Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 358 of 378
Found at i:107346734 original size:22 final size:22
Alignment explanation
Indices: 107346708--107346749 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
107346698 AAAATTACCT
107346708 TTTCTTTTCTTTCT-TCTTCTCC
1 TTTC-TTTCTTTCTATCTTCTCC
107346730 TTTCTTTCTTTCTATCTTCT
1 TTTCTTTCTTTCTATCTTCT
107346750 TCTTCTGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTCTTTCTTTCTATCTTCTCC
Found at i:107346893 original size:27 final size:27
Alignment explanation
Indices: 107346842--107346894 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
107346832 AGAAAGGCAC
* *
107346842 CACTAGTGCTGCCTGTGGGGCACCCTT
1 CACTAGTGCCGCCTGTGGGACACCCTT
* *
107346869 CACTGGTGCCGCCTGTGGGATACCCT
1 CACTAGTGCCGCCTGTGGGACACCCT
107346895 CCACCCTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.11, C:0.34, G:0.30, T:0.25
Consensus pattern (27 bp):
CACTAGTGCCGCCTGTGGGACACCCTT
Found at i:107347938 original size:20 final size:20
Alignment explanation
Indices: 107347900--107347939 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
107347890 ATATATTTTT
107347900 TAATTTTAATACTCTTTTAAA
1 TAATTTTAATAC-CTTTTAAA
107347921 TAATTTTAATGA-CTTTTAA
1 TAATTTTAAT-ACCTTTTAA
107347940 TTTTTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 10 0.56
22 1 0.06
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (20 bp):
TAATTTTAATACCTTTTAAA
Found at i:107347961 original size:19 final size:18
Alignment explanation
Indices: 107347934--107347971 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
107347924 TTTTAATGAC
107347934 TTTTAATTTTTAAAATATT
1 TTTTAATTTTTAAAA-ATT
*
107347953 TTTTTATTTTTAAAAATT
1 TTTTAATTTTTAAAAATT
107347971 T
1 T
107347972 AAAAATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTAATTTTTAAAAATT
Found at i:107348870 original size:17 final size:16
Alignment explanation
Indices: 107348850--107348902 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 16
107348840 AATAAAAAAA
107348850 TTATAATTTTAAAGTTT
1 TTATAATTTTAAA-TTT
107348867 TTATAATTTTATAATTTT
1 TTATAATTTTA-AA-TTT
107348885 TTAATAATTTTAAATTT
1 TT-ATAATTTTAAATTT
107348902 T
1 T
107348903 AAAAGGGCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
17 15 0.45
18 9 0.27
19 9 0.27
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
TTATAATTTTAAATTT
Found at i:107359897 original size:31 final size:31
Alignment explanation
Indices: 107359859--107359917 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
107359849 TAGTGAGCAG
107359859 GTTCAAATTGGCTCCGACATCATTACTTCAT
1 GTTCAAATTGGCTCCGACATCATTACTTCAT
107359890 GTTCAAATTGGCTCCGACATCATTACTT
1 GTTCAAATTGGCTCCGACATCATTACTT
107359918 TGGAGTGACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (31 bp):
GTTCAAATTGGCTCCGACATCATTACTTCAT
Found at i:107364515 original size:2 final size:2
Alignment explanation
Indices: 107364510--107364536 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
107364500 GTCTTTTCTG
107364510 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
107364537 AATAATGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:107365169 original size:31 final size:32
Alignment explanation
Indices: 107365087--107365173 Score: 104
Period size: 31 Copynumber: 2.8 Consensus size: 32
107365077 TTGAACAAAT
* * *
107365087 TAATGAGAATTTTCCAAAAATTTTGGAGGGCA
1 TAATGAAAATTTTCCAAAAATTTTGAAGAGCA
* *
107365119 TAAT-AAGATTTTCCAAAAATTTTGAAGAGCC
1 TAATGAAAATTTTCCAAAAATTTTGAAGAGCA
* *
107365150 TAATGAAAATTTTTCAAAATTTTT
1 TAATGAAAATTTTCCAAAAATTTT
107365174 AGAGCTCAGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 26 0.57
32 20 0.43
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (32 bp):
TAATGAAAATTTTCCAAAAATTTTGAAGAGCA
Found at i:107370534 original size:13 final size:13
Alignment explanation
Indices: 107370516--107370542 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
107370506 TTGGTACCAC
107370516 ATTTATATCATCA
1 ATTTATATCATCA
107370529 ATTTATATCATCA
1 ATTTATATCATCA
107370542 A
1 A
107370543 AGCATCATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTTATATCATCA
Found at i:107373318 original size:18 final size:18
Alignment explanation
Indices: 107373308--107373344 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
107373298 TGTTTTAAAG
107373308 ATAATTTTTGTATTATAA
1 ATAATTTTTGTATTATAA
107373326 ATAATTTTTGTATTATAA
1 ATAATTTTTGTATTATAA
107373344 A
1 A
107373345 CTTTTTAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (18 bp):
ATAATTTTTGTATTATAA
Found at i:107374296 original size:15 final size:16
Alignment explanation
Indices: 107374276--107374305 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
107374266 GGATATAGAA
107374276 AAATA-TTTAAAAAAT
1 AAATATTTTAAAAAAT
107374291 AAATATTTTAAAAAA
1 AAATATTTTAAAAAA
107374306 GAGAGATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAATATTTTAAAAAAT
Found at i:107375044 original size:18 final size:18
Alignment explanation
Indices: 107375023--107375063 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
107375013 AACTCAATTT
107375023 GAAAAAAAAGTGTTTTTG
1 GAAAAAAAAGTGTTTTTG
107375041 GAAAAAAAAGTGTTTTTG
1 GAAAAAAAAGTGTTTTTG
107375059 GAAAA
1 GAAAA
107375064 TGTTGTACGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (18 bp):
GAAAAAAAAGTGTTTTTG
Found at i:107377132 original size:2 final size:2
Alignment explanation
Indices: 107377125--107377155 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
107377115 CGAAGTTGAA
107377125 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
107377156 AATAATATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:107379185 original size:14 final size:16
