Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 44 of 129
Found at i:8767707 original size:28 final size:28
Alignment explanation
Indices: 8767596--8767707 Score: 84
Period size: 28 Copynumber: 3.9 Consensus size: 28
8767586 ATTATTTTTT
* * *
8767596 ATATTATTTATTAATATATTAATATATT
1 ATATTATTTATTAATATAATATTATATA
* *
8767624 AT-TTA-TTAATAATATATTATTTATTCGTATA
1 ATATTATTTATTAATATA--A--TATT-ATATA
* *
8767655 ATATTATTTATTAATATATTGTTATATA
1 ATATTATTTATTAATATAATATTATATA
**
8767683 ATATTATTTATTTGTATAATATTAT
1 ATATTATTTATTAATATAATATTAT
8767708 TTATTTATAT
Statistics
Matches: 64, Mismatches: 13, Indels: 14
0.70 0.14 0.15
Matches are distributed among these distances:
26 10 0.16
27 3 0.05
28 27 0.42
29 3 0.05
30 3 0.05
31 5 0.08
32 3 0.05
33 10 0.16
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (28 bp):
ATATTATTTATTAATATAATATTATATA
Found at i:8770166 original size:19 final size:20
Alignment explanation
Indices: 8770142--8770186 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
8770132 ATATCCTCTT
*
8770142 TTTTTTA-CATTTTTACTAA
1 TTTTTTATCATTTATACTAA
* *
8770161 TTTTTTATTATTTATATTAA
1 TTTTTTATCATTTATACTAA
8770181 TTTTTT
1 TTTTTT
8770187 TTGGTTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTTATCATTTATACTAA
Found at i:8770173 original size:20 final size:20
Alignment explanation
Indices: 8770150--8770211 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 20
8770140 TTTTTTTTAC
8770150 ATTTTTACTAATTTTTTATT
1 ATTTTTACTAATTTTTTATT
* * *
8770170 ATTTATATTAATTTTTTTTGGTT
1 ATTTTTACTAA--TTTTTT-ATT
8770193 ATTTTTACT-ATTTTTTATT
1 ATTTTTACTAATTTTTTATT
8770212 TTTAATTTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
19 2 0.06
20 15 0.45
22 7 0.21
23 9 0.27
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (20 bp):
ATTTTTACTAATTTTTTATT
Found at i:8770219 original size:23 final size:23
Alignment explanation
Indices: 8770150--8770221 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 23
8770140 TTTTTTTTAC
8770150 ATTTTTACTAATTTTTTATTATTT
1 ATTTTTACT-ATTTTTTATTATTT
* **
8770174 A-TATTA--ATTTTTT-TTGGTT
1 ATTTTTACTATTTTTTATTATTT
8770193 ATTTTTACTATTTTTTATT-TTT
1 ATTTTTACTATTTTTTATTATTT
*
8770215 AATTTTA
1 ATTTTTA
8770222 AAATTTTATA
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
19 5 0.13
20 11 0.29
22 15 0.39
23 6 0.16
24 1 0.03
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (23 bp):
ATTTTTACTATTTTTTATTATTT
Found at i:8770220 original size:22 final size:22
Alignment explanation
Indices: 8770143--8770236 Score: 61
Period size: 22 Copynumber: 4.2 Consensus size: 22
8770133 TATCCTCTTT
8770143 TTTTTACATTTTTACTAATTTTTTA
1 TTTTTA-A-TTTTACT-ATTTTTTA
*
8770168 TTATTT-ATATTA--ATTTTTT-
1 TT-TTTAATTTTACTATTTTTTA
* *
8770187 TTGGTTATTTTTACTATTTTTTA
1 TT-TTTAATTTTACTATTTTTTA
** *
8770210 TTTTTAATTTTAAAATTTTATA
1 TTTTTAATTTTACTATTTTTTA
8770232 TTTTT
1 TTTTT
8770237 TTATTATTGG
Statistics
Matches: 54, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
19 4 0.07
20 11 0.20
22 27 0.50
23 6 0.11
24 1 0.02
25 2 0.04
26 3 0.06
ACGTcount: A:0.24, C:0.03, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTTTAATTTTACTATTTTTTA
Found at i:8770492 original size:19 final size:18
Alignment explanation
Indices: 8770443--8770492 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
8770433 TATTAATGAT
8770443 AAAAATTCAAAATAATAA
1 AAAAATTCAAAATAATAA
** *
8770461 AAATAATAAAAAATAATTCA
1 AAA-AATTCAAAATAA-TAA
8770481 AAAAATTCAAAA
1 AAAAATTCAAAA
8770493 AAAAATTTAC
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 3 0.12
19 17 0.68
20 5 0.20
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAAATTCAAAATAATAA
Found at i:8770494 original size:9 final size:10
Alignment explanation
Indices: 8770446--8770492 Score: 53
Period size: 9 Copynumber: 4.9 Consensus size: 10
8770436 TAATGATAAA
8770446 AATTCAAAAT
1 AATTCAAAAT
*
8770456 AA-TAAAAAT
1 AATTCAAAAT
**
8770465 AATAAAAAAT
1 AATTCAAAAT
8770475 AATTCAAAA-
1 AATTCAAAAT
8770484 AATTCAAAA
1 AATTCAAAA
8770493 AAAAATTTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
9 17 0.53
10 15 0.47
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.23
Consensus pattern (10 bp):
AATTCAAAAT
Found at i:8771192 original size:17 final size:17
Alignment explanation
Indices: 8771170--8771202 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
8771160 TAATGAATTG
8771170 ATGAACTATAAGCAAAT
1 ATGAACTATAAGCAAAT
*
8771187 ATGAACTATAATCAAA
1 ATGAACTATAAGCAAA
8771203 ATAAAGAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.12, G:0.09, T:0.24
Consensus pattern (17 bp):
ATGAACTATAAGCAAAT
Found at i:8772752 original size:2 final size:2
Alignment explanation
Indices: 8772745--8772770 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8772735 GGACTGTGTT
8772745 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
8772771 GCTATGGCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8773273 original size:43 final size:42
Alignment explanation
Indices: 8773226--8773326 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
8773216 TTTTTTATTT
* *
8773226 TTTTGAAAATTTAGAAGGTT-TCTCTAAGCAAAGACTTGACAAC
1 TTTTGAAAATTTA-AAAGTTCT-TCTAAGCAAAGACTTAACAAC
* * * *
8773269 TTTTGAAATTTTAAAAGTTCTTCTAAGTAGAGACTTAATAAC
1 TTTTGAAAATTTAAAAGTTCTTCTAAGCAAAGACTTAACAAC
*
8773311 TTTTGACAATTTAAAA
1 TTTTGAAAATTTAAAA
8773327 TATTCTACCC
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
42 36 0.73
43 13 0.27
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.38
Consensus pattern (42 bp):
TTTTGAAAATTTAAAAGTTCTTCTAAGCAAAGACTTAACAAC
Found at i:8773779 original size:49 final size:49
Alignment explanation
Indices: 8773448--8773957 Score: 342
Period size: 49 Copynumber: 10.3 Consensus size: 49
8773438 TTTTAAAAAT
* * * *
8773448 TCAATGACTTTAAAAATTTCATCTCG-AAAAGCTCCTCGAAATAGAGGC
1 TCAACGACTTTAAAAATTTCATCTTGAAAAAGCTCCTCTAAGTAGAGGC
* * ** * * *
8773496 TCAACGACTTTAAAATTTTCATTTTGGGAATGCTCCTCTAGGTAAAGGC
1 TCAACGACTTTAAAAATTTCATCTTGAAAAAGCTCCTCTAAGTAGAGGC
** * * * *
8773545 TTTACAACTTTAAAAATTTCATCTTAAAAATAACTCCTTTAAGTAGAGGC
1 TCAACGACTTTAAAAATTTCATCTTGAAAA-AGCTCCTCTAAGTAGAGGC
* * * ** * *
8773595 TCAATGATTTTAAAAATTTCACCTTGAAAACA-CTTATCTAAGAAGAAAGC
1 TCAACGACTTTAAAAATTTCATCTTGAAAA-AGCTCCTCTAAGTAG-AGGC
8773645 TCAACGACTTTAAAAATCTT-ATCTTGAAAAGAGCTCCTCTAAGTAGA-G-
1 TCAACGACTTTAAAAAT-TTCATCTTGAAAA-AGCTCCTCTAAGTAGAGGC
* * * *
8773693 AC-A-G-CTTTTAAAAAAAGTTTCATCTTAAAAAAGGCTCCTATAGGTAGAGGC
1 TCAACGAC-TTT--AAAAA-TTTCATCTTGAAAAA-GCTCCTCTAAGTAGAGGC
* ** * * * * *
8773744 TAAATAATTTTAAAAATTTCATCTTGAAAAAGCTCCTTTAAGCAAATGC
1 TCAACGACTTTAAAAATTTCATCTTGAAAAAGCTCCTCTAAGTAGAGGC
* * ** * *
8773793 TCAACCACTTTAAAAAAAAATTT-ATCTTGGAAAAGCTTTTCTAAGCAGAGAC
1 TCAACGACTTT----AAAAATTTCATCTTGAAAAAGCTCCTCTAAGTAGAGGC
* *
8773845 TCAACAACTTT-AAAATTTCATCTTGAGAAAA-CTCTTCTAAGTAGAGGC
1 TCAACGACTTTAAAAATTTCATCTTGA-AAAAGCTCCTCTAAGTAGAGGC
* * * *
8773893 TCTACAACTTTAAAAATTTTATCTTGAAAAAGGCT-CTCTAAGTAGAGGT
1 TCAACGACTTTAAAAATTTCATCTTGAAAAA-GCTCCTCTAAGTAGAGGC
* *
8773942 TCAATGAATTTAAAAA
1 TCAACGACTTTAAAAA
8773958 AGAATTATTT
Statistics
Matches: 356, Mismatches: 81, Indels: 49
0.73 0.17 0.10
Matches are distributed among these distances:
45 1 0.00
46 4 0.01
47 8 0.02
48 65 0.18
49 133 0.37
50 84 0.24
51 17 0.05
52 33 0.09
53 11 0.03
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (49 bp):
TCAACGACTTTAAAAATTTCATCTTGAAAAAGCTCCTCTAAGTAGAGGC
Found at i:8773827 original size:52 final size:53
Alignment explanation
Indices: 8773755--8773908 Score: 146
Period size: 52 Copynumber: 3.0 Consensus size: 53
8773745 AAATAATTTT
*
8773755 AAAAATTTCATCTTGAAAAAGCTCCTT-TAAGCAAATG-CTCAACCACTTTAAAA
1 AAAAATTTCATCTTGAAAAAGCT-CTTCTAAGCAAA-GACTCAACAACTTTAAAA
* * *
8773808 AAAAATTT-ATCTTGGAAAAGCTTTTCTAAGCAGAGACTCAACAACTTT----
1 AAAAATTTCATCTTGAAAAAGCTCTTCTAAGCAAAGACTCAACAACTTTAAAA
* * * *
8773856 -AAAATTTCATCTTGAGAAAA-CTCTTCTAAGTAGAGGCTCTACAACTTTAAAA
1 AAAAATTTCATCTTGA-AAAAGCTCTTCTAAGCAAAGACTCAACAACTTTAAAA
8773908 A
1 A
8773909 TTTTATCTTG
Statistics
Matches: 83, Mismatches: 9, Indels: 18
0.75 0.08 0.16
Matches are distributed among these distances:
47 7 0.08
48 30 0.36
49 4 0.05
51 3 0.04
52 31 0.37
53 8 0.10
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (53 bp):
AAAAATTTCATCTTGAAAAAGCTCTTCTAAGCAAAGACTCAACAACTTTAAAA
Found at i:8782236 original size:19 final size:19
Alignment explanation
Indices: 8782212--8782249 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
8782202 CCTAGTTTTC
8782212 GGTTGTCAAAAAATTCAAA
1 GGTTGTCAAAAAATTCAAA
**
8782231 GGTTGTTGAAAAATTCAAA
1 GGTTGTCAAAAAATTCAAA
8782250 CATTTTCAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (19 bp):
GGTTGTCAAAAAATTCAAA
Found at i:8784382 original size:29 final size:29
Alignment explanation
Indices: 8784322--8784383 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
8784312 AATATTTTAA
* ** * *
8784322 TATTTTAATAATAAATAGTATTATATTCT
1 TATTTTAATAATAAATAATAAAATAGTAT
8784351 TATTTTAATAATAAATAATAAAATAGTAT
1 TATTTTAATAATAAATAATAAAATAGTAT
8784380 TATT
1 TATT
8784384 ATCTTAATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.48
Consensus pattern (29 bp):
TATTTTAATAATAAATAATAAAATAGTAT
Found at i:8784560 original size:21 final size:21
Alignment explanation
