAAGATAATAATAAGTATAATA
89392516 TAATAATAA
1 TAATAATAA
89392525 TAATGTAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 16 0.52
27 2 0.06
28 1 0.03
29 12 0.39
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.33
Consensus pattern (29 bp):
TAATAATAAAGATAATAATAAGTATAATA
Found at i:89392533 original size:14 final size:14
Alignment explanation
Indices: 89392461--89392536 Score: 59
Period size: 14 Copynumber: 5.3 Consensus size: 14
89392451 AAGCAATAGG
89392461 TAATAATAAATATAA
1 TAATAAT-AATATAA
89392476 TAATAGA-AATATAA
1 TAATA-ATAATATAA
* *
89392490 TATTAA-AGATAATAC
1 TAATAATA-AT-ATAA
89392505 TAAGT-ATAATATAA
1 TAA-TAATAATATAA
*
89392519 TAATAATAATGTAA
1 TAATAATAATATAA
89392533 TAAT
1 TAAT
89392537 GATAGTAATG
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
13 3 0.06
14 31 0.62
15 13 0.26
16 3 0.06
ACGTcount: A:0.59, C:0.01, G:0.05, T:0.34
Consensus pattern (14 bp):
TAATAATAATATAA
Found at i:89393261 original size:14 final size:14
Alignment explanation
Indices: 89393242--89393289 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
89393232 AAAAGAGAAG
89393242 AAAGAGAAGGGAGAA
1 AAAGAGAAGGGAG-A
*
89393257 AAGAGAGAAGGGAGG
1 AA-AGAGAAGGGAGA
* *
89393272 AAAGAGAGGGGGGA
1 AAAGAGAAGGGAGA
89393286 AAAG
1 AAAG
89393290 GGGAGAGCTC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 13 0.46
15 4 0.14
16 11 0.39
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (14 bp):
AAAGAGAAGGGAGA
Found at i:89393285 original size:16 final size:16
Alignment explanation
Indices: 89393244--89393279 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
89393234 AAGAGAAGAA
89393244 AGAGAAGGGAGAAAAG
1 AGAGAAGGGAGAAAAG
*
89393260 AGAGAAGGGAGGAAAG
1 AGAGAAGGGAGAAAAG
89393276 AGAG
1 AGAG
89393280 GGGGGAAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (16 bp):
AGAGAAGGGAGAAAAG
Found at i:89402480 original size:33 final size:30
Alignment explanation
Indices: 89402420--89402489 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 30
89402410 AGAAAAATAT
*
89402420 ATATATATATATATAAATAATAGTATTAGAA
1 ATATATATATATATAAATAATAATATTA-AA
* *
89402451 ATCATATAGTATATATAACTGATAATATTAAA
1 AT-ATATA-TATATATAAATAATAATATTAAA
89402483 ATATATA
1 ATATATA
89402490 CATAATATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 7 0.21
32 9 0.26
33 18 0.53
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.39
Consensus pattern (30 bp):
ATATATATATATATAAATAATAATATTAAA
Found at i:89402665 original size:14 final size:16
Alignment explanation
Indices: 89402636--89402667 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
89402626 AGGTAAATAT
89402636 AATAAAATGATATTAA
1 AATAAAATGATATTAA
89402652 AATAAAA-G-TATTAA
1 AATAAAATGATATTAA
89402666 AA
1 AA
89402668 ACAGTAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 1 0.06
16 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (16 bp):
AATAAAATGATATTAA
Found at i:89402713 original size:3 final size:3
Alignment explanation
Indices: 89402705--89402743 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
89402695 ACAAGGATAT
89402705 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
89402744 TTGAAACACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:89402856 original size:3 final size:3
Alignment explanation
Indices: 89402848--89402914 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
89402838 AATGTATTTC
89402848 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
89402896 AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
89402915 TTGAAATGCA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:89403513 original size:12 final size:12
Alignment explanation
Indices: 89403496--89403525 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
89403486 AAGGTAATTT
89403496 TTTTTTTGTATA
1 TTTTTTTGTATA
89403508 TTTTTTTGTATA
1 TTTTTTTGTATA
89403520 TTTTTT
1 TTTTTT
89403526 ATGTTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (12 bp):
TTTTTTTGTATA
Found at i:89403957 original size:34 final size:35
Alignment explanation