Alignment explanation
Indices: 107379165--107379212 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
107379155 AGAAAAATCC
107379165 TTCAAAAT-GAAATAA
1 TTCAAAATCGAAATAA
*
107379180 -TCAAAATCTAAATAA
1 TTCAAAATCGAAATAA
* *
107379195 TTCAAACTCAAAATAA
1 TTCAAAATCGAAATAA
107379211 TT
1 TT
107379213 AAACCCAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 7 0.25
15 6 0.21
16 15 0.54
ACGTcount: A:0.56, C:0.12, G:0.02, T:0.29
Consensus pattern (16 bp):
TTCAAAATCGAAATAA
Found at i:107379208 original size:16 final size:16
Alignment explanation
Indices: 107379174--107379223 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
107379164 CTTCAAAATG
* *
107379174 AAATAA-TCAAAATCT
1 AAATAATTCAAACTCA
107379189 AAATAATTCAAACTCA
1 AAATAATTCAAACTCA
*
107379205 AAATAATT-AAACCCA
1 AAATAATTCAAACTCA
107379220 AAAT
1 AAAT
107379224 TAGAGGACCG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
15 16 0.52
16 15 0.48
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (16 bp):
AAATAATTCAAACTCA
Found at i:107382532 original size:81 final size:81
Alignment explanation
Indices: 107382397--107382564 Score: 327
Period size: 81 Copynumber: 2.1 Consensus size: 81
107382387 ATAGAAACTG
107382397 AAACCATGTAATCTTTGCCATTTTAATGTGAACTTCCAGTCTATGTAGAAACTGAGTATACTAAG
1 AAACCATGTAATCTTTGCCATTTTAATGTGAACTTCCAGTCTATGTAGAAACTGAGTATACTAAG
107382462 TTTAATAGTACACAAA
66 TTTAATAGTACACAAA
*
107382478 AAACCATGTAATCTTTGCCATTTTAATGTGAACTTCCAGTTTATGTAGAAACTGAGTATACTAAG
1 AAACCATGTAATCTTTGCCATTTTAATGTGAACTTCCAGTCTATGTAGAAACTGAGTATACTAAG
107382543 TTTAATAGTACACAAA
66 TTTAATAGTACACAAA
107382559 AAACCA
1 AAACCA
107382565 GAAATCTAAA
Statistics
Matches: 86, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 86 1.00
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (81 bp):
AAACCATGTAATCTTTGCCATTTTAATGTGAACTTCCAGTCTATGTAGAAACTGAGTATACTAAG
TTTAATAGTACACAAA
Found at i:107389639 original size:65 final size:65
Alignment explanation
Indices: 107389525--107389656 Score: 221
Period size: 65 Copynumber: 2.0 Consensus size: 65
107389515 GAAGCTATGA
107389525 ACAAGATTGAGGATGTGTTGTTCACAATACTAAAATAGACAATACATTCATGTTATCAACACAAT
1 ACAAGATTGAGGATGTGTTGTTCACAATACTAAAATAGACAATACATTCATGTTATCAACACAAT
* * *
107389590 ACAATATTGAGGATGTGTTGTTTACAATACTAAAA-ATGACAATATATTCATGTTATCAACACAA
1 ACAAGATTGAGGATGTGTTGTTCACAATACTAAAATA-GACAATACATTCATGTTATCAACACAA
107389654 T
65 T
107389655 AC
1 AC
107389657 TTTAATAGGC
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
64 1 0.02
65 62 0.98
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (65 bp):
ACAAGATTGAGGATGTGTTGTTCACAATACTAAAATAGACAATACATTCATGTTATCAACACAAT
Found at i:107389704 original size:26 final size:25
Alignment explanation
Indices: 107389675--107389759 Score: 77
Period size: 26 Copynumber: 3.3 Consensus size: 25
107389665 GCTCAGTAAA
107389675 AAAAATATCACTATTTATTTATTTTT
1 AAAAATATCACT-TTTATTTATTTTT
*
107389701 AAAAATAT---TTTTATTAATATTTAT
1 AAAAATATCACTTTTATT--TATTTTT
**
107389725 ATATTATATCACTGTTTATTTATTTTT
1 A-AAAATATCACT-TTTATTTATTTTT
107389752 AAAAATAT
1 AAAAATAT
107389760 TTTTATTAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
22 6 0.13
23 1 0.02
24 7 0.15
25 5 0.11
26 13 0.28
27 7 0.15
28 1 0.02
29 6 0.13
ACGTcount: A:0.40, C:0.05, G:0.01, T:0.54
Consensus pattern (25 bp):
AAAAATATCACTTTTATTTATTTTT
Found at i:107389719 original size:12 final size:12
Alignment explanation
Indices: 107389694--107389773 Score: 56
Period size: 12 Copynumber: 6.4 Consensus size: 12
107389684 ACTATTTATT
**
107389694 TATTTTTAAAAA
1 TATTTTTATTAA
107389706 TATTTTTATTAA
1 TATTTTTATTAA
107389718 TATTTATATATTATA
1 TATTT-T-TATTA-A
*
107389733 TCACTGTTTATT--
1 T-A-TTTTTATTAA
**
107389745 TATTTTTAAAAA
1 TATTTTTATTAA
107389757 TATTTTTATTAA
1 TATTTTTATTAA
107389769 TATTT
1 TATTT
107389774 ATATATTTTA
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
10 5 0.09
11 1 0.02
12 31 0.58
13 1 0.02
14 5 0.09
15 6 0.11
16 2 0.04
17 2 0.04
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (12 bp):
TATTTTTATTAA
Found at i:107389743 original size:51 final size:51
Alignment explanation
Indices: 107389679--107389780 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
107389669 AGTAAAAAAA
107389679 ATATCACTATTTATTTATTTTTAAAAATATTTTTATTAATATTTATATATT
1 ATATCACTATTTATTTATTTTTAAAAATATTTTTATTAATATTTATATATT
*
107389730 ATATCACTGTTTATTTATTTTTAAAAATATTTTTATTAATATTTATATATT
1 ATATCACTATTTATTTATTTTTAAAAATATTTTTATTAATATTTATATATT
107389781 TTAGAATTAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (51 bp):
ATATCACTATTTATTTATTTTTAAAAATATTTTTATTAATATTTATATATT
Found at i:107389921 original size:18 final size:17
Alignment explanation
Indices: 107389898--107389938 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
107389888 ATAACTCGAT
107389898 ATTAAATAAATTTATAAA
1 ATTAAATAAATTTA-AAA
*
107389916 ATTAAAAAAATTTAAAA
1 ATTAAATAAATTTAAAA
107389933 A-TAAAT
1 ATTAAAT
107389939 TTATCATGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 4 0.19
17 4 0.19
18 13 0.62
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATTAAATAAATTTAAAA
Found at i:107395773 original size:14 final size:14
Alignment explanation
Indices: 107395754--107395783 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
107395744 AGCACAACCG
*
107395754 TTGGGTACAAAGTT
1 TTGGGTACAAAATT
107395768 TTGGGTACAAAATT
1 TTGGGTACAAAATT
107395782 TT
1 TT
107395784 CCGGTAGAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (14 bp):
TTGGGTACAAAATT
Found at i:107401141 original size:16 final size:16
Alignment explanation