Indices: 8784529--8784582 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
8784519 ACTTAATAAC
8784529 AAATACTTTTAAT-ATAAAATAT
1 AAATA-TTTTAATGAT-AAATAT
8784551 AAATATTTTAATGATAAATAT
1 AAATATTTTAATGATAAATAT
* *
8784572 TACTATTTTAA
1 AAATATTTTAA
8784583 AGCTAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 22 0.76
22 7 0.24
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (21 bp):
AAATATTTTAATGATAAATAT
Found at i:8784603 original size:23 final size:21
Alignment explanation
Indices: 8784542--8784626 Score: 66
Period size: 20 Copynumber: 3.9 Consensus size: 21
8784532 TACTTTTAAT
*
8784542 ATAAAATATAAATATTTTAATG-
1 ATAAAA-AT-AATATTTTAAAGA
* *
8784564 ATAAATATTACTATTTTAAAGCTA
1 ATAAA-AATAATATTTTAAAG--A
8784588 ATAAAAATAATATTTT-AAGA
1 ATAAAAATAATATTTTAAAGA
* *
8784608 ATAATAATACTATTTTAAA
1 ATAAAAATAATATTTTAAA
8784627 TATTTTAAAA
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
20 15 0.29
21 12 0.24
22 9 0.18
23 10 0.20
24 5 0.10
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (21 bp):
ATAAAAATAATATTTTAAAGA
Found at i:8784624 original size:43 final size:46
Alignment explanation
Indices: 8784542--8784626 Score: 124
Period size: 43 Copynumber: 1.9 Consensus size: 46
8784532 TACTTTTAAT
*
8784542 ATAAAATATAAATATTTTAATGATAAATATTACTATTTTAAAGCTA
1 ATAAAATATAAATATTTTAATGATAAATAATACTATTTTAAAGCTA
8784588 ATAAAA-AT-AATATTTTAA-GA-ATAATAATACTATTTTAAA
1 ATAAAATATAAATATTTTAATGATA-AATAATACTATTTTAAA
8784627 TATTTTAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
42 1 0.03
43 18 0.49
44 10 0.27
45 2 0.05
46 6 0.16
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.40
Consensus pattern (46 bp):
ATAAAATATAAATATTTTAATGATAAATAATACTATTTTAAAGCTA
Found at i:8784636 original size:43 final size:44
Alignment explanation
Indices: 8784542--8784657 Score: 114
Period size: 43 Copynumber: 2.6 Consensus size: 44
8784532 TACTTTTAAT
* *
8784542 ATAAAATATAAATATTTTAATG-ATAAATATTACTATTTTAAAGCTA
1 ATAAAATAT-AATATTTTAA-GAAT-AATAATACTATTTTAAAGATA
* *
8784588 ATAAAA-ATAATATTTTAAGAATAATAATACTATTTTAAATATT
1 ATAAAATATAATATTTTAAGAATAATAATACTATTTTAAAGATA
* *
8784631 TTAAAATATTAATA--TAAAGAATAATAA
1 ATAAAATA-TAATATTTTAAGAATAATAA
8784658 ATAGTTTTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
43 35 0.57
44 13 0.21
45 7 0.11
46 6 0.10
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (44 bp):
ATAAAATATAATATTTTAAGAATAATAATACTATTTTAAAGATA
Found at i:8784711 original size:37 final size:35
Alignment explanation
Indices: 8784670--8784771 Score: 99
Period size: 37 Copynumber: 2.9 Consensus size: 35
8784660 AGTTTTATTT
8784670 TATTATTTTTATATGAATATAATATTTT-AATATTAAA
1 TATTATTTTTA-AT-AATATAATATTTTAAATATT-AA
* *
8784707 TATTATTATTAA-AATATAATTATTCTTGAATATTAA
1 TATTATTTTTAATAATATAA-TATT-TTAAATATTAA
8784743 TA--A-TTTTAATAATA-AATATTTTAAATATT
1 TATTATTTTTAATAATATAATATTTTAAATATT
8784772 TTAAGTATTT
Statistics
Matches: 58, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
31 8 0.14
32 4 0.07
33 7 0.12
34 12 0.21
35 4 0.07
36 7 0.12
37 16 0.28
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (35 bp):
TATTATTTTTAATAATATAATATTTTAAATATTAA
Found at i:8784835 original size:28 final size:27
Alignment explanation
Indices: 8784796--8784856 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 27
8784786 ATATTATTTG
8784796 TAAAAAAAATTTAAAATTAATTCAATAA
1 TAAAAAAAATTTAAAATTAATTC-ATAA
* ***
8784824 TAAAAAATATTTTTCATTAATTCATAA
1 TAAAAAAAATTTAAAATTAATTCATAA
8784851 -AAAAAA
1 TAAAAAA
8784857 CAAAAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 6 0.21
27 4 0.14
28 19 0.66
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (27 bp):
TAAAAAAAATTTAAAATTAATTCATAA
Found at i:8786142 original size:48 final size:48
Alignment explanation
Indices: 8786050--8786144 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
8786040 TGAGTTCCTT
* *
8786050 GATTGCTGCTCTTGAATTGGTGCTAGTCTTTGCCCGTTAAAATGCCTA
1 GATTGCTGCTCTTGAATTGGGGCTAGTCTTTGCCCATTAAAATGCCTA
* * **
8786098 GATTGCTGCTCTTTG-ATTGGGGTTAGTTTTTGCCCATTCGAATGCCT
1 GATTGCTGCTC-TTGAATTGGGGCTAGTCTTTGCCCATTAAAATGCCT
8786145 GTGTTGATTC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
48 37 0.93
49 3 0.08
ACGTcount: A:0.16, C:0.20, G:0.24, T:0.40
Consensus pattern (48 bp):
GATTGCTGCTCTTGAATTGGGGCTAGTCTTTGCCCATTAAAATGCCTA
Found at i:8787000 original size:2 final size:2
Alignment explanation
Indices: 8786995--8787022 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8786985 AAAGAGTTTC
8786995 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
8787023 TTTTTTTATT
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:8788510 original size:24 final size:22
Alignment explanation
Indices: 8788483--8788526 Score: 61
Period size: 24 Copynumber: 1.9 Consensus size: 22
8788473 AAAATCAAAT
8788483 TTTGATTTAAAGTTTAATTTTTGG
1 TTTGATTTAAA--TTAATTTTTGG
*
8788507 TTTGATTTGAATTAATTTTT
1 TTTGATTTAAATTAATTTTT
8788527 TATTTGATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
24 10 0.53
ACGTcount: A:0.25, C:0.00, G:0.14, T:0.61
Consensus pattern (22 bp):
TTTGATTTAAATTAATTTTTGG
Found at i:8788532 original size:22 final size:22
Alignment explanation
Indices: 8788496--8788539 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
8788486 GATTTAAAGT
* *
8788496 TTAATTTTTGGTTTGATTTGAA
1 TTAATTTTTGATTTGATATGAA
*
8788518 TTAATTTTTTATTTGATATGAA
1 TTAATTTTTGATTTGATATGAA
8788540 ATAAACTGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.14, T:0.59
Consensus pattern (22 bp):
TTAATTTTTGATTTGATATGAA
Found at i:8788705 original size:22 final size:22
Alignment explanation
Indices: 8788680--8788748 Score: 68
Period size: 25 Copynumber: 3.0 Consensus size: 22
8788670 TATTTATATT
8788680 TATTTAAATATATAAAAAATTA
1 TATTTAAATATATAAAAAATTA
* *
8788702 TATTAAAATAATATATAAAAAATAA
1 TATT--TA-AATATATAAAAAATTA
*
8788727 TAATTTAAAT-TTTAAAAAATTA
1 T-ATTTAAATATATAAAAAATTA
8788749 ATGAATTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
22 14 0.37
23 3 0.08
24 2 0.05
25 16 0.42
26 3 0.08
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TATTTAAATATATAAAAAATTA
Found at i:8788725 original size:14 final size:14
Alignment explanation
Indices: 8788686--8788728 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
8788676 TATTTATTTA
8788686 AATATATAAAAAAT
1 AATATATAAAAAAT
*
8788700 --TATAT-TAAAAT
1 AATATATAAAAAAT
8788711 AATATATAAAAAAT
1 AATATATAAAAAAT
8788725 AATA
1 AATA
8788729 ATTTAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
11 5 0.21
12 5 0.21
13 5 0.21
14 9 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
AATATATAAAAAAT
Found at i:8788750 original size:23 final size:22
Alignment explanation
Indices: 8788717--8788759 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
8788707 AAATAATATA
8788717 TAAAAAATAAT-AATTTAAATTT
1 TAAAAAATAATGAA-TTAAATTT
8788739 TAAAAAATTAATGAATTAAAT
1 TAAAAAA-TAATGAATTAAAT
8788760 CAATTTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 7 0.37
23 10 0.53
24 2 0.11
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
TAAAAAATAATGAATTAAATTT
Found at i:8793444 original size:20 final size:20
Alignment explanation
Indices: 8793419--8793461 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
8793409 CAATTTGAAA
8793419 GTTTGCATGCTTGGAAGAAT
1 GTTTGCATGCTTGGAAGAAT
8793439 GTTTGCATGCTTGGAAGAAT
1 GTTTGCATGCTTGGAAGAAT
8793459 GTT
1 GTT
8793462 CTTAGCTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.09, G:0.30, T:0.37
Consensus pattern (20 bp):
GTTTGCATGCTTGGAAGAAT
Found at i:8795810 original size:3 final size:3
Alignment explanation
Indices: 8795804--8795829 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8795794 GTTGTTGTTG
8795804 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
8795830 TAGAATATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:8795886 original size:80 final size:80
Alignment explanation
Indices: 8795748--8795899 Score: 270
Period size: 80 Copynumber: 1.9 Consensus size: 80
8795738 TGACCTAACG
8795748 TTTAAAATATGATAATTCATATTTATAATATGATAATTTCTTGGTTGTTGTTGTTGTTATTATTA
1 TTTAAAATATGATAATTCATATTTATAATATGATAATTTCTTGGTTGTTGTTGTTGTTATTATTA
8795813 TTATTATTATTATTA
66 TTATTATTATTATTA
* *
8795828 TTTAGAATATGATCATTCATATTTATAATATGATAATTTCTTGGTT-TTCGTTGTTGTTATTATT
1 TTTAAAATATGATAATTCATATTTATAATATGATAATTTCTTGGTTGTT-GTTGTTGTTATTATT
8795892 ATTATTAT
65 ATTATTAT
8795900 AAATGATTTT
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
79 2 0.03
80 67 0.97
ACGTcount: A:0.30, C:0.04, G:0.11, T:0.56
Consensus pattern (80 bp):
TTTAAAATATGATAATTCATATTTATAATATGATAATTTCTTGGTTGTTGTTGTTGTTATTATTA
TTATTATTATTATTA
Found at i:8796172 original size:3 final size:3
Alignment explanation
Indices: 8796164--8796194 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
8796154 TATGACATAA
8796164 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
8796195 GTTTTTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:8797070 original size:37 final size:37
Alignment explanation
Indices: 8796989--8797090 Score: 152
Period size: 37 Copynumber: 2.8 Consensus size: 37
8796979 AGTATATGAT
* *
8796989 GAACCAAAGATTTATTATATATGTTTG-AGAAAAAAA
1 GAACCAAAGATTTATTATATATGTATGAAAAAAAAAA
* * *
8797025 GAATCAAAGATTTACTATATATGTGTGAAAAAAAAAA
1 GAACCAAAGATTTATTATATATGTATGAAAAAAAAAA