Indices: 89403904--89403971 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 35
89403894 GAGTGTGTGA
*
89403904 TGGTGTTGGTGGCAGACAGCATGGGAGAATGGGAG
1 TGGTGCTGGTGGCAGACAGCATGGGAGAATGGGAG
*
89403939 TGGTGCTGGTGGCA-ACAGCATGGGAGAGTGGGA
1 TGGTGCTGGTGGCAGACAGCATGGGAGAATGGGA
89403972 AGAGGCAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 18 0.58
35 13 0.42
ACGTcount: A:0.22, C:0.10, G:0.49, T:0.19
Consensus pattern (35 bp):
TGGTGCTGGTGGCAGACAGCATGGGAGAATGGGAG
Found at i:89404781 original size:53 final size:53
Alignment explanation
Indices: 89404701--89404896 Score: 209
Period size: 53 Copynumber: 3.5 Consensus size: 53
89404691 GCGTGCCCCG
*
89404701 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAAAA
* * * **
89404754 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTT-AA-AACTAAAAATACCTCAGCGTGCTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAACAAC-AAAAATA----A------AA
89404815 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAAAA
*
89404868 AGGCTTAACTCACCTCTCGCAATATGAGT
1 AGGCTCAACTCACCTCTCGCAATATGAGT
89404897 CAATTTAAAA
Statistics
Matches: 117, Mismatches: 12, Indels: 28
0.75 0.08 0.18
Matches are distributed among these distances:
50 3 0.03
51 9 0.08
52 5 0.04
53 54 0.46
55 1 0.01
59 1 0.01
61 27 0.23
62 5 0.04
63 9 0.08
64 3 0.03
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.26
Consensus pattern (53 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAAAA
Found at i:89404900 original size:114 final size:115
Alignment explanation
Indices: 89404571--89404968 Score: 699
Period size: 116 Copynumber: 3.4 Consensus size: 115
89404561 GCTCAACTCA
** *
89404571 CTCAGCGTGTCCTGAAACTCAACTCACTTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAA
1 CTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAA
89404636 AAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATAC
65 AAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATAC
* * *
89404687 CTTAGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAA
1 CTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAA
89404752 AAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATAC
65 AAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATAC
89404803 CTCAGCGTG-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAAA
1 CTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAAA
89404867 AAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATAC
66 AAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATAC
*
89404917 CTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 CTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
89404969 CGAACAGAAA
Statistics
Matches: 271, Mismatches: 9, Indels: 4
0.95 0.03 0.01
Matches are distributed among these distances:
114 112 0.41
116 159 0.59
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (115 bp):
CTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAAA
AAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATAC
Found at i:89404988 original size:14 final size:14
Alignment explanation
Indices: 89404971--89404999 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
89404961 GATTTTGACG
89404971 AACAGAAATTGAAA
1 AACAGAAATTGAAA
89404985 AACAGAAATTGAAA
1 AACAGAAATTGAAA
89404999 A
1 A
89405000 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:89405114 original size:77 final size:78
Alignment explanation
Indices: 89404985--89405131 Score: 235
Period size: 77 Copynumber: 1.9 Consensus size: 78
89404975 GAAATTGAAA
*
89404985 AACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTA
1 AACAGAAATTGAAAATACCTCA-CGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTA
89405050 ATTTTTTTTTGATG
65 ATTTTTTTTTGATG
* *
89405064 AACAGAAATT-AAAATTACCTCA-GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AACAGAAATTGAAAA-TACCTCACGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTA
89405127 ATTTT
65 ATTTT
89405132 GACGAACAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
77 43 0.67
78 4 0.06
79 17 0.27
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.30