Indices: 107401122--107401166 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
107401112 CAAGAGTTTG
*
107401122 AAATAACTCAAAATCA
1 AAATAATTCAAAATCA
* *
107401138 AAATTATTCAAATTCA
1 AAATAATTCAAAATCA
107401154 AAATAATTCAAAA
1 AAATAATTCAAAA
107401167 AATTTATAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (16 bp):
AAATAATTCAAAATCA
Found at i:107402481 original size:15 final size:16
Alignment explanation
Indices: 107402456--107402489 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
107402446 GAGGAAAAAA
107402456 TTATGTAAAAATATAT
1 TTATGTAAAAATATAT
*
107402472 TTAT-TAAAAATTTAT
1 TTATGTAAAAATATAT
107402487 TTA
1 TTA
107402490 AAAAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
TTATGTAAAAATATAT
Found at i:107408436 original size:42 final size:43
Alignment explanation
Indices: 107408380--107408461 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
107408370 TTTGCAATTG
* *
107408380 TTATGTAACATTTAATTTGTTTG-AAATTCTTATGTTTAAGTTA
1 TTATGTAACATTTAAATTG-TTGAAAATTATTATGTTTAAGTTA
*
107408423 TTATG-AATATTTAAATTGTTGCAAAATTATTATGTTTAA
1 TTATGTAACATTTAAATTGTTG-AAAATTATTATGTTTAA
107408462 TTTGTTTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 3 0.09
42 11 0.32
43 20 0.59
ACGTcount: A:0.34, C:0.04, G:0.11, T:0.51
Consensus pattern (43 bp):
TTATGTAACATTTAAATTGTTGAAAATTATTATGTTTAAGTTA
Found at i:107408753 original size:25 final size:23
Alignment explanation
Indices: 107408701--107408754 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
107408691 AATTGATGCA
107408701 AAATTATTATATTTAATTTTTTTG
1 AAATT-TTATATTTAATTTTTTTG
107408725 -AATTTT-TATTTAACTATTTTTTG
1 AAATTTTATATTTAA-T-TTTTTTG
107408748 CAAATTT
1 -AAATTT
107408755 GCTTTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
21 7 0.27
22 3 0.12
23 11 0.42
25 5 0.19
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (23 bp):
AAATTTTATATTTAATTTTTTTG
Found at i:107422830 original size:17 final size:18
Alignment explanation
Indices: 107422803--107422837 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
107422793 GAGTTTTATT
107422803 TTTTATTTAATTTATATA
1 TTTTATTTAATTTATATA
*
107422821 TTTT-TTTAATTTTTATA
1 TTTTATTTAATTTATATA
107422838 GCGTAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTATTTAATTTATATA
Found at i:107429026 original size:13 final size:13
Alignment explanation
Indices: 107429008--107429032 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
107428998 ATGAACATAC
107429008 TCAAAATCACAGG
1 TCAAAATCACAGG
107429021 TCAAAATCACAG
1 TCAAAATCACAG
107429033 AAACATTCAC
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:0.48, C:0.24, G:0.12, T:0.16
Consensus pattern (13 bp):
TCAAAATCACAGG
Found at i:107439008 original size:46 final size:46
Alignment explanation
Indices: 107438948--107439167 Score: 278
Period size: 46 Copynumber: 5.0 Consensus size: 46
107438938 TTTGACATGA
* * * * * *
107438948 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
107438994 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
107439040 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
107439086 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C---TCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
107439124 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
107439168 AGAGCACACT
Statistics
Matches: 154, Mismatches: 11, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
38 34 0.22
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 4 0.03
46 108 0.70
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:107439131 original size:38 final size:38
Alignment explanation
Indices: 107439080--107439155 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
107439070 ACATTTCATA
107439080 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
107439118 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
1 TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
107439156 ATTTCATATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.34
Consensus pattern (38 bp):
TCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
Found at i:107441319 original size:11 final size:11
Alignment explanation
Indices: 107441303--107441354 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
107441293 TATACTAAAT
107441303 AAATAATAATA
1 AAATAATAATA
*
107441314 AAATAAT-ATT
1 AAATAATAATA
* *
107441324 AAATATCTCATA
1 AAATA-ATAATA
*
107441336 AAATATTAATA
1 AAATAATAATA
107441347 AAATAATA
1 AAATAATA
107441355 TTATCTAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:107442741 original size:24 final size:23
Alignment explanation
Indices: 107442697--107442748 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
107442687 TTTATATTTT
*
107442697 TTAAAAAATTTTAAAACTTTAAA
1 TTAATAAATTTTAAAACTTTAAA
* *
107442720 TTAATAAATTTATAAAATTTTAAT
1 TTAATAAATTT-TAAAACTTTAAA
107442744 TTAAT
1 TTAAT
107442749 TTTTATTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 10 0.40
24 15 0.60
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (23 bp):
TTAATAAATTTTAAAACTTTAAA
Found at i:107447500 original size:17 final size:17
Alignment explanation
Indices: 107447462--107447493 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
107447452 AGTCGTTCTC
107447462 TCTTTGTAAGTCTCAAG
1 TCTTTGTAAGTCTCAAG
107447479 TCTTTG-AAGT-TCAAG
1 TCTTTGTAAGTCTCAAG
107447494 CTTCTTTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 4 0.27
17 6 0.40
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.41
Consensus pattern (17 bp):
TCTTTGTAAGTCTCAAG
Found at i:107451092 original size:13 final size:13
Alignment explanation
Indices: 107451059--107451113 Score: 60