8797062 GAACCAAAGATTTATTATATATGTATGAA
1 GAACCAAAGATTTATTATATATGTATGAA
8797091 TTTTGAGTTG
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
36 24 0.41
37 34 0.59
ACGTcount: A:0.50, C:0.06, G:0.14, T:0.30
Consensus pattern (37 bp):
GAACCAAAGATTTATTATATATGTATGAAAAAAAAAA
Found at i:8803687 original size:17 final size:19
Alignment explanation
Indices: 8803665--8803699 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
8803655 AATGTAATTA
8803665 ATTA-TTTAA-AAAATTTT
1 ATTATTTTAATAAAATTTT
8803682 ATTATTTTAATAAAATTT
1 ATTATTTTAATAAAATTT
8803700 AAAAATTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 5 0.31
19 7 0.44
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTATTTTAATAAAATTTT
Found at i:8807713 original size:8 final size:8
Alignment explanation
Indices: 8807689--8807723 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
8807679 CCTTTTTTTA
8807689 TTTTATTT
1 TTTTATTT
**
8807697 TTTCCTTT
1 TTTTATTT
8807705 TTTTATTT
1 TTTTATTT
8807713 TTTTATTT
1 TTTTATTT
8807721 TTT
1 TTT
8807724 CCCTACTGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.09, C:0.06, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTATTT
Found at i:8807716 original size:24 final size:23
Alignment explanation
Indices: 8807681--8807725 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
8807671 TGAGTTGCCC
8807681 TTTTTTTATTTTATTTTTTCCTT
1 TTTTTTTATTTTATTTTTTCCTT
*
8807704 TTTTTATTTTTTTATTTTTTCC
1 TTTTT-TTATTTTATTTTTTCC
8807726 CTACTGAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTTTTTATTTTATTTTTTCCTT
Found at i:8808668 original size:13 final size:13
Alignment explanation
Indices: 8808652--8808680 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
8808642 TTTTCAAAAG
8808652 TTTTTTTTT-AAT
1 TTTTTTTTTGAAT
8808664 TTTTTTTTTGAAT
1 TTTTTTTTTGAAT
8808677 TTTT
1 TTTT
8808681 GGATTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (13 bp):
TTTTTTTTTGAAT
Found at i:8809855 original size:32 final size:31
Alignment explanation
Indices: 8809819--8809949 Score: 117
Period size: 31 Copynumber: 4.2 Consensus size: 31
8809809 CTAAAGTGGA
*
8809819 CTTAAAATTTGATTAGTGCAAGCTAAACTTAG
1 CTTAAAATTTGATT-GTGCTAGCTAAACTTAG
* * *
8809851 CTT-AAATTTTATTGGTACTAGCTAAACTGAG
1 CTTAAAATTTGATT-GTGCTAGCTAAACTTAG
** * *
8809882 CTTAAAAAACTAAATGT-C-AGCTAAAC-TAGG
1 CTT-AAAATTTGATTGTGCTAGCTAAACTTA-G
8809912 CTTAAAATTTGATTGATGCTAGCTAAACTTAG
1 CTTAAAATTTGATTG-TGCTAGCTAAACTTAG
8809944 CTTAAA
1 CTTAAA
8809950 TCTTATTAGT
Statistics
Matches: 78, Mismatches: 14, Indels: 14
0.74 0.13 0.13
Matches are distributed among these distances:
29 9 0.12
30 13 0.17
31 28 0.36
32 20 0.26
33 8 0.10
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.34
Consensus pattern (31 bp):
CTTAAAATTTGATTGTGCTAGCTAAACTTAG
Found at i:8809874 original size:31 final size:32
Alignment explanation
Indices: 8809839--8809970 Score: 107
Period size: 31 Copynumber: 4.2 Consensus size: 32
8809829 GATTAGTGCA
*
8809839 AGCTAAACTTAGCTT-AAATTTTATTGGTACT
1 AGCTAAACTTAGCTTAAAATCTTATTGGTACT
* * * *
8809870 AGCTAAACTGAGCTTAAAAAACTAAAT-GT-C-
1 AGCTAAACTTAGCTT-AAAATCTTATTGGTACT
* *
8809900 AGCTAAAC-TAGGCTTAAAAT-TTGATTGATGCT
1 AGCTAAACTTA-GCTTAAAATCTT-ATTGGTACT
*
8809932 AGCTAAACTTAGCTT-AAATCTTATTAGTACT
1 AGCTAAACTTAGCTTAAAATCTTATTGGTACT
*
8809963 AGTTAAAC
1 AGCTAAAC
8809971 CAGGTTTAAA
Statistics
Matches: 78, Mismatches: 14, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
28 1 0.01
29 7 0.09
30 13 0.17
31 33 0.42
32 16 0.21
33 8 0.10
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (32 bp):
AGCTAAACTTAGCTTAAAATCTTATTGGTACT
Found at i:8809970 original size:93 final size:92
Alignment explanation
Indices: 8809805--8810016 Score: 266
Period size: 93 Copynumber: 2.3 Consensus size: 92
8809795 AAATATGGGT
* * *
8809805 CCAACTAAAGT-GGACTTAAAATTTGATTAGTGCAAGCTAAACTTAGCTTAAATTTTATTGGTAC
1 CCAACTAAACTAGG-CTTAAAATTTGATTAGTGCAAGCTAAACTTAGCTTAAATCTTATTAGTAC
*
8809869 TAGCTAAACTGAGCTTAAAAAACTAAATG
65 TAGCTAAAC-CAGCTTAAAAAACTAAATG
* * *
8809898 TCAGCTAAACTAGGCTTAAAATTTGATT-GATGCTAGCTAAACTTAGCTTAAATCTTATTAGTAC
1 CCAACTAAACTAGGCTTAAAATTTGATTAG-TGCAAGCTAAACTTAGCTTAAATCTTATTAGTAC
* * * * *
8809962 TAGTTAAACCAGGTTTAAAATCTAAGTG
65 TAGCTAAACCAGCTTAAAAAACTAAATG
*
8809990 CCAACTAAACTAGGCTTAAAATGTGAT
1 CCAACTAAACTAGGCTTAAAATTTGAT
8810017 CAGTACTAAC
Statistics
Matches: 102, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
92 39 0.38
93 61 0.60
94 2 0.02
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (92 bp):
CCAACTAAACTAGGCTTAAAATTTGATTAGTGCAAGCTAAACTTAGCTTAAATCTTATTAGTACT
AGCTAAACCAGCTTAAAAAACTAAATG
Found at i:8810008 original size:29 final size:29
Alignment explanation
Indices: 8809966--8810154 Score: 86
Period size: 29 Copynumber: 6.5 Consensus size: 29
8809956 TAGTACTAGT
* *
8809966 TAAACCAGGTTTAAAATCTAAGTGCCAAC
1 TAAACTAGGCTTAAAATCTAAGTGCCAAC
* * *
8809995 TAAACTAGGCTTAAAATGTGATCAGTACTAAC
1 TAAACTAGGCTTAAAATCT-A--AGTGCCAAC
* * *
8810027 TAAACT-GGGTTTAAAT-T-AGTGTACCATC
1 TAAACTAGGCTTAAAATCTAAGTG--CCAAC
* * * *
8810055 TAAACTTGGCTTAAAATCTGAGTGCTAGC
1 TAAACTAGGCTTAAAATCTAAGTGCCAAC
* * * *
8810084 TAAGCTAGGCATT-AAATCTTATTAG--TAC
1 TAAACTAGGC-TTAAAATCTAAGT-GCCAAC
* * *
8810112 -CAACTAGACTTAAAATCTAAATGCCAAC
1 TAAACTAGGCTTAAAATCTAAGTGCCAAC
*
8810140 TAAATTAGGCTTAAA
1 TAAACTAGGCTTAAA
8810155 TCTCATTGGT
Statistics
Matches: 117, Mismatches: 29, Indels: 28
0.67 0.17 0.16
Matches are distributed among these distances:
26 6 0.05
27 14 0.12
28 12 0.10
29 54 0.46
30 6 0.05
31 12 0.10
32 13 0.11
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.30
Consensus pattern (29 bp):
TAAACTAGGCTTAAAATCTAAGTGCCAAC
Found at i:8810187 original size:31 final size:31
Alignment explanation
Indices: 8810148--8810222 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 31
8810138 ACTAAATTAG
* *
8810148 GCTTAAATCTCATTGGTGCTAGTTACAC-GA
1 GCTTAAATCTCATTGGTGCTAGCTAAACTGA
*
8810178 GACTTAAATCTTATTGGTGCTAGCTAAACTGA
1 G-CTTAAATCTCATTGGTGCTAGCTAAACTGA
8810210 GCTTAAAATCTCA
1 GCTT-AAATCTCA
8810223 ACTTGTTATC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
30 1 0.03
31 27 0.71
32 10 0.26
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (31 bp):
GCTTAAATCTCATTGGTGCTAGCTAAACTGA
Found at i:8819424 original size:6 final size:6
Alignment explanation
Indices: 8819401--8819435 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
8819391 CAATTTTTGC
*
8819401 AATTGT AA-TGT CATTGT AATTGT AATTGT AATTGT
1 AATTGT AATTGT AATTGT AATTGT AATTGT AATTGT
8819436 CTTGTTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.31, C:0.03, G:0.17, T:0.49
Consensus pattern (6 bp):
AATTGT
Found at i:8820075 original size:3 final size:3
Alignment explanation
Indices: 8820063--8820100 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
8820053 ATTATTATTA
* *
8820063 TTG TTA TTG TTG TTA TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
8820101 TTTCTTCTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.05, C:0.00, G:0.26, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:8820075 original size:9 final size:9
Alignment explanation
Indices: 8820057--8820100 Score: 61
Period size: 9 Copynumber: 4.9 Consensus size: 9
8820047 TAAATTATTA
*
8820057 TTATTATTG
1 TTATTGTTG
8820066 TTATTGTTG
1 TTATTGTTG
8820075 TTATTGTTG
1 TTATTGTTG
*
8820084 TTGTTGTTG
1 TTATTGTTG
*
8820093 TTGTTGTT
1 TTATTGTT
8820101 TTTCTTCTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.09, C:0.00, G:0.23, T:0.68
Consensus pattern (9 bp):
TTATTGTTG
Found at i:8820108 original size:3 final size:3
Alignment explanation
Indices: 8820102--8820139 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
8820092 GTTGTTGTTT
*
8820102 TTC TTC TTC TTC TTC TTC TTG TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
8820140 GCTATTATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.29, G:0.03, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:8820148 original size:3 final size:3
Alignment explanation
Indices: 8820142--8820166 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
8820132 TTCTTCTTGC
8820142 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
8820167 GTCTTGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:8823567 original size:63 final size:64
Alignment explanation
Indices: 8823481--8823675 Score: 170
Period size: 63 Copynumber: 3.1 Consensus size: 64
8823471 AGGGGTATTT
* * *
8823481 TTTAAGGCA-TTTTGGA-CAAAAAAAACCTTAAATAATGCCTTTTAAAAAATTTT-ACA-AGATT
1 TTTAAGGTATTTTTGGATC-AAAAACACCTTAAATAAT-CCTTTTAAAAAATTTTAAAAGAGATT
8823542 A
64 A
* * ** * * *
8823543 TTTTAAGGTATTTTTGGATCAAAAACGCCTTGAATAATCC-CCTGATACATTTTAAAAGAGATTA
1 -TTTAAGGTATTTTTGGATCAAAAACACCTTAAATAATCCTTTTAAAAAATTTTAAAAGAGATTA
* * * * *
8823607 TTTGAGGTATTTTTGGATCAAAAACACCTTAAATAATCCCTTT--ATATTTTTTAAAGAGCATTA
1 TTTAAGGTATTTTTGGATCAAAAACACCTTAAATAATCCTTTTAAAAAATTTTAAAAGAG-ATTA
8823670 TTTAAG
1 TTTAAG
8823676 ACGTTTTTGG
Statistics
Matches: 105, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
62 18 0.17
63 57 0.54
64 29 0.28
65 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.37
Consensus pattern (64 bp):
TTTAAGGTATTTTTGGATCAAAAACACCTTAAATAATCCTTTTAAAAAATTTTAAAAGAGATTA
Found at i:8828538 original size:6 final size:6
Alignment explanation