Consensus pattern (78 bp):
AACAGAAATTGAAAATACCTCACGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAA
TTTTTTTTTGATG
Found at i:89405203 original size:164 final size:165
Alignment explanation
Indices: 89404908--89405212 Score: 576
Period size: 164 Copynumber: 1.9 Consensus size: 165
89404898 AATTTAAAAC
*
89404908 TAAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
1 TAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
89404973 CAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCG
66 CAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCG
89405038 CAATATGAGTTAATTTTTTTTTGATGAACAGAAAT
131 CAATATGAGTTAATTTTTTTTTGATGAACAGAAAT
*
89405073 TAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
1 TAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
*
89405138 CA-AAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACTTCTCG
66 CAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCG
89405202 CAATATGAGTT
131 CAATATGAGTT
89405213 GATTCTTTGG
Statistics
Matches: 137, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
164 72 0.53
165 65 0.47
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.27
Consensus pattern (165 bp):
TAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
CAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCG
CAATATGAGTTAATTTTTTTTTGATGAACAGAAAT
Found at i:89406039 original size:22 final size:22
Alignment explanation
Indices: 89405996--89406039 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
89405986 TGTGTTAATC
***
89405996 AAGACGCCCTTTTTTTTTTTTT
1 AAGACGCCCTTTTTTGGGTTTT
*
89406018 AAGATGCCCTTTTTTGGGTTTT
1 AAGACGCCCTTTTTTGGGTTTT
89406040 CATCTTGATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.14, C:0.16, G:0.16, T:0.55
Consensus pattern (22 bp):
AAGACGCCCTTTTTTGGGTTTT
Found at i:89417804 original size:14 final size:16
Alignment explanation
Indices: 89417775--89417806 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
89417765 AGGTAAATAT
89417775 AATAAAATGATATTAA
1 AATAAAATGATATTAA
89417791 AATAAAA-G-TATTAA
1 AATAAAATGATATTAA
89417805 AA
1 AA
89417807 ACAGTAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 1 0.06
16 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (16 bp):
AATAAAATGATATTAA
Found at i:89417850 original size:3 final size:3
Alignment explanation
Indices: 89417842--89417880 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
89417832 TAACAAGGAT
89417842 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
89417881 TTGAAACACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:89417993 original size:3 final size:3
Alignment explanation
Indices: 89417985--89418050 Score: 125
Period size: 3 Copynumber: 22.3 Consensus size: 3
89417975 AATGTATTTC
89417985 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
89418033 AAT -AT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
89418051 TTGAAATGCA
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 60 0.97
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:89418647 original size:12 final size:12
Alignment explanation
Indices: 89418630--89418659 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
89418620 AAAGGTAATT
89418630 TTTTTTTGTATA
1 TTTTTTTGTATA
89418642 TTTTTTTGTATA
1 TTTTTTTGTATA
89418654 TTTTTT
1 TTTTTT
89418660 ATGTTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (12 bp):
TTTTTTTGTATA
Found at i:89419079 original size:35 final size:35
Alignment explanation
Indices: 89419034--89419102 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
89419024 GAGTGTGTGA
*
89419034 TGGTGTTGGTGGCAGACAGCATGGGAGAATGGGAG
1 TGGTGCTGGTGGCAGACAGCATGGGAGAATGGGAG
*
89419069 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 TGGTGCTGGTGGCAGACAGCATGGGAGAATGGGA
89419103 AGAGGCAAGT
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:0.22, C:0.10, G:0.49, T:0.19
Consensus pattern (35 bp):
TGGTGCTGGTGGCAGACAGCATGGGAGAATGGGAG
Found at i:89419948 original size:114 final size:115
Alignment explanation