Period size: 13 Copynumber: 4.2 Consensus size: 13
107451049 TAGCCTATTC
107451059 TAAATTAAT-AAAA
1 TAAA-TAATAAAAA
107451072 TAAA-AATAAAAA
1 TAAATAATAAAAA
*
107451084 TAAATAATAAAAC
1 TAAATAATAAAAA
*
107451097 TAAATAAAACAAAA
1 TAAATAATA-AAAA
107451111 TAA
1 TAA
107451114 TATCTTCTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
11 3 0.08
12 8 0.22
13 19 0.53
14 6 0.17
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.22
Consensus pattern (13 bp):
TAAATAATAAAAA
Found at i:107454560 original size:17 final size:16
Alignment explanation
Indices: 107454515--107454577 Score: 54
Period size: 17 Copynumber: 3.8 Consensus size: 16
107454505 TTGGTATTTT
* *
107454515 ATATGGTTTTGGGTTA
1 ATATGGGTTTGGGTTC
*
107454531 ATTTTGGGTTTGGGTTC
1 A-TATGGGTTTGGGTTC
*
107454548 ATATGGGTATTGGGTTT
1 ATATGGGT-TTGGGTTC
*
107454565 ATGTGGGTGTTGG
1 ATATGGGT-TTGG
107454578 TGTGGTTGGT
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
16 7 0.18
17 31 0.82
ACGTcount: A:0.13, C:0.02, G:0.38, T:0.48
Consensus pattern (16 bp):
ATATGGGTTTGGGTTC
Found at i:107454594 original size:52 final size:54
Alignment explanation
Indices: 107454538--107454650 Score: 153
Period size: 52 Copynumber: 2.1 Consensus size: 54
107454528 TTAATTTTGG
*
107454538 GTTTGGGTTCATATG-GGT-ATTGGGTTTATGTGGGTGTT-GGTGTGGTTGGTTT
1 GTTTGGGTT-AGATGAGGTAATTGGGTTTATGTGGGTGTTGGGTGTGGTTGGTTT
* **
107454590 GTTTGGG-TAGGTGATTTAATTGGGTTTATGTGGGTGTTGGGTGTGGTTGGTTT
1 GTTTGGGTTAGATGAGGTAATTGGGTTTATGTGGGTGTTGGGTGTGGTTGGTTT
107454643 GTTTGGGT
1 GTTTGGGT
107454651 AGGTGTGGTT
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
50 3 0.06
51 2 0.04
52 27 0.51
53 21 0.40
ACGTcount: A:0.08, C:0.01, G:0.43, T:0.48
Consensus pattern (54 bp):
GTTTGGGTTAGATGAGGTAATTGGGTTTATGTGGGTGTTGGGTGTGGTTGGTTT
Found at i:107454670 original size:53 final size:52
Alignment explanation
Indices: 107454556--107454655 Score: 191
Period size: 53 Copynumber: 1.9 Consensus size: 52
107454546 TCATATGGGT
107454556 ATTGGGTTTATGTGGGTGTTGGTGTGGTTGGTTTGTTTGGGTAGGTGATTTA
1 ATTGGGTTTATGTGGGTGTTGGTGTGGTTGGTTTGTTTGGGTAGGTGATTTA
107454608 ATTGGGTTTATGTGGGTGTTGGGTGTGGTTGGTTTGTTTGGGTAGGTG
1 ATTGGGTTTATGTGGGTGTT-GGTGTGGTTGGTTTGTTTGGGTAGGTG
107454656 TGGTTGGTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 20 0.43
53 27 0.57
ACGTcount: A:0.08, C:0.00, G:0.45, T:0.47
Consensus pattern (52 bp):
ATTGGGTTTATGTGGGTGTTGGTGTGGTTGGTTTGTTTGGGTAGGTGATTTA
Found at i:107461647 original size:11 final size:11
Alignment explanation
Indices: 107461631--107461660 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
107461621 TAACATTAAG
107461631 AATATATATAT
1 AATATATATAT
*
107461642 AATATAAATAT
1 AATATATATAT
107461653 AATATATA
1 AATATATA
107461661 CAATATACAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATATAT
Found at i:107462195 original size:18 final size:18
Alignment explanation
Indices: 107462159--107462213 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
107462149 CGAAAAAAGG
*
107462159 AAAAAAAATAAA-AA-AT
1 AAAAATAATAAAGAAGAT
*
107462175 AAAAATAA-AAATAAGAGT
1 AAAAATAATAAAGAAGA-T
107462193 -AAAATAATAAAGAAGAT
1 AAAAATAATAAAGAAGAT
107462210 AAAA
1 AAAA
107462214 TCACCTTTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
15 3 0.09
16 9 0.28
17 9 0.28
18 11 0.34
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (18 bp):
AAAAATAATAAAGAAGAT
Found at i:107462196 original size:17 final size:17
Alignment explanation
Indices: 107462176--107462214 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
107462166 ATAAAAAATA
*
107462176 AAAATAA-AAATAAGAGT
1 AAAATAATAAAGAAGA-T
107462193 AAAATAATAAAGAAGAT
1 AAAATAATAAAGAAGAT
107462210 AAAAT
1 AAAAT
107462215 CACCTTTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.18
Consensus pattern (17 bp):
AAAATAATAAAGAAGAT
Found at i:107463551 original size:74 final size:74
Alignment explanation
Indices: 107463241--107464542 Score: 600
Period size: 74 Copynumber: 16.5 Consensus size: 74
107463231 GTGATCTGAA
* *
107463241 GCTCAACTTACCTCTCACAATATGAGTTGATTTTTTTTTTTGAAAGACAGAAATTGAAAATACCT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTTGAAA-ACAGAAATTGAAAATACCT
* *
107463306 CAGCATGTGAAC-CGAG
61 CAGC--GTG-TCTTGAG
* *
107463322 GCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTTTTTGAAAACAGAAATTGAAAACACCTC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTTGAAAACAGAAATTGAAAATACCTC
* * *
107463387 AACGTGTCTTAAA
62 AGCGTGTCTTGAG
** * *
107463400 GCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
**
107463463 TGTCCCGAG
66 TGTCTTGAG
* *
107463472 GCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTGAAAGACAAAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAATACCTCAGC
*
107463536 ATGTCTTGAG
65 GTGTCTTGAG
** * * *
107463546 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTACAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
* *
107463611 TATCCTGAG
66 TGTCTTGAG
* *
107463620 GCTTC-ACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAGGCAGAAATTGAAAA-ACGGAAA
1 GC-TCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAATAC-----
* * * * *
107463683 TTGAAAATCCCTCGGCGTGTGA-
59 CT---CA-GCGT-GTC-T-TGAG
* * *
107463705 G-TCAAGGCTCAACTCACCATTCGCAATATGAGCTGATTTTTTTGAAACACAAAAATT-AAAGA-
1 GCTCAA--CTC-AC-C-TC--TCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAA-AT
*** *** * *
107463767 ACAGAAATG-GAAAACACCTCAG
57 AC-CTCA-GCG---TGTCTTGAG
* ** * * *
107463789 CGTCTTGAGGTTCAACTCATCTCTCGCA-AT-A--TGAGCTGATTTTTTAAAAAACAGAAATTGA
1 -G-C-TCA-ACTC-AC-C-TCTCGC-AATATGAGTTGA--T--TTTTTT-GAAAACAGAAATTGA
*
107463850 AAATACCTCAACGTGTCTTGAG