Indices: 8828529--8828557 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
8828519 AAAAAAAAAG
8828529 AAGAAT AAGAAT AAGAAT AAGAAT AAGAA
1 AAGAAT AAGAAT AAGAAT AAGAAT AAGAA
8828558 GTAGAAGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (6 bp):
AAGAAT
Found at i:8830390 original size:157 final size:158
Alignment explanation
Indices: 8830088--8830469 Score: 446
Period size: 157 Copynumber: 2.4 Consensus size: 158
8830078 GTTGCTTTGA
* * ** *
8830088 TTTATTAAGCTAGATAATGTATTGTGTGTATTGAGAAGCAATGATTTTGTGAAAGGTGAAAACTG
1 TTTATTAA-CTAGATAATGTATTGTGTGTATTGAGATGCAATGACTTTGTGAAAAATGAAAACTA
* ** * ** *
8830153 TAACATATTTTTTTTTTTGTAATTCTTGTTGTGTATTGTGTTTTTTGATGAACTACTTTTATAAT
65 TAACATA-TTGTTACTTTGCAATTCTTGTTGTGTATTGTACTTATTGATGAACTACTTTTATAAT
**
8830218 AATTCAAAGTATAAAATTTGT-AGAAAATTC
129 AATTCAAAACATAAAATTTGTGAG-AAATTC
* *
8830248 TTTATTGAACTAGATAATGTATTGTTTGTATTGAGATGCAATGA-ATTGTGAAAAATGAAAACTA
1 TTTATT-AACTAGATAATGTATTGTGTGTATTGAGATGCAATGACTTTGTGAAAAATGAAAACTA
** * *
8830312 TTGCATA-TGTTACTTTGCAATTTTTGTTGTGTATTGTACTTATTGATGAACTACTTTTATAGTA
65 TAACATATTGTTACTTTGCAATTCTTGTTGTGTATTGTACTTATTGATGAACTACTTTTATAATA
*
8830376 ATTCAAAACCTAAAATTTGTGAGAAATTC
130 ATTCAAAACATAAAATTTGTGAGAAATTC
* * * * * *
8830405 TTTATTAAATTAGATAGTATTTTGTGTGTATTGAGATACAATGACTTTGTGAAAGATTGAAAACT
1 TTTATT-AACTAGATAATGTATTGTGTGTATTGAGATGCAATGACTTTGTGAAA-AATGAAAACT
8830470 GTTACTTATT
Statistics
Matches: 189, Mismatches: 29, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
157 108 0.57
158 10 0.05
159 30 0.16
160 39 0.21
161 2 0.01
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (158 bp):
TTTATTAACTAGATAATGTATTGTGTGTATTGAGATGCAATGACTTTGTGAAAAATGAAAACTAT
AACATATTGTTACTTTGCAATTCTTGTTGTGTATTGTACTTATTGATGAACTACTTTTATAATAA
TTCAAAACATAAAATTTGTGAGAAATTC
Found at i:8832455 original size:23 final size:22
Alignment explanation
Indices: 8832411--8832466 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
8832401 ATAATAATAA
*
8832411 AAAAATTTTAAAATTTAAATTTT
1 AAAAATATT-AAATTTAAATTTT
* * *
8832434 AGACATATTAAATGTTACATTTT
1 AAAAATATTAAAT-TTAAATTTT
8832457 AAAAATATTA
1 AAAAATATTA
8832467 TATTAATTCT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (22 bp):
AAAAATATTAAATTTAAATTTT
Found at i:8832938 original size:27 final size:27
Alignment explanation
Indices: 8832908--8832960 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
8832898 ATATAGGAGG
*
8832908 TAAATCATAAATTTAACAATACTAAGA
1 TAAACCATAAATTTAACAATACTAAGA
* *
8832935 TAAACCGTCAATTTAACAATACTAAG
1 TAAACCATAAATTTAACAATACTAAG
8832961 TAGAAGTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.51, C:0.15, G:0.06, T:0.28
Consensus pattern (27 bp):
TAAACCATAAATTTAACAATACTAAGA
Found at i:8834577 original size:19 final size:19
Alignment explanation
Indices: 8834553--8834598 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
8834543 GATTTAAAAT
8834553 AGGTTTAGGGTCTAAGTTA
1 AGGTTTAGGGTCTAAGTTA
* * *
8834572 AGGTTTAAGGTTTAATTTA
1 AGGTTTAGGGTCTAAGTTA
*
8834591 GGGTTTAG
1 AGGTTTAG
8834599 ATTTAAGGTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.26, C:0.02, G:0.30, T:0.41
Consensus pattern (19 bp):
AGGTTTAGGGTCTAAGTTA
Found at i:8834581 original size:7 final size:7
Alignment explanation
Indices: 8834569--8834781 Score: 80
Period size: 7 Copynumber: 32.1 Consensus size: 7
8834559 AGGGTCTAAG
8834569 TTAAGGT
1 TTAAGGT
8834576 TTAAGGT
1 TTAAGGT
8834583 TTAA--T
1 TTAAGGT
*
8834588 TTAGGGT
1 TTAAGGT
*
8834595 TT-AGAT
1 TTAAGGT
8834601 TTAAGGT
1 TTAAGGT
*
8834608 TTAGGGT
1 TTAAGGT
* *
8834615 TTGAGAT
1 TTAAGGT
*
8834622 TTAAGAT
1 TTAAGGT
8834629 TT-AGGT
1 TTAAGGT
8834635 TTAAGGT
1 TTAAGGT
8834642 TT--GGT
1 TTAAGGT
*
8834647 CT-AGAGT
1 TTAAG-GT
* *
8834654 TGAAGGC
1 TTAAGGT
8834661 TTAA-GT
1 TTAAGGT
*
8834667 TT-TGGT
1 TTAAGGT
*
8834673 TTAAGAT
1 TTAAGGT
*
8834680 TTAGGGT
1 TTAAGGT
*
8834687 TTAGGGT
1 TTAAGGT
*
8834694 TTGA-GT
1 TTAAGGT
8834700 TT-AGGAT
1 TTAAGG-T
* *
8834707 TTGAGAT
1 TTAAGGT
*
8834714 TTAGGGT
1 TTAAGGT
*
8834721 TTAGGGT
1 TTAAGGT
8834728 TT-AGAGT
1 TTAAG-GT
*
8834735 TT-AGAT
1 TTAAGGT
8834741 TTAAGGT
1 TTAAGGT
* *
8834748 ATGAGGTT
1 TTAAGG-T
8834756 TTAA-GT
1 TTAAGGT
8834762 TT--GGT
1 TTAAGGT
*
8834767 TTAGGGT
1 TTAAGGT
8834774 TTAAGGT
1 TTAAGGT
8834781 T
1 T
8834782 AGTTTAGGGT
Statistics
Matches: 153, Mismatches: 35, Indels: 36
0.68 0.16 0.16
Matches are distributed among these distances:
5 13 0.08
6 29 0.19
7 104 0.68
8 7 0.05
ACGTcount: A:0.24, C:0.01, G:0.31, T:0.45
Consensus pattern (7 bp):
TTAAGGT
Found at i:8834608 original size:13 final size:13
Alignment explanation
Indices: 8834575--8834611 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
8834565 TAAGTTAAGG
8834575 TTTAAGGTTTA-A
1 TTTAAGGTTTAGA
*
8834587 TTTAGGGTTTAGA
1 TTTAAGGTTTAGA
8834600 TTTAAGGTTTAG
1 TTTAAGGTTTAG
8834612 GGTTTGAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (13 bp):
TTTAAGGTTTAGA
Found at i:8834623 original size:21 final size:20
Alignment explanation
Indices: 8834586--8834637 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
8834576 TTAAGGTTTA
8834586 ATTTAGGGTTTAGATTTAAG
1 ATTTAGGGTTTAGATTTAAG
*
8834606 GTTTAGGGTTTGAGATTTAAG
1 ATTTAGGGTTT-AGATTTAAG
8834627 ATTTA-GGTTTA
1 ATTTAGGGTTTA
8834638 AGGTTTGGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 1 0.03
20 15 0.52
21 13 0.45
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (20 bp):
ATTTAGGGTTTAGATTTAAG
Found at i:8834634 original size:27 final size:26
Alignment explanation
Indices: 8834593--8834775 Score: 119
Period size: 27 Copynumber: 6.9 Consensus size: 26
8834583 TTAATTTAGG
8834593 GTTT-AGATTTAAGGTTTAGGGTTTGA
1 GTTTAAGATTT-AGGTTTAGGGTTTGA
*
8834619 GATTTAAGATTTAGGTTTAAGGTTTG-
1 G-TTTAAGATTTAGGTTTAGGGTTTGA
* * * * *
8834645 GTCT-AGAGTTGAAGGCTTAAGTTTTG-
1 GTTTAAGA-TT-TAGGTTTAGGGTTTGA
8834671 GTTTAAGATTTAGGGTTTAGGGTTTGA
1 GTTTAAGATTTA-GGTTTAGGGTTTGA
* * *
8834698 GTTTAGGATTTGAGATTTAGGGTTTAGG
1 GTTTAAGATTT-AGGTTTAGGGTTT-GA
* * *
8834726 GTTT-AGAGTTTAGATTTAAGGTATGA
1 GTTTAAGA-TTTAGGTTTAGGGTTTGA
8834752 GGTTTTAAG-TTT-GGTTTAGGGTTT
1 -G-TTTAAGATTTAGGTTTAGGGTTT
8834776 AAGGTTAGTT
Statistics
Matches: 124, Mismatches: 20, Indels: 26
0.73 0.12 0.15
Matches are distributed among these distances:
24 3 0.02
25 5 0.04
26 39 0.31
27 57 0.46
28 18 0.15
29 2 0.02
ACGTcount: A:0.23, C:0.01, G:0.31, T:0.45
Consensus pattern (26 bp):
GTTTAAGATTTAGGTTTAGGGTTTGA
Found at i:8834639 original size:13 final size:13
Alignment explanation
Indices: 8834569--8834689 Score: 56
Period size: 13 Copynumber: 9.2 Consensus size: 13
8834559 AGGGTCTAAG
*
8834569 TTAAGGTTTAAGGT
1 TTAAGATTT-AGGT
8834583 TT-A-ATTTAGGGT
1 TTAAGATTTA-GGT
8834595 TT-AGATTTAAGGT
1 TTAAGATTT-AGGT
* * *
8834608 TTAGGGTTTGAGAT
1 TTAAGATTT-AGGT
8834622 TTAAGATTTAGGT
1 TTAAGATTTAGGT
*
8834635 TTAAGGTTT-GGT
1 TTAAGATTTAGGT
* * *
8834647 CT-AGAGTTGAAGGC
1 TTAAGA-TT-TAGGT
*
8834661 TTAAG-TTTTGGT
1 TTAAGATTTAGGT
8834673 TTAAGATTTAGGGT
1 TTAAGATTTA-GGT
8834687 TTA
1 TTA
8834690 GGGTTTGAGT
Statistics
Matches: 79, Mismatches: 18, Indels: 20
0.68 0.15 0.17
Matches are distributed among these distances:
11 3 0.04
12 22 0.28
13 26 0.33
14 26 0.33
15 2 0.03
ACGTcount: A:0.26, C:0.02, G:0.28, T:0.45
Consensus pattern (13 bp):
TTAAGATTTAGGT
Found at i:8834715 original size:34 final size:34
Alignment explanation
Indices: 8834676--8834742 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
8834666 TTTTGGTTTA
8834676 AGATTTAGGGTTTAGGGTTT-GAGTTTAGGATTTG
1 AGATTTAGGGTTTAGGGTTTAGAGTTTA-GATTTG
8834710 AGATTTAGGGTTTAGGGTTTAGAGTTTAGATTT
1 AGATTTAGGGTTTAGGGTTTAGAGTTTAGATTT
8834743 AAGGTATGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 25 0.78
35 7 0.22
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.45
Consensus pattern (34 bp):
AGATTTAGGGTTTAGGGTTTAGAGTTTAGATTTG
Found at i:8834756 original size:34 final size:34
Alignment explanation
Indices: 8834664--8834778 Score: 112
Period size: 34 Copynumber: 3.4 Consensus size: 34
8834654 TGAAGGCTTA
* *
8834664 AGTTTTGG-TTTAAGATTTAGGGTTTAGGGTTTG
1 AGTTTAGGATTTAAGATTGAGGGTTTAGGGTTTG
* *
8834697 AGTTTAGGATTTGAGATTTAGGGTTTAGGGTTTAG
1 AGTTTAGGATTTAAGATTGAGGGTTTAGGGTTT-G
* * *
8834732 AGTTTA-GATTTAAGGTATGAGGTTTTA-AGTTTG
1 AGTTTAGGATTTAAGAT-TGAGGGTTTAGGGTTTG
*
8834765 -GTTTAGGGTTTAAG
1 AGTTTAGGATTTAAG
8834779 GTTAGTTTAG
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
32 5 0.07
33 15 0.21
34 35 0.50
35 15 0.21
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (34 bp):
AGTTTAGGATTTAAGATTGAGGGTTTAGGGTTTG
Found at i:8834778 original size:18 final size:18
Alignment explanation
Indices: 8834755--8834836 Score: 57
Period size: 18 Copynumber: 4.6 Consensus size: 18
8834745 GGTATGAGGT
* *
8834755 TTTAAGTTTGGTTTAGGG
1 TTTAAGGTTAGTTTAGGG
8834773 TTTAAGGTTAGTTTAGGG
1 TTTAAGGTTAGTTTAGGG
*
8834791 TCTT--CGTTAAGATTTAGGGG
1 T-TTAAGGTT-AG-TTTA-GGG
8834811 TTTATA-GTTAG-TTAGGG
1 TTTA-AGGTTAGTTTAGGG
8834828 TTT-AGGTTA
1 TTTAAGGTTA
8834837 TATGGTGGTT
Statistics
Matches: 53, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
15 1 0.02
16 4 0.08
17 9 0.17
18 22 0.42
19 8 0.15
20 6 0.11
21 3 0.06
ACGTcount: A:0.21, C:0.02, G:0.30, T:0.46
Consensus pattern (18 bp):
TTTAAGGTTAGTTTAGGG
Found at i:8834949 original size:19 final size:19