Indices: 89419703--89420097 Score: 690
Period size: 114 Copynumber: 3.4 Consensus size: 115
89419693 GCTCAACTCA
* *
89419703 CTCAGCGTGTCCTGAAGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAA
1 CTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAA
89419768 AAAGGC-TAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATAC
65 AAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATAC
* *
89419818 CT-AGCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAA
1 CTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAA
89419882 AAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATAC
65 AAAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATAC
89419933 CTCAGCGTG-CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAACAAC-AAAATAAA
1 CTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAAA
89419996 AAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATAC
66 AAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATAC
*
89420046 CTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 CTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
89420098 CGAACAGAAA
Statistics
Matches: 270, Mismatches: 6, Indels: 8
0.95 0.02 0.03
Matches are distributed among these distances:
113 67 0.25
114 109 0.40
115 88 0.33
116 6 0.02
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (115 bp):
CTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAACAACAAAAATAAA
AAGGCTTAACTCACCTCTCGCAATATGAGTCAATTTAAAACTAAAAATAC
Found at i:89420117 original size:14 final size:14
Alignment explanation
Indices: 89420100--89420128 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
89420090 GATTTTGACG
89420100 AACAGAAATTGAAA
1 AACAGAAATTGAAA
89420114 AACAGAAATTGAAA
1 AACAGAAATTGAAA
89420128 A
1 A
89420129 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:89420239 original size:75 final size:76
Alignment explanation
Indices: 89420114--89420277 Score: 239
Period size: 75 Copynumber: 2.2 Consensus size: 76
89420104 GAAATTGAAA
*
89420114 AACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTA
1 AACAGAAATTGAAAATACCTCA-CGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTA
89420179 ATTTTTTTGATG
65 ATTTTTTTGATG
* *
89420191 AACAGAAATT-AAAATTACCTCA-GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AACAGAAATTGAAAA-TACCTCACGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTA
*
89420254 A---TTTTGACG
65 ATTTTTTTGATG
89420263 AACAGAAATTGAAAA
1 AACAGAAATTGAAAA
89420278 ACAGAAATTG
Statistics
Matches: 81, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
72 17 0.21
73 4 0.05
75 39 0.48
76 4 0.05
77 17 0.21
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (76 bp):
AACAGAAATTGAAAATACCTCACGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTAA
TTTTTTTGATG
Found at i:89420280 original size:14 final size:14
Alignment explanation
Indices: 89420263--89420291 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
89420253 GATTTTGACG
89420263 AACAGAAATTGAAA
1 AACAGAAATTGAAA
89420277 AACAGAAATTGAAA
1 AACAGAAATTGAAA
89420291 A
1 A
89420292 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:89420313 original size:163 final size:163
Alignment explanation
Indices: 89420037--89420340 Score: 581
Period size: 163 Copynumber: 1.9 Consensus size: 163
89420027 AATTTAAAAC
*
89420037 TAAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
1 TAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
89420102 CAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCG
66 CAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCG
89420167 CAATATGAGTTAATTTTTTTGATGAACAGAAAT
131 CAATATGAGTTAATTTTTTTGATGAACAGAAAT
*
89420200 TAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
1 TAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
*
89420265 CAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACTTCTCG
66 CAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCG
89420330 CAATATGAGTT
131 CAATATGAGTT
89420341 GATTCTTTGG
Statistics
Matches: 138, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