53 AAATACCTCAGCGTGTCTTGAG
* ** * * **
107463872 GCTCAACTTACCTCTCGCAATATGAGTTGA--TTTTTG-AAACTTAACTTGAAAAGCAGATTTTG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTG-AAA--ATA-CCT-
* * * *
107463934 AAAATGCCTCGATATGTGAC
61 --CA-GCGT-G-TCT-TGAG
* * * *
107463954 TCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAATATAAATTGAAAAAAAA
1 GC-T----CAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTG------AA
* * *
107464017 AATACCTCAGTGTGTGATCTGAA
54 AATACCTCAGCGTGT-CT-TGAG
*
107464040 GCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAA-ACAGAAATTGAAAATACCTCAG
*
107464105 CATGTGAAC-TGAG
64 C--GTG-TCTTGAG
* *
107464118 GCTCAACTCACCTCTCGCAATATAAGTTGGTTTTTTTTTTGAAAACAGAAATTGAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTT-G--ATTTTTTTGAAAACAGAAATTGAAAATACCTCA
*
107464183 ACGTGTCTTGAG
63 GCGTGTCTTGAG
** * *
107464195 GCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
**
107464258 TGTCCCGAG
66 TGTCTTGAG
*
107464267 GCTCAACTCACCAT-TCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTAAAGAACAGAAAT
1 GCTCAACTCACC-TCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATT---G---A-AAAT
* * ** * *
107464331 GGAAAACACCTCAGCGTCTTGAA
57 ----ACCTCAGC-GTGTCTTGAG
* * * *
107464354 GTTCAACTCATCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTGAAAATACCTCAGC
107464419 GTGTCTTGAG
65 GTGTCTTGAG
* * * *
107464429 GCTCAACTCACCGCTCGCAATACGAGTTGATTTTTTTTTTCTGACAACAGAAATTGAAATTACCT
1 GCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTT-TGAAAACAGAAATTGAAAATACCT
*
107464494 CAGCGTGTCCTGAG
61 CAGCGTGTCTTGAG
* *
107464508 GTTCAACTCACCTCTCGCAATATGAGTTGAATTTT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
107464543 GATATAAAAC
Statistics
Matches: 940, Mismatches: 174, Indels: 220
0.70 0.13 0.16
Matches are distributed among these distances:
71 9 0.01
72 126 0.13
73 14 0.01
74 128 0.14
75 70 0.07
76 13 0.01
77 35 0.04
78 77 0.08
79 94 0.10
80 44 0.05
81 73 0.08
82 12 0.01
83 13 0.01
84 22 0.02
85 9 0.01
86 36 0.04
87 103 0.11
88 7 0.01
89 10 0.01
90 3 0.00
91 36 0.04
92 2 0.00
94 4 0.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (74 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
TGTCTTGAG
Found at i:107463832 original size:87 final size:87
Alignment explanation
Indices: 107463586--107463852 Score: 247
Period size: 91 Copynumber: 3.0 Consensus size: 87
107463576 TTTTTTTTAC
** * * *
107463586 AACAGAAATTGAAATTACCTCAGCGTATCCTGAGGCTTC-ACTCACCTCTCACAATATGAGTTGA
1 AACAGAAATTGAAAACACCTCAGCG--TCTTGAGG-TTCAACTCACCTCTCGCAATATGAGCTGA
** *
107463650 TTTTTTTGAAAGGCAGAAATTGAAA
63 TTTTTTTGAAACACAAAAATTGAAA
* * * * *
107463675 AACGGAAATTGAAAATC-CCTCGGCGTGTGAGTCAAGGCTCAACTCACCAT-TCGCAATATGAGC
1 AACAGAAATTGAAAA-CACCTCAGCGTCT---T-GAGGTTCAACTCACC-TCTCGCAATATGAGC
107463738 TGATTTTTTTGAAACACAAAAATT-AAA
60 TGATTTTTTTGAAACACAAAAATTGAAA
* *
107463765 GAACAGAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCATCTCTCGCAATATGAGCTGA-T
1 -AACAGAAATTGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATT
* * *
107463829 TTTTTAAAAAACAGAAATTGAAA
65 TTTTTGAAACACAAAAATTGAAA
107463852 A
1 A
107463853 TACCTCAACG
Statistics
Matches: 144, Mismatches: 23, Indels: 25
0.75 0.12 0.13
Matches are distributed among these distances:
86 19 0.13
87 32 0.22
88 1 0.01
89 20 0.14
90 7 0.05
91 64 0.44
92 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (87 bp):
AACAGAAATTGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTT
TTTTGAAACACAAAAATTGAAA
Found at i:107464059 original size:81 final size:75
Alignment explanation
Indices: 107463959--107464317 Score: 293
Period size: 72 Copynumber: 4.7 Consensus size: 75
107463949 GTGACTCAAG
* *
107463959 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAAAAAATACCT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG------AAAATACCT
** *
107464024 CAGTGTGTGATCTGAA
60 CAGCATGTGAACTGAA
* *
107464040 GCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAAAACAGAAATTGAAAATACCTCAG
*
107464105 CATGTGAACTGAG
63 CATGTGAACTGAA
* *
107464118 GCTCAACTCACCTCTCGCAATATAAGTTGGTTTTTTTTTTG-AAAACAGAAATTGAAAATACCTC
1 GCTCAACTCACCTCTCGCAATATGAGTT-G----ATTTTTGAAAAACAGAAATTGAAAATACCTC
* * *
107464182 A--ACGTG-TCTTGAG
61 AGCATGTGAAC-TGAA
** * *
107464195 GCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAATTACCTCAGC--
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCAT
** * *
107464257 GTGTCCCGAG
66 GTGAACTGAA
* *
107464267 GCTCAACTCACCAT-TCGCAATATGAGCTGATTTTTTTGAAACACAGAAATT
1 GCTCAACTCACC-TCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATT
107464318 AAAGAACAGA
Statistics
Matches: 235, Mismatches: 27, Indels: 38
0.78 0.09 0.13
Matches are distributed among these distances:
72 59 0.25
73 2 0.01
74 5 0.02
75 11 0.05
76 2 0.01
77 33 0.14
78 48 0.20
79 23 0.10
80 6 0.03
81 29 0.12
84 17 0.07
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (75 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATACCTCAGCAT
GTGAACTGAA
Found at i:107464126 original size:159 final size:150
Alignment explanation
Indices: 107463957--107464463 Score: 436
Period size: 159 Copynumber: 3.2 Consensus size: 150
107463947 ATGTGACTCA
107463957 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAAAAAATAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATA-AAATTGAAAAAAAAAATAC
* *
107464022 CTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTTGAAAGACAG
65 CTCA--GTGT-CT-TGAAGCTCAACTCATCTCTCGCAATATGAGTTAA-TTTTTTTGAAA-ACAG
107464087 AAATTGAAAATACCTCAGCATGTGAACTG
124 AAATTGAAAATACCTCAGCA-GTG-ACTG
* * **** ** ***