Alignment explanation
Indices: 8834925--8834966 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
8834915 GTTTAGGTTA
8834925 TAGGGTTTCGATGGTGATT
1 TAGGGTTTCGATGGTGATT
* *
8834944 TAGGGTTTGGATGGTGGTT
1 TAGGGTTTCGATGGTGATT
8834963 TAGG
1 TAGG
8834967 ATTTAGGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.40
Consensus pattern (19 bp):
TAGGGTTTCGATGGTGATT
Found at i:8834950 original size:45 final size:46
Alignment explanation
Indices: 8834901--8834999 Score: 114
Period size: 45 Copynumber: 2.2 Consensus size: 46
8834891 TTTTGGTTTT
*
8834901 GGGTTTGGATTAAGGTTTAGG-TTATAGGGTTTCGA-T-GGTGATTTA
1 GGGTTTGGATGAAGGTTTAGGATT-TAGGGTTTCGATTAGG-GATTTA
** *
8834946 GGGTTTGGATGGTGGTTTAGGATTTAGGGTTTGGATTAGGGATTTA
1 GGGTTTGGATGAAGGTTTAGGATTTAGGGTTTCGATTAGGGATTTA
*
8834992 GGATTTGG
1 GGGTTTGG
8835000 GGTTTGAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
45 28 0.61
46 16 0.35
47 2 0.04
ACGTcount: A:0.18, C:0.01, G:0.39, T:0.41
Consensus pattern (46 bp):
GGGTTTGGATGAAGGTTTAGGATTTAGGGTTTCGATTAGGGATTTA
Found at i:8834969 original size:26 final size:27
Alignment explanation
Indices: 8834940--8835005 Score: 91
Period size: 27 Copynumber: 2.5 Consensus size: 27
8834930 TTTCGATGGT
*
8834940 GATTTAGGGTTTGGA-T-GGTGGTTTAG
1 GATTTAGGGTTTGGATTAGG-GATTTAG
8834966 GATTTAGGGTTTGGATTAGGGATTTAG
1 GATTTAGGGTTTGGATTAGGGATTTAG
*
8834993 GATTTGGGGTTTG
1 GATTTAGGGTTTG
8835006 AAATTTTGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 15 0.42
27 19 0.53
28 2 0.06
ACGTcount: A:0.17, C:0.00, G:0.41, T:0.42
Consensus pattern (27 bp):
GATTTAGGGTTTGGATTAGGGATTTAG
Found at i:8838514 original size:13 final size:13
Alignment explanation
Indices: 8838496--8838520 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8838486 GATACCATAT
8838496 GAAAAAAAAAAAA
1 GAAAAAAAAAAAA
8838509 GAAAAAAAAAAA
1 GAAAAAAAAAAA
8838521 GATATAAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (13 bp):
GAAAAAAAAAAAA
Found at i:8838515 original size:12 final size:12
Alignment explanation
Indices: 8838498--8838522 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8838488 TACCATATGA
8838498 AAAAAAAAAAAG
1 AAAAAAAAAAAG
8838510 AAAAAAAAAAAG
1 AAAAAAAAAAAG
8838522 A
1 A
8838523 TATAAACAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:8839461 original size:3 final size:3
Alignment explanation
Indices: 8839453--8839488 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
8839443 TATATTTTAT
8839453 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
8839489 ATTAAAAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:8840297 original size:21 final size:22
Alignment explanation
Indices: 8840271--8840312 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
8840261 TTTTATAATA
8840271 TTATTT-TTT-ATATTTTTGAAC
1 TTATTTATTTGAT-TTTTTGAAC
8840292 TTATTTATTTGATTTTTTGAA
1 TTATTTATTTGATTTTTTGAA
8840313 AATATTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.32
22 11 0.58
23 2 0.11
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (22 bp):
TTATTTATTTGATTTTTTGAAC
Found at i:8840847 original size:18 final size:19
Alignment explanation
Indices: 8840824--8840860 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
8840814 ATATTATTTA
8840824 TAATTAT-TTTAATATAAT
1 TAATTATATTTAATATAAT
8840842 TAATTATAATTTAATATAA
1 TAATTAT-ATTTAATATAA
8840861 AAAATTAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATTATATTTAATATAAT
Found at i:8849100 original size:21 final size:22
Alignment explanation
Indices: 8849071--8849111 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
8849061 TGACCTTTTC
8849071 CTTTCTTTTGTTTTCCTTTTAT
1 CTTTCTTTTGTTTTCCTTTTAT
* *
8849093 CTTT-TTTTTTTTTCTTTTT
1 CTTTCTTTTGTTTTCCTTTT
8849112 TAAGGTTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.80
Consensus pattern (22 bp):
CTTTCTTTTGTTTTCCTTTTAT
Found at i:8856181 original size:14 final size:15
Alignment explanation
Indices: 8856148--8856186 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
8856138 ACATTTAACT
*
8856148 TTTTTTAAAAAATCC
1 TTTTTTAAAAAATAC
*
8856163 TTTTTTAAGAAATAC
1 TTTTTTAAAAAATAC
8856178 TTTTTTAAA
1 TTTTTTAAA
8856187 TAATTATTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (15 bp):
TTTTTTAAAAAATAC
Found at i:8856286 original size:34 final size:34
Alignment explanation
Indices: 8856232--8856303 Score: 103
Period size: 34 Copynumber: 2.1 Consensus size: 34
8856222 AAAAGTCATA
8856232 TTTTTCATTTTATTAATTTAGG-CTTTATTATATT
1 TTTTTCATTTTATTAATTTAGGTC-TTATTATATT
*
8856266 TTTTTCACTTTT-TTAGTTTAGGTCTTATTATATT
1 TTTTTCA-TTTTATTAATTTAGGTCTTATTATATT
8856300 TTTT
1 TTTT
8856304 ATTTGGCTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
34 30 0.86
35 5 0.14
ACGTcount: A:0.19, C:0.07, G:0.07, T:0.67
Consensus pattern (34 bp):
TTTTTCATTTTATTAATTTAGGTCTTATTATATT
Found at i:8856689 original size:8 final size:9
Alignment explanation
Indices: 8856670--8856694 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
8856660 CAATCCACTT
8856670 AAAAACTAA
1 AAAAACTAA
8856679 AAAAACTAA
1 AAAAACTAA
8856688 AAAAACT
1 AAAAACT
8856695 CAAATGTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAACTAA
Found at i:8859227 original size:7 final size:8
Alignment explanation
Indices: 8859208--8859234 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
8859198 AGCATATTCA
8859208 TTTTTTAC
1 TTTTTTAC
8859216 TTTTTTAC
1 TTTTTTAC
8859224 TTTTTTAC
1 TTTTTTAC
8859232 TTT
1 TTT
8859235 CAATTCGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (8 bp):
TTTTTTAC
Found at i:8861102 original size:14 final size:15
Alignment explanation
Indices: 8861083--8861112 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
8861073 TTCGCCTTGA
8861083 AGAATTTTGA-GCCT
1 AGAATTTTGAGGCCT
8861097 AGAATTTTGAGGCCT
1 AGAATTTTGAGGCCT
8861112 A
1 A
8861113 ACTCAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.33
Consensus pattern (15 bp):
AGAATTTTGAGGCCT
Found at i:8867270 original size:38 final size:38
Alignment explanation
Indices: 8867211--8867327 Score: 155
Period size: 38 Copynumber: 3.1 Consensus size: 38
8867201 AAGTTGGAAA
* * *
8867211 TAATAAGATAGTACATACACTCTATCTCATGTACATCT
1 TAATTAGATAGTACATGCACTCTATCTTATGTACATCT
8867249 TAATTAGATAGTACATGCACTCTATCTTATGTACATCT
1 TAATTAGATAGTACATGCACTCTATCTTATGTACATCT
* * * * *
8867287 CAA-TAGATAGAACATGCATTCAATCTTATGCACATCT
1 TAATTAGATAGTACATGCACTCTATCTTATGTACATCT
8867324 TAAT
1 TAAT
8867328 GGTAGTGTTA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
37 32 0.46
38 37 0.54
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (38 bp):
TAATTAGATAGTACATGCACTCTATCTTATGTACATCT
Found at i:8870912 original size:8 final size:8
Alignment explanation
Indices: 8870901--8871055 Score: 86
Period size: 8 Copynumber: 18.8 Consensus size: 8
8870891 AAAAAAATGT
8870901 GAAAAAAA
1 GAAAAAAA
8870909 GAAAAAAA
1 GAAAAAAA
* *
8870917 TGAGAAAAT
1 -GAAAAAAA
*
8870926 GAAAAGAA
1 GAAAAAAA
* *
8870934 CAAGAAGAA
1 GAA-AAAAA
*
8870943 CAAAAAAA
1 GAAAAAAA
8870951 GAAAAAAA
1 GAAAAAAA
8870959 GAAAAAGAGA
1 GAAAAA-A-A
*
8870969 GATAATAAA
1 GA-AAAAAA
8870978 GAAAAAAA
1 GAAAAAAA
*
8870986 G-GAAAAA
1 GAAAAAAA
*
8870993 G--ATAAA
1 GAAAAAAA
*
8870999 GAAAAAAT
1 GAAAAAAA
*
8871007 GAGAAAAAT
1 GA-AAAAAA
8871016 GAAAAAAA
1 GAAAAAAA
8871024 -AAAGAAAA
1 GAAA-AAAA
8871032 GAAAAGAACA
1 GAAAA-AA-A
8871042 -AAATAAAA
1 GAAA-AAAA
8871050 GAAAAA
1 GAAAAA
8871056 TGAAAAGGGG
Statistics
Matches: 118, Mismatches: 15, Indels: 28
0.73 0.09 0.17
Matches are distributed among these distances:
6 5 0.04
7 9 0.08
8 56 0.47
9 39 0.33
10 6 0.05
11 3 0.03
ACGTcount: A:0.77, C:0.02, G:0.16, T:0.05
Consensus pattern (8 bp):
GAAAAAAA
Found at i:8870914 original size:9 final size:9
Alignment explanation
Indices: 8870902--8871044 Score: 74
Period size: 9 Copynumber: 14.6 Consensus size: 9
8870892 AAAAAATGTG
8870902 AAAAAAAGA
1 AAAAAAAGA
8870911 AAAAAATGAGA
1 AAAAAA--AGA
8870922 AAATGAAAAGA
1 AAA--AAAAGA
* *
8870933 ACAAGAAGA
1 AAAAAAAGA
8870942 ACAAAAAA-A
1 A-AAAAAAGA
8870951 GAAAAAAAGA
1 -AAAAAAAGA
*
8870961 AAAAGAGAGA
1 AAAA-AAAGA
* *
8870971 TAATAAAGA
1 AAAAAAAGA
*
8870980 AAAAAAGGAA
1 AAAAAAAG-A
8870990 AAAGATAAAGA
1 AAA-A-AAAGA
*
8871001 AAAAATGAGA
1 AAAAA-AAGA
*
8871011 AAAATGAA-A
1 AAAA-AAAGA
8871020 AAAAAAAGA
1 AAAAAAAGA
8871029 AAAGAAAAGA
1 AAA-AAAAGA
8871039 ACAAAA
1 A-AAAA
8871045 TAAAAGAAAA
Statistics
Matches: 102, Mismatches: 16, Indels: 31
0.68 0.11 0.21
Matches are distributed among these distances:
8 2 0.02
9 42 0.41
10 34 0.33
11 18 0.18
12 3 0.03
13 3 0.03
ACGTcount: A:0.77, C:0.02, G:0.16, T:0.05
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:8870952 original size:11 final size:10
Alignment explanation
Indices: 8870888--8871055 Score: 62
Period size: 9 Copynumber: 16.6 Consensus size: 10
8870878 CCACTCGAAG
8870888 GAAAAAAAAA
1 GAAAAAAAAA
**
8870898 TGTGAAAAAAA
1 -GAAAAAAAAA
*
8870909 GAAAAAAATGA
1 GAAAAAAA-AA
*
8870920 GAAAATGAAAA
1 GAAAA-AAAAA
* *
8870931 G-AACAAGAA
1 GAAAAAAAAA
8870940 GAACAAAAAAA
1 GAA-AAAAAAA
8870951 G--AAAAAAA
1 GAAAAAAAAA
* *
8870959 GAAAAAGAGA
1 GAAAAAAAAA
* *
8870969 G-ATAATAAA
1 GAAAAAAAAA
*
8870978 G-AAAAAAAG
1 GAAAAAAAAA
8870987 GAAAAAGATAAA
1 GAAAAA-A-AAA
**
8870999 GAAAAAATGA
1 GAAAAAAAAA
**
8871009 G-AAAAATGA
1 GAAAAAAAAA
8871018 -AAAAAAAAA
1 GAAAAAAAAA
*