163 138 1.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (163 bp):
TAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAA
CAGAAATTGAAAAACAGAAATTGAAAATACCTCAGCGCGTGAGCTGAGGCTCAACTCACCTCTCG
CAATATGAGTTAATTTTTTTGATGAACAGAAAT
Found at i:89421162 original size:22 final size:21
Alignment explanation
Indices: 89421120--89421162 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
89421110 TGTGTTAATC
**
89421120 AAGACGCCCTTTTTTTTTTTT
1 AAGACGCCCTTTTTTGGTTTT
*
89421141 AAGATGCCCTTTTTTGGGTTTT
1 AAGACGCCCTTTTTT-GGTTTT
89421163 CATCTTGATT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.14, C:0.16, G:0.16, T:0.53
Consensus pattern (21 bp):
AAGACGCCCTTTTTTGGTTTT
Found at i:89432770 original size:31 final size:30
Alignment explanation
Indices: 89432698--89432770 Score: 92
Period size: 33 Copynumber: 2.3 Consensus size: 30
89432688 TACTAAGAAA
*
89432698 AAAATATATATATATATAAATAATAGTATT
1 AAAATATATATATATATAAATAATAATATT
* *
89432728 AGAAATCATATAGTATATATAACTGATAATATT
1 A-AAAT-ATATA-TATATATAAATAATAATATT
89432761 AAAATATATA
1 AAAATATATA
89432771 CATAATATTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 1 0.03
31 9 0.24
32 9 0.24
33 18 0.49
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (30 bp):
AAAATATATATATATATAAATAATAATATT
Found at i:89432947 original size:14 final size:16
Alignment explanation
Indices: 89432918--89432949 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
89432908 AGGTAAATAT
89432918 AATAAAATGATATTAA
1 AATAAAATGATATTAA
89432934 AATAAAA-G-TATTAA
1 AATAAAATGATATTAA
89432948 AA
1 AA
89432950 ACAGTAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 1 0.06
16 7 0.44
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (16 bp):
AATAAAATGATATTAA
Found at i:89432995 original size:3 final size:3
Alignment explanation
Indices: 89432987--89433209 Score: 129
Period size: 3 Copynumber: 72.0 Consensus size: 3
89432977 ACAAGGATAT
89432987 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * ** * *
89433035 ATA ATA ATA ATA ATA TTGA A-A CACA A-A AGCC ATT ATA ATA AAA ATA
1 ATA ATA ATA ATA ATA AT-A ATA -ATA ATA A-TA ATA ATA ATA ATA ATA
* * * * *
89433081 TTA A-A ATA A-A GTA ATA GA-A ACA TTA CTA CAT- ATA TATA TATA CATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA ATA -ATA -ATA -ATA
* * *
89433127 CATGA AGA TATA CACTA AT- GTA TTTCA ATA A-A ATA ATA ATA ATA ATA
1 -AT-A ATA -ATA -A-TA ATA ATA -AT-A ATA ATA ATA ATA ATA ATA ATA
89433174 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
89433210 TTGAAATGCA
Statistics
Matches: 178, Mismatches: 23, Indels: 38
0.74 0.10 0.16
Matches are distributed among these distances:
2 12 0.07
3 137 0.77
4 25 0.14
5 4 0.02
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:89433668 original size:11 final size:12
Alignment explanation
Indices: 89433652--89433687 Score: 58
Period size: 11 Copynumber: 3.2 Consensus size: 12
89433642 AGGAAAAAAA
89433652 GAAGAGAG-AGG
1 GAAGAGAGAAGG
89433663 GAAGAGAGAAGG
1 GAAGAGAGAAGG
89433675 G-AGAGAGAAGG
1 GAAGAGAGAAGG
89433686 GA
1 GA
89433688 GGGGAATCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 19 0.83
12 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (12 bp):
GAAGAGAGAAGG
Found at i:89433780 original size:12 final size:12
Alignment explanation
Indices: 89433763--89433805 Score: 86
Period size: 12 Copynumber: 3.6 Consensus size: 12
89433753 AAAGGTAATT
89433763 TTTTTTTGTATA
1 TTTTTTTGTATA
89433775 TTTTTTTGTATA
1 TTTTTTTGTATA
89433787 TTTTTTTGTATA
1 TTTTTTTGTATA
89433799 TTTTTTT
1 TTTTTTT
89433806 TATGTTTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (12 bp):
TTTTTTTGTATA
Found at i:89433794 original size:24 final size:23
Alignment explanation
Indices: 89433763--89433813 Score: 84
Period size: 24 Copynumber: 2.2 Consensus size: 23
89433753 AAAGGTAATT
89433763 TTTTTTTGTATATTTTTTTGTATA
1 TTTTTTTGTATATTTTTTT-TATA
*
89433787 TTTTTTTGTATATTTTTTTTATG
1 TTTTTTTGTATATTTTTTTTATA
89433810 TTTT
1 TTTT