107464116 AGGCTCAACTCACCTCTCGCAATATAAGTTGGTTTTT--TTTTTGAAAACAGAAATTGAAAATAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAT-AAAATTGAAAAAAAAAATAC
* *
107464179 CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA---TTTTGAAAACAGAAA
65 CTC-A-GTGTCTTGAAGCTCAACTCATCTCTCGCAATATGAGTT-AATTTTTTTGAAAACAGAAA
* * *
107464241 TTGAAATTACCTCAGC-GTGTCCCG
127 TTGAAAATACCTCAGCAGTG-ACTG
* * *
107464265 AGGCTCAACTCACCAT-TCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTAAAGAACAGAA
1 AGGCTCAACTCACC-TCTCGCAATATGAGTTGA--TTTTTGAAAAATA-AAATT---GAA-A-AA
* * * * *
107464329 ATGGAAAACACCTCAGCGTCTTGAAGTTCAACTCATCTCTCGCAATATGAGCTGATTTTTTTGAA
57 A---AAAATACCTCAGTGTCTTGAAGCTCAACTCATCTCTCGCAATATGAGTTAATTTTTTTG-A
* *
107464394 AAACAGAAATTGAAAATACCTCAAC-GTGTCTTG
118 AAACAGAAATTGAAAATACCTCAGCAGTGAC-TG
* *
107464427 AGGCTCAACTCACCGCTCGCAATACGAGTTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
107464464 TTTTTCTGAC
Statistics
Matches: 278, Mismatches: 47, Indels: 45
0.75 0.13 0.12
Matches are distributed among these distances:
149 32 0.12
150 1 0.00
151 27 0.10
152 9 0.03
153 3 0.01
155 29 0.10
156 6 0.02
157 23 0.08
158 3 0.01
159 68 0.24
160 6 0.02
161 15 0.05
162 56 0.20
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (150 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAAAATTGAAAAAAAAAATACC
TCAGTGTCTTGAAGCTCAACTCATCTCTCGCAATATGAGTTAATTTTTTTGAAAACAGAAATTGA
AAATACCTCAGCAGTGACTG
Found at i:107464260 original size:72 final size:72
Alignment explanation
Indices: 107463957--107464544 Score: 433
Period size: 79 Copynumber: 7.5 Consensus size: 72
107463947 ATGTGACTCA
* *
107463957 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAAAAAATAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAACAGAAATTG------AAAATAC
* *
107464022 CTCAGTGTGTGATCTG
59 CTCAGCGTGT-CT-TG
* *
107464038 AAGCTCAACTCACCTCTCGCAATATGAGTTAATTTTTTTTGAAAGACAGAAATTGAAAATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTGAAA-ACAGAAATTGAAAATACCTC
*
107464103 AGCATGTGAAC-TG
62 AGC--GTG-TCTTG
* *
107464116 AGGCTCAACTCACCTCTCGCAATATAAGTTGGTTTTTTTTTTGAAAACAGAAATTGAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTT-G----ATTTTTGAAAACAGAAATTGAAAATACCT
*
107464181 CAACGTGTCTTG
61 CAGCGTGTCTTG
** * *
107464193 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATACCTCAGCG
**
107464258 TGTCCCG
66 TGTCTTG
*
107464265 AGGCTCAACTCACCAT-TCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTAAAGAACAGAA
1 AGGCTCAACTCACC-TCTCGCAATATGAGTTGA--TTTTTGAAA-ACAGAAATT---G---A-AA
* * ** *
107464329 ATGGAAAACACCTCAGCGTCTTG
55 AT----ACCTCAGC-GTGTCTTG
* * * *
107464352 AAGTTCAACTCATCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTG-AAAACAGAAATTGAAAATACCTCA
*
107464417 ACGTGTCTTG
63 GCGTGTCTTG
* * * *
107464427 AGGCTCAACTCACCGCTCGCAATACGAGTTGATTTTTTTTTTCTGACAACAGAAATTGAAATTAC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA------TTTT-TGAAAACAGAAATTGAAAATAC
*
107464492 CTCAGCGTGTCCTG
59 CTCAGCGTGTCTTG
* *
107464506 AGGTTCAACTCACCTCTCGCAATATGAGTTGAATTTTGA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
107464545 TATAAAACAT
Statistics
Matches: 415, Mismatches: 56, Indels: 81
0.75 0.10 0.15
Matches are distributed among these distances:
72 65 0.16
73 4 0.01
74 8 0.02
75 42 0.10
76 6 0.01
77 32 0.08
78 43 0.10
79 87 0.21
80 18 0.04
81 32 0.08
82 3 0.01
83 3 0.01
84 15 0.04
86 5 0.01
87 49 0.12
88 3 0.01
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (72 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATTGAAAATACCTCAGCG
TGTCTTG
Found at i:107464432 original size:162 final size:161
Alignment explanation
Indices: 107464161--107464465 Score: 425
Period size: 162 Copynumber: 1.9 Consensus size: 161
107464151 TTTTTTTGAA
* * * * * *
107464161 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATGGAAAACACCTCAACGCGTCTTGAAGCTCAACTCATCTCTCGCAATATGAGCTGAA
* * * *
107464226 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCATTCGCAATATG
66 TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCACTCGCAATACG
107464291 AGCTGATTTTTTTGAAACACAGAAATTAAAG
131 AGCTGATTTTTTTGAAACACAGAAATTAAAG
*
107464322 AACAGAAATGGAAAACACCTC-A-GCGTCTTGAAGTTCAACTCATCTCTCGCAATATGAGCTGAT
1 AACAGAAATGGAAAACACCTCAACGCGTCTTGAAGCTCAACTCATCTCTCGCAATATGAGCTGA-
* ** *
107464385 TTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCGCTCGCAAT
65 -ATTTTG-AAAACAGAAATTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCACTCGCAAT
*
107464450 ACGAGTTGATTTTTTT
128 ACGAGCTGATTTTTTT
107464466 TTTCTGACAA
Statistics
Matches: 125, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
159 35 0.28
160 1 0.01
161 24 0.19
162 65 0.52
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.29
Consensus pattern (161 bp):
AACAGAAATGGAAAACACCTCAACGCGTCTTGAAGCTCAACTCATCTCTCGCAATATGAGCTGAA
TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCACTCGCAATACG
AGCTGATTTTTTTGAAACACAGAAATTAAAG
Found at i:107477371 original size:11 final size:12
Alignment explanation
Indices: 107477330--107477380 Score: 50
Period size: 12 Copynumber: 4.0 Consensus size: 12
107477320 GAAAAATATA
107477330 ATTTTTT-TTAT
1 ATTTTTTATTAT
*
107477341 ATTTGTTTTGTATAT
1 A-TT-TTTTAT-TAT
107477356 ATATTTTTATTAT
1 AT-TTTTTATTAT
107477369 ATTTTTTATTAT
1 ATTTTTTATTAT
107477381 GATGTATATA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
11 1 0.03
12 12 0.35
13 9 0.26
14 7 0.21
15 5 0.15
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.73
Consensus pattern (12 bp):
ATTTTTTATTAT
Found at i:107477448 original size:17 final size:16
Alignment explanation
Indices: 107477418--107477465 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