8871027 GAAAAGAAAA
1 GAAAAAAAAA
8871037 GAACAAAATAAAA
1 G-A-AAAA-AAAA
8871050 GAAAAA
1 GAAAAA
8871056 TGAAAAGGGG
Statistics
Matches: 116, Mismatches: 27, Indels: 28
0.68 0.16 0.16
Matches are distributed among these distances:
8 8 0.07
9 30 0.26
10 30 0.26
11 29 0.25
12 14 0.12
13 5 0.04
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.06
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:8870986 original size:21 final size:20
Alignment explanation
Indices: 8870938--8871028 Score: 75
Period size: 21 Copynumber: 4.6 Consensus size: 20
8870928 AAAGAACAAG
*
8870938 AAGAACAAAAAAAG-AAAA-A
1 AAGAA-AAAAAGAGAAAAATA
* *
8870957 AAGAAAAAGAGAG-ATAATA
1 AAGAAAAAAAGAGAAAAATA
8870976 AAGAAAAAAAG-GAAAAAGATA
1 AAGAAAAAAAGAG-AAAA-ATA
*
8870997 AAGAAAAAATGAGAAAAATGA
1 AAGAAAAAAAGAGAAAAAT-A
8871018 AA-AAAAAAAGA
1 AAGAAAAAAAGA
8871029 AAAGAAAAGA
Statistics
Matches: 59, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
18 10 0.17
19 16 0.27
20 12 0.20
21 20 0.34
22 1 0.02
ACGTcount: A:0.77, C:0.01, G:0.16, T:0.05
Consensus pattern (20 bp):
AAGAAAAAAAGAGAAAAATA
Found at i:8871039 original size:28 final size:27
Alignment explanation
Indices: 8870902--8871061 Score: 85
Period size: 29 Copynumber: 5.4 Consensus size: 27
8870892 AAAAAATGTG
*
8870902 AAAAAAAGAAAAAAATGAGAAAATGAAA
1 AAAAAAAGAAAAAAAAGA-AAAATGAAA
8870930 AGAACAAGAAGAACAAAAAAAGAAAAA--AAGA
1 A-AA-AA-AAG-A-AAAAAAAGAAAAATGAA-A
* *
8870961 AAAAGAGAGATAATAAAGAA-AAAAAGGAAA
1 AAAA-AAAGA-AA-AAA-AAGAAAAATGAAA
* *
8870991 AAGATAAAGAAAAAATGAGAAAAATGAAA
1 AA-AAAAAGAAAAAA-AAGAAAAATGAAA
8871020 AAAAAAAGAAAAGAAAAGAACAAAAT-AAA
1 AAAAAAAGAAAA-AAAAG-A-AAAATGAAA
*
8871049 AGAAAAATGAAAA
1 A-AAAAAAGAAAA
8871062 GGGGAAAGAA
Statistics
Matches: 104, Mismatches: 11, Indels: 32
0.71 0.07 0.22
Matches are distributed among these distances:
28 19 0.18
29 33 0.32
30 31 0.30
31 8 0.08
32 5 0.05
33 8 0.08
ACGTcount: A:0.77, C:0.02, G:0.16, T:0.06
Consensus pattern (27 bp):
AAAAAAAGAAAAAAAAGAAAAATGAAA
Found at i:8871044 original size:13 final size:12
Alignment explanation
Indices: 8870921--8871062 Score: 58
Period size: 13 Copynumber: 10.9 Consensus size: 12
8870911 AAAAAATGAG
*
8870921 AAAATGAAAAGA
1 AAAAAGAAAAGA
*
8870933 ACAAGAAGAACAAAA
1 A-AA-AAGAA-AAGA
*
8870948 AAAGAAAAAAAGA
1 AAA-AAGAAAAGA
*
8870961 AAAAGAGAGATAATA
1 AAAA-AGA-A-AAGA
*
8870976 AAGAAA-AAAAGG
1 AA-AAAGAAAAGA
8870988 AAAAAGATAAAGA
1 AAAAAGA-AAAGA
8871001 AAAAATGAGAAA-A
1 AAAAA-GA-AAAGA
8871014 ATGAAAA-AAAA-A
1 A--AAAAGAAAAGA
8871026 AGAAAAGAAAAGA
1 A-AAAAGAAAAGA
*
8871039 ACAAAATAAAAGA
1 A-AAAAGAAAAGA
*
8871052 AAAATGAAAAG
1 AAAAAGAAAAG
8871063 GGGAAAGAAA
Statistics
Matches: 102, Mismatches: 14, Indels: 28
0.71 0.10 0.19
Matches are distributed among these distances:
11 8 0.08
12 24 0.24
13 36 0.35
14 18 0.18
15 14 0.14
16 2 0.02
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.06
Consensus pattern (12 bp):
AAAAAGAAAAGA
Found at i:8871053 original size:41 final size:40
Alignment explanation
Indices: 8870979--8871061 Score: 107
Period size: 41 Copynumber: 2.0 Consensus size: 40
8870969 GATAATAAAG
* *
8870979 AAAAAAAGGAAAAAGATAAAGAAAAAATGAGAAAAATGAA
1 AAAAAAAAGAAAAAGATAAAGAAAAAATAAGAAAAATGAA
8871019 AAAAAAAAG-AAAAGA-AAAGAACAAAATAAAAGAAAAATGAA
1 AAAAAAAAGAAAAAGATAAAGAA-AAAAT--AAGAAAAATGAA
8871060 AA
1 AA
8871062 GGGGAAAGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
38 6 0.16
39 11 0.29
40 8 0.21
41 13 0.34
ACGTcount: A:0.78, C:0.01, G:0.14, T:0.06
Consensus pattern (40 bp):
AAAAAAAAGAAAAAGATAAAGAAAAAATAAGAAAAATGAA
Found at i:8871054 original size:34 final size:33
Alignment explanation
Indices: 8870905--8871055 Score: 92
Period size: 34 Copynumber: 4.3 Consensus size: 33
8870895 AAATGTGAAA
* * *
8870905 AAAAGAAAAAAATGAGAAAATGAAAAGAACAAGAAG
1 AAAAGAAAAAAA--AAAAAAAGAAAAGAACAA-AAT
* * * *
8870941 AACA-AAAAAAGAAAAAAAGAAAAAGAGAGATAAT
1 AAAAGAAAAAAAAAAAAAAG-AAAAGA-ACAAAAT
**
8870975 -AAAGAAAAAAAGGAAAAAGATAAAGAA-AAAAT
1 AAAAGAAAAAAAAAAAAAAGA-AAAGAACAAAAT
8871007 GAGAAAAATGAAAAAAAAAAGAAAAGAAAAGAACAAAAT
1 ----AAAA-GAAAAAAAAAA-AAAAGAAAAGAACAAAAT
8871046 AAAAGAAAAA
1 AAAAGAAAAA
8871056 TGAAAAGGGG
Statistics
Matches: 89, Mismatches: 14, Indels: 26
0.69 0.11 0.20
Matches are distributed among these distances:
32 4 0.04
33 10 0.11
34 31 0.35
35 12 0.13
36 3 0.03
37 3 0.03
38 15 0.17
39 11 0.12
ACGTcount: A:0.77, C:0.02, G:0.16, T:0.05
Consensus pattern (33 bp):
AAAAGAAAAAAAAAAAAAAGAAAAGAACAAAAT
Found at i:8871990 original size:34 final size:35
Alignment explanation
Indices: 8871924--8872000 Score: 86
Period size: 34 Copynumber: 2.2 Consensus size: 35
8871914 TTTAAATTTT
* * *
8871924 ATTTTATTTTATTTTTATTTATTAATTATTTATTA
1 ATTTTAATTTATTTTTACTTATTAAATATTTATTA
*
8871959 ATTTTAATTTA-TTTTACTTATGTAAAT-TTTATTT
1 ATTTTAATTTATTTTTACTTAT-TAAATATTTATTA
*
8871993 TTTTTAAT
1 ATTTTAAT
8872001 ATTTCAAAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
34 22 0.61
35 14 0.39
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.69
Consensus pattern (35 bp):
ATTTTAATTTATTTTTACTTATTAAATATTTATTA
Found at i:8877678 original size:24 final size:24
Alignment explanation
Indices: 8877651--8877707 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
8877641 TTGATAATTA
8877651 CATTTACATCATGGTTG-GAGCATG
1 CATTTACATCATGGTTGAG-GCATG
**
8877675 CATTTGTATCATGGTTGAGGCATG
1 CATTTACATCATGGTTGAGGCATG
*
8877699 TATTTACAT
1 CATTTACAT
8877708 AATATAGTGA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
24 26 0.96
25 1 0.04
ACGTcount: A:0.25, C:0.14, G:0.23, T:0.39
Consensus pattern (24 bp):
CATTTACATCATGGTTGAGGCATG
Found at i:8878108 original size:45 final size:44
Alignment explanation
Indices: 8878053--8878261 Score: 129
Period size: 45 Copynumber: 4.6 Consensus size: 44
8878043 TTTTTTAATA
* *
8878053 AGAATCTTTGAAATTTTGATTGTGAATCTCTAAAATTTTCAAATG
1 AGAATCTTTGAAATTTTGA-TGTGAAACCCTAAAATTTTCAAATG
* * **
8878098 AGAATATTTG-AATTATGGATGTGAAACCCTAAAATTTTTTAATG
1 AGAATCTTTGAAATT-TTGATGTGAAACCCTAAAATTTTCAAATG
* * * **
8878142 A-AACTCTTTGAAATTTTGGATGTGAAATCATAAATTTTTTTTTGAATG
1 AGAA-TCTTTGAAATTTT-GATGTGAAACCCTAAA---ATTTTCAAATG
* * * **
8878190 AGAA-CTTTTGAAAATTTGGATGTGAAACAAC-AAAGTTTTTTTAATG
1 AGAATC-TTTG-AAATTTTGATGTGAAAC-CCTAAA-ATTTTCAAATG
*
8878236 TGAATCTTTGAAATTTTGAATGTGAA
1 AGAATCTTTGAAATTTTG-ATGTGAA
8878262 TTCTTAAGTT
Statistics
Matches: 131, Mismatches: 20, Indels: 25
0.74 0.11 0.14
Matches are distributed among these distances:
43 2 0.02
44 32 0.24
45 37 0.28
46 24 0.18
47 2 0.02
48 26 0.20
49 8 0.06
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (44 bp):
AGAATCTTTGAAATTTTGATGTGAAACCCTAAAATTTTCAAATG
Found at i:8878271 original size:45 final size:44
Alignment explanation
Indices: 8878037--8878347 Score: 206
Period size: 44 Copynumber: 6.9 Consensus size: 44
8878027 GCAGAATCAC
*
8878037 TAAATTTTTTTTAATAAGAATCTTTGAAATTTT-GATTGTGAATCT
1 TAAA-TTTTTTTAATGAGAATCTTTGAAATTTTGGA-TGTGAATCT
* ** * * * *
8878082 CTAAAATTTTCAAATGAGAATATTTG-AATTATGGATGTGAAACCC
1 -TAAATTTTTTTAATGAGAATCTTTGAAATTTTGGATGTG-AATCT
* *
8878127 TAAAATTTTTTAATGA-AACTCTTTGAAATTTTGGATGTGAAATCA
1 TAAATTTTTTTAATGAGAA-TCTTTGAAATTTTGGATGTG-AATCT
* * *
8878172 TAAATTTTTTTTTGAATGAGAA-CTTTTGAAAATTTGGATGTGAAACAA
1 TAAA--TTTTTTT-AATGAGAATC-TTTGAAATTTTGGATGTGAATC-T
* * *
8878220 CAAAGTTTTTTTAATGTGAATCTTTGAAATTTTGAATGTGAATTCT
1 TAAA-TTTTTTTAATGAGAATCTTTGAAATTTTGGATGTGAA-TCT
* * * * * * *
8878266 T-AAGTTTTTCAACTAAAAATCTTT-AACTTTTGGGTGTGAGTCT
1 TAAATTTTTTTAA-TGAGAATCTTTGAAATTTTGGATGTGAATCT
* *
8878309 CTAAA-ATTTTTAATGAGAATCTTT-AAATTATGGATGTGA
1 -TAAATTTTTTTAATGAGAATCTTTGAAATTTTGGATGTGA
8878348 GCCTTGACAT
Statistics
Matches: 209, Mismatches: 41, Indels: 33
0.74 0.14 0.12
Matches are distributed among these distances:
43 26 0.12
44 54 0.26
45 53 0.25
46 29 0.14
47 19 0.09
48 26 0.12
49 2 0.01
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (44 bp):
TAAATTTTTTTAATGAGAATCTTTGAAATTTTGGATGTGAATCT
Found at i:8878561 original size:34 final size:34
Alignment explanation
Indices: 8878523--8878608 Score: 102
Period size: 34 Copynumber: 2.5 Consensus size: 34
8878513 AATGATGAAG
*
8878523 TTGAAATTCTTGCAAATCTGAAAGTCTTATAAAC
1 TTGAAATTCTTGCAAATCTAAAAGTCTTATAAAC
* * * * *
8878557 TTGAACTTCTTG-AGAAACTAAAATTCTTGTAAAT
1 TTGAAATTCTTGCA-AATCTAAAAGTCTTATAAAC
8878591 TTGAAATTCTTGCAAATC
1 TTGAAATTCTTGCAAATC
8878609 CTGGAGTCTT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
33 1 0.02
34 40 0.95
35 1 0.02
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (34 bp):
TTGAAATTCTTGCAAATCTAAAAGTCTTATAAAC
Found at i:8878597 original size:17 final size:17
Alignment explanation
Indices: 8878523--8878607 Score: 64
Period size: 17 Copynumber: 5.0 Consensus size: 17
8878513 AATGATGAAG
8878523 TTGAAATTCTTGCAAAT
1 TTGAAATTCTTGCAAAT
* * ** *
8878540 CTGAAAGTCTTATAAAC
1 TTGAAATTCTTGCAAAT
* *
8878557 TTGAACTTCTTG-AGAAA
1 TTGAAATTCTTGCA-AAT
* * *
8878574 CTAAAATTCTTGTAAAT
1 TTGAAATTCTTGCAAAT
8878591 TTGAAATTCTTGCAAAT
1 TTGAAATTCTTGCAAAT
8878608 CCTGGAGTCT
Statistics
Matches: 49, Mismatches: 17, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
16 1 0.02
17 47 0.96
18 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.38
Consensus pattern (17 bp):
TTGAAATTCTTGCAAAT