89433814 AATATATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (23 bp):
TTTTTTTGTATATTTTTTTTATA
Found at i:89433821 original size:23 final size:24
Alignment explanation
Indices: 89433771--89433822 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
89433761 TTTTTTTTTG
** *
89433771 TATATTTTTTTGTATATTTTTTTG
1 TATATTTTTTTGTATATTTTAATA
*
89433795 TATATTTTTTT-TATGTTTTAATA
1 TATATTTTTTTGTATATTTTAATA
89433818 TATAT
1 TATAT
89433823 AGGTTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.23, C:0.00, G:0.06, T:0.71
Consensus pattern (24 bp):
TATATTTTTTTGTATATTTTAATA
Found at i:89434229 original size:35 final size:35
Alignment explanation
Indices: 89434184--89434252 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 35
89434174 GAGTGTGTGA
*
89434184 TGGTGTTGGTGGCAGACAGCATGGGAGAATGGGAG
1 TGGTGCTGGTGGCAGACAGCATGGGAGAATGGGAG
*
89434219 TGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 TGGTGCTGGTGGCAGACAGCATGGGAGAATGGGA
89434253 AGAGACAAGT
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:0.22, C:0.10, G:0.49, T:0.19
Consensus pattern (35 bp):
TGGTGCTGGTGGCAGACAGCATGGGAGAATGGGAG
Found at i:89435835 original size:23 final size:23
Alignment explanation
Indices: 89435805--89435862 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
89435795 ATATCTTTAT
89435805 TTTCACTTGATTGTTCTACTATG
1 TTTCACTTGATTGTTCTACTATG
*
89435828 TTTCACTTGATTGTTCTACTGTG
1 TTTCACTTGATTGTTCTACTATG
*
89435851 TTCCACTTGATT
1 TTTCACTTGATT
89435863 TCTAAAATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.16, C:0.19, G:0.14, T:0.52
Consensus pattern (23 bp):
TTTCACTTGATTGTTCTACTATG
Found at i:89436659 original size:19 final size:18
Alignment explanation
Indices: 89436637--89436694 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
89436627 TCTAGTATAC
89436637 ATTAAATATGTGAATACAT
1 ATTAAATATGTGAATA-AT
*
89436656 ATTATATAT-T-AA-AAT
1 ATTAAATATGTGAATAAT
*
89436671 AATAAATATGTGAATATAT
1 ATTAAATATGTGAATA-AT
89436690 ATTAA
1 ATTAA
89436695 GATTATGTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
15 9 0.29
16 2 0.06
17 4 0.13
18 2 0.06
19 14 0.45
ACGTcount: A:0.52, C:0.02, G:0.07, T:0.40
Consensus pattern (18 bp):
ATTAAATATGTGAATAAT
Found at i:89438433 original size:16 final size:17
Alignment explanation
Indices: 89438412--89438444 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
89438402 AGGGAAGGAT
89438412 AAAAAATTTTA-AATAA
1 AAAAAATTTTACAATAA
89438428 AAAAAATTTTACAATAA
1 AAAAAATTTTACAATAA
89438445 CTCAATATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAAAATTTTACAATAA
Found at i:89439015 original size:30 final size:31
Alignment explanation
Indices: 89438974--89439042 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
89438964 AGCTTATATC
*
89438974 TTTATAATTTTTTAAA-AATTAAATTA-AAT
1 TTTATTATTTTTTAAAGAATTAAATTATAAT
* *
89439003 TATTTTTA-TTTTTAAAGGATTAAATTATAAT
1 T-TTATTATTTTTTAAAGAATTAAATTATAAT
89439034 TTTATTATT
1 TTTATTATT
89439043 ATTAATTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
29 9 0.28
30 18 0.56
31 5 0.16
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (31 bp):
TTTATTATTTTTTAAAGAATTAAATTATAAT
Found at i:89441412 original size:87 final size:87
Alignment explanation
Indices: 89441294--89441459 Score: 219
Period size: 87 Copynumber: 1.9 Consensus size: 87
89441284 ATTTTGTTTC
* * *
89441294 AAATTAAAAGTAAATAAAATCTATTTCGGGATTTATT-CTCACCGTTCAACGGATTTTATTCCAT
1 AAATTAAAAGTAAATAAAATCCATTTCGGGATTTATTCCT-ACCGTTCAACAGATTTTATTCCAA
* *
89441358 TTTTTATTTTATTTCCAAACGGG
65 TTTTGATTTCATTTCCAAACGGG
* * * *
89441381 AAATT-AAAGTTAAATAAATTCCCTTTTGGGATTTATTCCTGCCGTTCAACAGATTTTATTCCAA
1 AAATTAAAAG-TAAATAAAATCCATTTCGGGATTTATTCCTACCGTTCAACAGATTTTATTCCAA
89441445 TTTTGATTTCATTTC
65 TTTTGATTTCATTTC
89441460 TACAACGAGC
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
86 4 0.06
87 62 0.91
88 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.43
Consensus pattern (87 bp):
AAATTAAAAGTAAATAAAATCCATTTCGGGATTTATTCCTACCGTTCAACAGATTTTATTCCAAT
TTTGATTTCATTTCCAAACGGG
Done.