Found at i:8878665 original size:37 final size:37
Alignment explanation
Indices: 8878615--8878721 Score: 105
Period size: 37 Copynumber: 2.9 Consensus size: 37
8878605 AATCCTGGAG
*
8878615 TCTTTTCAAATCTT-AGAACCTTTGTGAATCTTGGGAA
1 TCTTTGCAAATCTTGAG-ACCTTTGTGAATCTTGGGAA
* **
8878652 TCTTTGCAAATCTTGATG-CATTTGCAAATCTTGGGAA
1 TCTTTGCAAATCTTGA-GACCTTTGTGAATCTTGGGAA
* *
8878689 -CTTTTGCGAAT-TTGAGATCTTTGTGAATCTTGG
1 TC-TTTGCAAATCTTGAGACCTTTGTGAATCTTGG
8878722 AACCTTAGTG
Statistics
Matches: 57, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
35 1 0.02
36 17 0.30
37 37 0.65
38 1 0.02
39 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (37 bp):
TCTTTGCAAATCTTGAGACCTTTGTGAATCTTGGGAA
Found at i:8878789 original size:18 final size:18
Alignment explanation
Indices: 8878634--8878909 Score: 120
Period size: 18 Copynumber: 15.2 Consensus size: 18
8878624 ATCTTAGAAC
* *
8878634 CTTTGTGAATCTTGGGAAT
1 CTTTGCGAATCTT-GAAAT
*
8878653 CTTTGCAAATCTTG--AT
1 CTTTGCGAATCTTGAAAT
* *
8878669 GCATTTGCAAATCTTGGGAA-
1 -C-TTTGCGAATCTT-GAAAT
*
8878689 CTTTTGCGAAT-TTGAGAT
1 C-TTTGCGAATCTTGAAAT
* * *
8878707 CTTTGTGAATCTTGGAAC
1 CTTTGCGAATCTTGAAAT
* *
8878725 CTTAGTGAATCTT-AAGAGT
1 CTTTGCGAATCTTGAA-A-T
* *
8878744 CTTTACGAATCCTG-AAT
1 CTTTGCGAATCTTGAAAT
8878761 CATTT-CTGAATCTTGAAAT
1 C-TTTGC-GAATCTTGAAAT
*
8878780 CTTTGCGAAT-TTTAGAAT
1 CTTTGCGAATCTTGA-AAT
* *
8878798 CTTTGTGAAGCTTGAAAT
1 CTTTGCGAATCTTGAAAT
* * *
8878816 ATTAGCGAATCTTGGAAT
1 CTTTGCGAATCTTGAAAT
* *** *
8878834 CATTAAAAATCTTGAAGT
1 CTTTGCGAATCTTGAAAT
* *
8878852 TTTTGCGAATCTTTAAAT
1 CTTTGCGAATCTTGAAAT
*
8878870 CTTTGCGAAACTTGAAA-
1 CTTTGCGAATCTTGAAAT
** *
8878887 CTTTTATGAATCTTGAAAC
1 C-TTTGCGAATCTTGAAAT
8878906 CTTT
1 CTTT
8878910 ACAAATTTGG
Statistics
Matches: 191, Mismatches: 48, Indels: 37
0.69 0.17 0.13
Matches are distributed among these distances:
16 2 0.01
17 19 0.10
18 129 0.68
19 40 0.21
21 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.39
Consensus pattern (18 bp):
CTTTGCGAATCTTGAAAT
Found at i:8878963 original size:18 final size:17
Alignment explanation
Indices: 8878899--8878963 Score: 53
Period size: 18 Copynumber: 3.7 Consensus size: 17
8878889 TTTATGAATC
*
8878899 TTGAAACCTTTACAAAT
1 TTGAAATCTTTACAAAT
* *
8878916 TTGGGAA-CTTTAAAAAT
1 TT-GAAATCTTTACAAAT
8878933 CTTG-AATCATTTACAAACT
1 -TTGAAATC-TTTACAAA-T
8878952 TTGAAATCTTTA
1 TTGAAATCTTTA
8878964 TGAATCGTGA
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
16 2 0.05
17 13 0.33
18 19 0.49
19 5 0.13
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.38
Consensus pattern (17 bp):
TTGAAATCTTTACAAAT
Found at i:8882319 original size:21 final size:21
Alignment explanation
Indices: 8882287--8882357 Score: 71
Period size: 21 Copynumber: 3.5 Consensus size: 21
8882277 TAATAATAGG
8882287 TATTTATAATATAAAATATAAA
1 TATTT-TAATATAAAATATAAA
8882309 TATTTTAATAT----TATAAA
1 TATTTTAATATAAAATATAAA
* *
8882326 TATTTTAATA-ATAAATATTAC
1 TATTTTAATATA-AAATATAAA
8882347 TATTTTAATAT
1 TATTTTAATAT
8882358 TAATAAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
17 16 0.39
21 20 0.49
22 5 0.12
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (21 bp):
TATTTTAATATAAAATATAAA
Found at i:8882341 original size:15 final size:16
Alignment explanation
Indices: 8882302--8882344 Score: 70
Period size: 17 Copynumber: 2.7 Consensus size: 16
8882292 ATAATATAAA
8882302 ATATAAATATTTTAAT
1 ATATAAATATTTTAAT
8882318 ATTATAAATATTTTAAT
1 A-TATAAATATTTTAAT
8882335 A-ATAAATATT
1 ATATAAATATT
8882345 ACTATTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.35
16 1 0.04
17 16 0.62
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATAAATATTTTAAT
Found at i:8882342 original size:38 final size:40
Alignment explanation
Indices: 8882287--8882364 Score: 108
Period size: 38 Copynumber: 2.0 Consensus size: 40
8882277 TAATAATAGG
8882287 TATTTATAATATAAAATATAAATATTTTAATATT-ATAAA
1 TATTTATAATATAAAATATAAATATTTTAATATTAATAAA
* *
8882326 TATTT-TAATA-ATAAATATTACTATTTTAATATTAATAAA
1 TATTTATAATATA-AAATATAAATATTTTAATATTAATAAA
8882365 AATAGTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 1 0.03
38 24 0.69
39 10 0.29
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (40 bp):
TATTTATAATATAAAATATAAATATTTTAATATTAATAAA
Found at i:8882475 original size:19 final size:19
Alignment explanation
Indices: 8882450--8882488 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
8882440 TTTAAGTATT
*
8882450 TTTTTTATATTAACATAATA
1 TTTTTAATATTAA-ATAATA
8882470 TTTTTAATATTAAATAATA
1 TTTTTAATATTAAATAATA
8882489 CTATTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTTTAATATTAAATAATA
Found at i:8882495 original size:19 final size:20
Alignment explanation
Indices: 8882456--8882495 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
8882446 TATTTTTTTT
* *
8882456 ATATTAACATAATATTTTTA
1 ATATTAACATAATACTATTA
8882476 ATATTAA-ATAATACTATTA
1 ATATTAACATAATACTATTA
8882495 A
1 A
8882496 AATATAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATTAACATAATACTATTA
Found at i:8883980 original size:18 final size:18
Alignment explanation
Indices: 8883959--8884039 Score: 51
Period size: 20 Copynumber: 4.4 Consensus size: 18
8883949 AAATAATTTT
8883959 TATTAAATTAATATTTAA
1 TATTAAATTAATATTTAA
*
8883977 TATTACATATTAAT-TTAATA
1 TATTA-A-ATTAATATTTA-A
* *
8883997 TATTAAA-TACTA-ATAA
1 TATTAAATTAATATTTAA
* *
8884013 TATTGAAATTATTTAATTAA
1 TATT-AAATTA-ATATTTAA
8884033 TATTAAA
1 TATTAAA
8884040 ATTATTTAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 15
0.70 0.09 0.21
Matches are distributed among these distances:
16 5 0.10
17 7 0.14
18 8 0.16
19 10 0.20
20 19 0.39
ACGTcount: A:0.49, C:0.02, G:0.01, T:0.47
Consensus pattern (18 bp):
TATTAAATTAATATTTAA
Found at i:8884035 original size:20 final size:20
Alignment explanation
Indices: 8884010--8884312 Score: 81
Period size: 20 Copynumber: 14.6 Consensus size: 20
8884000 TAAATACTAA
*
8884010 TAATATTGAAATTATTTAAT
1 TAATATTAAAATTATTTAAT
8884030 TAATATTAAAATTATTTAAT
1 TAATATTAAAATTATTTAAT
8884050 TAATTTTATTAATAAAAATTACTTAATAAAT
1 TAA---TA-T--T-AAAATTA-TT--T-AAT
*
8884081 ATAA-ATTTAATATTATTTAAT
1 -TAATA-TTAAAATTATTTAAT
* *
8884102 TAA-ATGTAATATTATTTAGT
1 TAATAT-TAAAATTATTTAAT
* *
8884122 TAAT-TCTAAAATTGTTAATAT
1 TAATAT-TAAAATTATTTA-AT
* *
8884143 TACATAATT-AAATAATTTAAA
1 TA-AT-ATTAAAATTATTTAAT
* *
8884164 TAAT-TTAATATTAGTTAAT
1 TAATATTAAAATTATTTAAT
* * * *
8884183 T-ATTTTACCACTAATTT-AT
1 TAATATTA-AAATTATTTAAT
*
8884202 TAA-ATTTAATATTATTTAAT
1 TAATA-TTAAAATTATTTAAT
* * *
8884222 TAACT-GTAATATTATTTACT
1 TAA-TATTAAAATTATTTAAT
* * *
8884242 T-A-CTTAATATTAATTAAT
1 TAATATTAAAATTATTTAAT
* *
8884260 TCATATCAAATATTAATTTAA-
1 TAATATTAAA-ATT-ATTTAAT
* * *
8884281 TAATATTAAGATTAGTTAAA
1 TAATATTAAAATTATTTAAT
8884301 TAATATTAAAAT
1 TAATATTAAAAT
8884313 CAATTAAATA
Statistics
Matches: 211, Mismatches: 40, Indels: 64
0.67 0.13 0.20
Matches are distributed among these distances:
18 17 0.08
19 28 0.13
20 98 0.46
21 19 0.09
22 15 0.07
23 3 0.01
24 4 0.02
25 6 0.03
26 2 0.01
27 7 0.03
28 5 0.02
30 1 0.00
31 3 0.01
32 3 0.01
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.48
Consensus pattern (20 bp):
TAATATTAAAATTATTTAAT
Found at i:8884045 original size:29 final size:27
Alignment explanation
Indices: 8884013--8884075 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 27
8884003 ATACTAATAA
8884013 TATTGAAATT-ATTTAATTAATATTAAAAT
1 TATT-AAATTAATTTAATTAATA--AAAAT
* *
8884042 TATTTAATTAATTTTATTAATAAAAAT
1 TATTAAATTAATTTAATTAATAAAAAT
8884069 TACTTAA
1 TA-TTAA
8884076 TAAATATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
27 7 0.24
28 7 0.24
29 15 0.52
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (27 bp):
TATTAAATTAATTTAATTAATAAAAAT
Found at i:8884239 original size:39 final size:40
Alignment explanation
Indices: 8884082--8884260 Score: 95
Period size: 39 Copynumber: 4.5 Consensus size: 40
8884072 TTAATAAATA
* * * *
8884082 TAAATTTAATATTATTTAATTAAATGTAATATTATTTAGT
1 TAAATTTAATATTAGTTAATTAACTGTAATATAATTTACT
* * * **
8884122 T-AATTCTAAAATT-GTTAATATTAC-ATAATTAAATAATTTAAA
1 TAAATT-TAATATTAGTTAAT-TAACTGTAA-T--ATAATTTACT
* * **
8884164 T-AATTTAATATTAGTTAATT-ATTTTACCACTAATTTA-T
1 TAAATTTAATATTAGTTAATTAACTGTAATA-TAATTTACT
* *
8884202 TAAATTTAATATTATTTAATTAACTGTAATATTATTTACT
1 TAAATTTAATATTAGTTAATTAACTGTAATATAATTTACT
* *
8884242 T--ACTTAATATTAATTAATT
1 TAAATTTAATATTAGTTAATT
8884261 CATATCAAAT
Statistics
Matches: 106, Mismatches: 22, Indels: 24
0.70 0.14 0.16
Matches are distributed among these distances:
38 18 0.17
39 43 0.41
40 18 0.17
41 9 0.08
42 18 0.17
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.50
Consensus pattern (40 bp):
TAAATTTAATATTAGTTAATTAACTGTAATATAATTTACT
Found at i:8884286 original size:21 final size:21
Alignment explanation
Indices: 8884247--8884286 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
8884237 TTACTTACTT
*
8884247 AATATTAATTAATTCATATCA
1 AATATTAATTAATTAATATCA
8884268 AATATTAATTTAA-TAATAT
1 AATATTAA-TTAATTAATAT
8884287 TAAGATTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (21 bp):
AATATTAATTAATTAATATCA
Found at i:8884319 original size:20 final size:20
Alignment explanation
Indices: 8884274--8884323 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
8884264 ATCAAATATT
* * *
8884274 AATTTAATAATATTAAGATT
1 AATTAAATAATATTAAAATC
*
8884294 AGTTAAATAATATTAAAATC
1 AATTAAATAATATTAAAATC
8884314 AATTAAATAA
1 AATTAAATAA
8884324 CATTTAATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (20 bp):
AATTAAATAATATTAAAATC
Found at i:8884397 original size:20 final size:20
Alignment explanation
Indices: 8884372--8884428 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
8884362 AAATATTATT
8884372 TTATTAATTAATAAATTTTA
1 TTATTAATTAATAAATTTTA
*
8884392 TTATTAA-TGA-AAATATTTA
1 TTATTAATTAATAAAT-TTTA
* *
8884411 ATATTATTTAATAAATTT
1 TTATTAATTAATAAATTT
8884429 AATATAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
18 4 0.13
19 11 0.37
20 11 0.37
21 4 0.13
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (20 bp):
TTATTAATTAATAAATTTTA
Found at i:8884420 original size:10 final size:10
Alignment explanation
Indices: 8884405--8884499 Score: 70
Period size: 10 Copynumber: 9.5 Consensus size: 10
8884395 TTAATGAAAA
8884405 TATTTAATAT
1 TATTTAATAT
8884415 TATTTAATA-
1 TATTTAATAT
*
8884424 AATTTAATAT
1 TATTTAATAT
* *
8884434 AATTTAATGCT
1 TATTTAAT-AT
*
8884445 TA-TTAGTAT
1 TATTTAATAT
*
8884454 TATCTTAAAAT
1 TAT-TTAATAT
*
8884465 CATTTAAT-T
1 TATTTAATAT
* *
8884474 AATTTTAATAA
1 TA-TTTAATAT
8884485 TATTTAATAT
1 TATTTAATAT
8884495 TATTT
1 TATTT
8884500 TAATGTTTCT
Statistics
Matches: 66, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
9 13 0.20
10 43 0.65
11 10 0.15
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (10 bp):
TATTTAATAT
Found at i:8884496 original size:41 final size:39
Alignment explanation
Indices: 8884150--8884499 Score: 109
Period size: 39 Copynumber: 8.8 Consensus size: 39
8884140 TATTACATAA
* * *
8884150 TTAA-ATAATTT-A-AATAATTTAATATTAGTTAATTATT
1 TTAATATAATTTAATAAT-ATTTAATATTATTTAATAAAT
** * *
8884187 TTACCACTAATTTATTAA-ATTTAATATTATTTAATTAACT
1 TTAATA-TAATTTAATAATATTTAATATTATTTAA-TAAAT
* * * * * *
8884227 GTAATATTATTTACT--TACTTAATATTAATTAATTCATAT
1 TTAATATAATTTAATAATATTTAATATTATTTAA-T-AAAT
** * *
8884266 CAAATATTAATTTAATAATA-TTAAGATTAGTTAA-ATAAT
1 TTAATA-TAATTTAATAATATTTAATATTATTTAATA-AAT
* * * * * *
8884305 ATTAAAATCAATTAAATAACATTTAATATTGGTATAAATTAAAA
1 -TTAATAT-AATTTAATAATATTTAATATT-AT-TTAA-TAAAT
* * * * *
8884349 TTATTTAAACATTAAATATTATTT--TATTAATTAATAAATT
1 TTA-ATATA-ATTTAATAATATTTAATATTATTTAATAAA-T
* *
8884389 TTATTATTAA-TGAA-AATATTTAATATTATTTAATAAAT
1 TTAATA-TAATTTAATAATATTTAATATTATTTAATAAAT
** *
8884427 TTAATATAATTTAATGCT-TATTAGTATTATCTTAA-AATCAT
1 TTAATATAATTTAATAATAT-TTAATATTAT-TTAATAA--AT
8884468 TTAAT-TAATTTTAATAATATTTAATATTATTT
1 TTAATATAA-TTTAATAATATTTAATATTATTT
8884500 TAATGTTTCT
Statistics
Matches: 229, Mismatches: 52, Indels: 61
0.67 0.15 0.18
Matches are distributed among these distances:
37 12 0.05
38 31 0.14
39 70 0.31
40 42 0.18
41 44 0.19
42 7 0.03
43 7 0.03
44 15 0.07
45 1 0.00
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.49
Consensus pattern (39 bp):
TTAATATAATTTAATAATATTTAATATTATTTAATAAAT
Found at i:8885880 original size:20 final size:18
Alignment explanation
Indices: 8885843--8885883 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
8885833 TTAAAATAAT
*
8885843 AAATAAAATTAAAAATTA
1 AAATAAAATCAAAAATTA
8885861 AAATCAAAATCAATAAATTA
1 AAAT-AAAATCAA-AAATTA
8885881 AAA
1 AAA
8885884 AGTTTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 7 0.35
20 9 0.45
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (18 bp):
AAATAAAATCAAAAATTA
Found at i:8886022 original size:12 final size:12
Alignment explanation
Indices: 8886005--8886033 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
8885995 TCAAGTTTGA
8886005 ATTTTAAATAAT
1 ATTTTAAATAAT
8886017 ATTTTAAATAAT
1 ATTTTAAATAAT
8886029 -TTTTA
1 ATTTTA
8886034 CATATTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTTTAAATAAT
Found at i:8888440 original size:18 final size:18
Alignment explanation
Indices: 8888417--8888460 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
8888407 GAGCTAAATA
* * *
8888417 ATATATATACATATATAT
1 ATATATATACACACACAT
8888435 ATATATATACACACACAT
1 ATATATATACACACACAT
8888453 ATATATAT
1 ATATATAT
8888461 GCTAAAAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (18 bp):
ATATATATACACACACAT
Found at i:8892417 original size:6 final size:6
Alignment explanation
Indices: 8892408--8892481 Score: 78
Period size: 6 Copynumber: 12.3 Consensus size: 6
8892398 TTAGATTCTG
* * *
8892408 TTATTG TTATTA TTATTA TTATTA TTATTA TTATTA TTGTTA TTTTTA
1 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
* * *
8892456 CTT-TTA TTTTTA TTTTTA TTTTTA TT
1 -TTATTA TTATTA TTATTA TTATTA TT
8892482 TTTTTATTTC
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
5 2 0.03
6 59 0.94
7 2 0.03
ACGTcount: A:0.23, C:0.01, G:0.03, T:0.73
Consensus pattern (6 bp):
TTATTA
Found at i:8892497 original size:6 final size:6
Alignment explanation
Indices: 8892417--8892484 Score: 82
Period size: 6 Copynumber: 11.3 Consensus size: 6
8892407 GTTATTGTTA
* * * * * *
8892417 TTATTA TTATTA TTATTA TTATTA TTATTG TTATTT TTACTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
8892465 TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT TTATTT TT
8892485 TTATTTCATT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 58 1.00
ACGTcount: A:0.22, C:0.01, G:0.01, T:0.75
Consensus pattern (6 bp):
TTATTT
Found at i:8892845 original size:19 final size:19
Alignment explanation
Indices: 8892820--8892866 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
8892810 TGGATTCTGG
8892820 AGGTGAATTCAAGTTTCTA
1 AGGTGAATTCAAGTTTCTA
* *
8892839 GGGTGAATTCAAGTTTTTA
1 AGGTGAATTCAAGTTTCTA
8892858 AGGTGAATT
1 AGGTGAATT
8892867 TAGGGTCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.30, C:0.06, G:0.26, T:0.38
Consensus pattern (19 bp):
AGGTGAATTCAAGTTTCTA
Found at i:8893317 original size:14 final size:14
Alignment explanation
Indices: 8893286--8893330 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
8893276 CGACCACAAA
*
8893286 TTTTTCTTTTT-TC
1 TTTTTCTTTTTATT
*
8893299 ATTTTCTTTTTATT
1 TTTTTCTTTTTATT
*
8893313 TTTTTATTTTTATT
1 TTTTTCTTTTTATT
8893327 TTTT
1 TTTT
8893331 GATTTATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
13 10 0.37
14 17 0.63
ACGTcount: A:0.09, C:0.07, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTCTTTTTATT
Found at i:8893328 original size:19 final size:19
Alignment explanation
Indices: 8893286--8893322 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
8893276 CGACCACAAA
*
8893286 TTTTTCTTTTTTCATTTTC
1 TTTTTATTTTTTCATTTTC
*
8893305 TTTTTATTTTTTTATTTT
1 TTTTTATTTTTTCATTTT
8893323 TATTTTTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.84
Consensus pattern (19 bp):
TTTTTATTTTTTCATTTTC
Found at i:8893335 original size:14 final size:14
Alignment explanation
Indices: 8893305--8893335 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8893295 TTTCATTTTC
*
8893305 TTTTTATTTTTTTA
1 TTTTTATTTTTTGA
8893319 TTTTTATTTTTTGA
1 TTTTTATTTTTTGA
8893333 TTT
1 TTT
8893336 ATTTTAACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.84
Consensus pattern (14 bp):
TTTTTATTTTTTGA
Found at i:8893427 original size:32 final size:33
Alignment explanation
Indices: 8893379--8893452 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 33
8893369 TTATTTTTAG
* * *
8893379 AAAAAAAAGAGGAAAAATTTATTCTATTTTTTTC
1 AAAAAAAAGA-GAAAAAATTATTATATCTTTTTC
*
8893413 AAAAAAAAGA-AAAAAATTATTATGTCTTTTTC
1 AAAAAAAAGAGAAAAAATTATTATATCTTTTTC
*
8893445 TAAAAAAA
1 AAAAAAAA
8893453 TGAATCAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 25 0.71
34 10 0.29
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (33 bp):
AAAAAAAAGAGAAAAAATTATTATATCTTTTTC
Found at i:8895480 original size:11 final size:11
Alignment explanation
Indices: 8895450--8895479 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
8895440 TATGAAATTT
8895450 GAAAAAAAAGA
1 GAAAAAAAAGA
8895461 GAAAAAAAAG-
1 GAAAAAAAAGA
8895471 GAAAAAAAA
1 GAAAAAAAA
8895480 ATACTAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
GAAAAAAAAGA
Found at i:8896407 original size:18 final size:17
Alignment explanation
Indices: 8896382--8896416 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
8896372 ACTTATCTTT
*
8896382 TTAATAAAATCTTAAAA
1 TTAATAAAATATTAAAA
8896399 TTAACTAAAATATTAAAA
1 TTAA-TAAAATATTAAAA
8896417 AGATAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (17 bp):
TTAATAAAATATTAAAA
Found at i:8897910 original size:20 final size:18
Alignment explanation
Indices: 8897887--8897933 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 18
8897877 TTGTTTGTCA
8897887 TTTTTCATTTTTTATTATGT
1 TTTTTCATTTTTTA-TAT-T
*
8897907 TTTTACACTTTTTTATATT
1 TTTTTCA-TTTTTTATATT
8897926 TTTTTCAT
1 TTTTTCAT
8897934 ACACATTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 1 0.04
19 7 0.29
20 9 0.38
21 7 0.29
ACGTcount: A:0.17, C:0.09, G:0.02, T:0.72
Consensus pattern (18 bp):
TTTTTCATTTTTTATATT
Found at i:8898059 original size:13 final size:13
Alignment explanation
Indices: 8898052--8898077 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8898042 AATAATTAAA
8898052 AAAAATAAAAAAT
1 AAAAATAAAAAAT
8898065 AAAAATAAAAAAT
1 AAAAATAAAAAAT
8898078 TACCAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAATAAAAAAT
Done.