107477408 GAAAAAAGGA
*
107477418 AAAAATAAAATAAAAT
1 AAAAATAAGATAAAAT
107477434 AAAAATAAGAGTAAAAT
1 AAAAATAAGA-TAAAAT
*
107477451 AATAAAGAAGATAAA
1 AA-AAATAAGATAAA
107477466 TCACCTTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 9 0.32
17 12 0.43
18 7 0.25
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (16 bp):
AAAAATAAGATAAAAT
Found at i:107489408 original size:21 final size:20
Alignment explanation
Indices: 107489384--107489426 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
107489374 TAAATGATGG
107489384 TATTAGGAA-TATACGATATAA
1 TATTA-GAAGTATAC-ATATAA
*
107489405 TATTAGAAGTATACATGTAA
1 TATTAGAAGTATACATATAA
107489425 TA
1 TA
107489427 GTATATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.47, C:0.05, G:0.14, T:0.35
Consensus pattern (20 bp):
TATTAGAAGTATACATATAA
Found at i:107489496 original size:25 final size:24
Alignment explanation
Indices: 107489447--107489511 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 24
107489437 AGTATAACTA
107489447 ATAATATTAAAAATATGTATAAAAT
1 ATAATATTAAAAA-ATGTATAAAAT
107489472 ATAATATTAAAAAACT-TATACAAAT
1 ATAATATTAAAAAA-TGTATA-AAAT
107489497 A-ACATATATAAAAAA
1 ATA-ATAT-TAAAAAA
107489512 AAATACATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
24 6 0.17
25 23 0.64
26 7 0.19
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.31
Consensus pattern (24 bp):
ATAATATTAAAAAATGTATAAAAT
Found at i:107489591 original size:12 final size:12
Alignment explanation
Indices: 107489574--107489605 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
107489564 AAATAACATC
107489574 TAATAATATTAA
1 TAATAATATTAA
107489586 TAATAATATTAA
1 TAATAATATTAA
*
107489598 AAATAATA
1 TAATAATA
107489606 ATGAAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
TAATAATATTAA
Found at i:107489706 original size:13 final size:14
Alignment explanation
Indices: 107489688--107489718 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
107489678 ATGTATGAAT
107489688 ATATACATATA-TA
1 ATATACATATATTA
107489701 ATATACATATATTA
1 ATATACATATATTA
107489715 ATAT
1 ATAT
107489719 TGATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATACATATATTA
Found at i:107490439 original size:17 final size:18
Alignment explanation
Indices: 107490417--107490461 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
107490407 TAAAAAAAAA
*
107490417 TTATTTTTTTTCTTTT-T
1 TTATTTTTTTTATTTTAT
*
107490434 TTATTTTTGTTATTTTAT
1 TTATTTTTTTTATTTTAT
107490452 TATATTTTTT
1 T-TATTTTTT
107490462 ATATGTATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 14 0.61
18 2 0.09
19 7 0.30
ACGTcount: A:0.13, C:0.02, G:0.02, T:0.82
Consensus pattern (18 bp):
TTATTTTTTTTATTTTAT
Found at i:107490465 original size:9 final size:8
Alignment explanation
Indices: 107490421--107490463 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
107490411 AAAAAATTAT
*
107490421 TTTTTTTC
1 TTTTTTTA
107490429 TTTTTTTA
1 TTTTTTTA
107490437 TTTTTGTTA
1 TTTTT-TTA
*
107490446 TTTTATTA
1 TTTTTTTA
107490454 TATTTTTTA
1 T-TTTTTTA
107490463 T
1 T
107490464 ATGTATATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
8 16 0.53
9 14 0.47
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.81
Consensus pattern (8 bp):
TTTTTTTA
Found at i:107492307 original size:13 final size:13
Alignment explanation
Indices: 107492289--107492313 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
107492279 TAAAGGGATA
107492289 AATAAATAAATAC
1 AATAAATAAATAC
107492302 AATAAATAAATA
1 AATAAATAAATA
107492314 TTAAGGAAAA
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:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (13 bp):
AATAAATAAATAC
Found at i:107500569 original size:15 final size:15
Alignment explanation
Indices: 107500551--107500592 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
107500541 ATAAATTCTA
107500551 AAATTTTAAAATGA-T
1 AAATTTTAAAAT-ATT
*
107500566 AAATTCTAAAATATT
1 AAATTTTAAAATATT
107500581 AATATTTTAAAA
1 AA-ATTTTAAAA
107500593 ATTTATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 1 0.04
15 14 0.61
16 8 0.35
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (15 bp):
AAATTTTAAAATATT
Found at i:107501644 original size:17 final size:16
Alignment explanation
Indices: 107501624--107501671 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 16
107501614 TAATTTTTAT
107501624 AATTTTAAAAATGATTA
1 AATTTTAAAAAT-ATTA
*
107501641 AATTTTATAAATATTTTA
1 AATTTTA-AAA-ATATTA
107501659 AATTTTTAAAAAT
1 AA-TTTTAAAAAT
107501672 TATTTTTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 9 0.33
18 11 0.41
19 7 0.26
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
AATTTTAAAAATATTA
Found at i:107505614 original size:6 final size:6
Alignment explanation
Indices: 107505600--107505633 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
107505590 GTTAAAACAA
*
107505600 AAAAGAG AAAAAG AAAAAA AAAAAG AAAAAG AAA
1 AAAA-AG AAAAAG AAAAAG AAAAAG AAAAAG AAA
107505634 TTGAGTGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 21 0.84
7 4 0.16
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:107505621 original size:18 final size:18
Alignment explanation
Indices: 107505593--107505633 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
107505583 TTTTGTAGTT
107505593 AAAACAAAAAAGAGAAAAAG
1 AAAA-AAAAAA-AGAAAAAG
107505613 AAAAAAAAAAAGAAAAAG
1 AAAAAAAAAAAGAAAAAG
107505631 AAA
1 AAA
107505634 TTGAGTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 11 0.52
19 6 0.29
20 4 0.19
ACGTcount: A:0.85, C:0.02, G:0.12, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAAGAAAAAG
Found at i:107512157 original size:14 final size:14
Alignment explanation
Indices: 107512138--107512165 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
107512128 TCAGTTAATA
107512138 GTGGTTATTTGGAC
1 GTGGTTATTTGGAC
107512152 GTGGTTATTTGGAC
1 GTGGTTATTTGGAC
107512166 ATGTACTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.07, G:0.36, T:0.43
Consensus pattern (14 bp):
GTGGTTATTTGGAC
Found at i:107518877 original size:3 final size:3
Alignment explanation
Indices: 107518863--107518942 Score: 106
Period size: 3 Copynumber: 25.7 Consensus size: 3
107518853 AAACATACAC
*
107518863 TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
* *
107518912 TAG TAA TAA TAC TACA TTAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA-A -TAA TAA TAA TAA TA
107518943 TTTTAATAAC
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
3 62 0.91
4 4 0.06
5 2 0.03
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:107519280 original size:3 final size:3
Alignment explanation
Indices: 107519264--107519549 Score: 179
Period size: 3 Copynumber: 97.3 Consensus size: 3
107519254 ACAACAAAGG
* * * * *
107519264 ATA ATA GTA GTA ATA ATA ATA ATGA A-A ATA AGA GTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
* * * *
107519309 GTA CATTA A-A AT- ACA ATA GTA A-A GTA ATA ATA ATA ATA ATA ATA
1 ATA -A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
107519353 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
* * * ** * * *
107519401 ATA GTA TTG A-A ATA CA-A A-A AGC A-A AT- GTA GT- ATA AAA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
107519441 TTA A-A ATA A-A GTA ATA A-A AAA ATA AT- ATT ATGT ATA AAA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
107519482 ATA TATA TATA CATA TATA 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
107519531 ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
107519550 ATTTAGCAAA
Statistics
Matches: 226, Mismatches: 37, Indels: 40
0.75 0.12 0.13
Matches are distributed among these distances:
2 22 0.10
3 182 0.81
4 20 0.09
5 2 0.01
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:107528100 original size:21 final size:20
Alignment explanation
Indices: 107528074--107528130 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 20
107528064 ACGAAGATGT
*
107528074 TAGTGGAGGTGAGTTTGTTA
1 TAGTGGAGGTGAGTTTCTTA
107528094 GTAGTGGAGAATGTGAGTTTCTTA
1 -TAGTGGAG---GTGAGTTTCTTA
107528118 TAGGTGGAGGTGA
1 TA-GTGGAGGTGA
107528131 TTGCAAATTC
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
21 12 0.39
23 2 0.06
24 17 0.55
ACGTcount: A:0.23, C:0.02, G:0.40, T:0.35
Consensus pattern (20 bp):
TAGTGGAGGTGAGTTTCTTA
Found at i:107528328 original size:72 final size:72
Alignment explanation
Indices: 107528242--107528495 Score: 363
Period size: 72 Copynumber: 3.5 Consensus size: 72
107528232 TAAAGGTGGT
*
107528242 GGTGAGGGTAATGTTACTAGAGGTGAGTTTCTTGGTTGTGAATGTGACGTTATCGATGGAAATGT
1 GGTGAGGGTAATGTTACTAGAGGTGAGTTTCTTGGTTGTGAATGTGACGTTATCGGTGGAAATGT
107528307 TGTTAGA
66 TGTTAGA
*
107528314 GGTGAGGGTAATGTTACTAGAGGTGAGTTTCTTGGTTGTGAATGTGATGTTATCGGTGGAAATGT
1 GGTGAGGGTAATGTTACTAGAGGTGAGTTTCTTGGTTGTGAATGTGACGTTATCGGTGGAAATGT
107528379 TGTTAGA
66 TGTTAGA
* * *
107528386 GGTGA--GT-TTGTTAGC-AGCAAAAGAAATGAGTTTCTTGGTTGTGAAGGTGACGTTATCGGTG
1 GGTGAGGGTAATGTTA-CTAG----AG--GTGAGTTTCTTGGTTGTGAATGTGACGTTATCGGTG
107528447 GAAATGTTGTTAGA
59 GAAATGTTGTTAGA
*
107528461 GGTGAGGGTGATGTTACTAGAGGTGAGTTTCTTGG
1 GGTGAGGGTAATGTTACTAGAGGTGAGTTTCTTGG
107528496 AGGTGGAAGT
Statistics
Matches: 163, Mismatches: 8, Indels: 22
0.84 0.04 0.11
Matches are distributed among these distances:
69 7 0.04
70 3 0.02
72 87 0.53
73 2 0.01
74 2 0.01
75 52 0.32
77 3 0.02
78 7 0.04
ACGTcount: A:0.23, C:0.06, G:0.36, T:0.35
Consensus pattern (72 bp):
GGTGAGGGTAATGTTACTAGAGGTGAGTTTCTTGGTTGTGAATGTGACGTTATCGGTGGAAATGT
TGTTAGA
Found at i:107528630 original size:6 final size:6
Alignment explanation
Indices: 107528619--107528643 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
107528609 TGGTCTTTTC
107528619 GAGGTG GAGGTG GAGGTG GAGGTG G
1 GAGGTG GAGGTG GAGGTG GAGGTG G
107528644 GGATGAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.68, T:0.16
Consensus pattern (6 bp):
GAGGTG
Found at i:107531498 original size:3 final size:3
Alignment explanation
Indices: 107531490--107531529 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
107531480 TGCTACCATG
*
107531490 GAA GAA GAA GAA GAA GAA GAA AAA G-A GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
107531530 GGGCGGCGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:107531553 original size:4 final size:4
Alignment explanation
Indices: 107531539--107531577 Score: 51
Period size: 4 Copynumber: 9.2 Consensus size: 4
107531529 AGGGCGGCGG
*
107531539 GAAA GGAAA GAAA GAAA GAAA AAAA GAAA GAAGA GAAA G
1 GAAA -GAAA GAAA GAAA GAAA GAAA GAAA GAA-A GAAA G
107531578 GAAAAGACAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
4 23 0.74
5 8 0.26
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:107531566 original size:16 final size:17
Alignment explanation
Indices: 107531545--107531576 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
107531535 GCGGGAAAGG
107531545 AAAGAAAGAA-AGAAAA
1 AAAGAAAGAAGAGAAAA
107531561 AAAGAAAGAAGAGAAA
1 AAAGAAAGAAGAGAAA
107531577 GGAAAAGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (17 bp):
AAAGAAAGAAGAGAAAA
Found at i:107534581 original size:17 final size:18
Alignment explanation
Indices: 107534551--107534586 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
107534541 TTAATTTACA
107534551 TTTATTTAAAAATTATAT
1 TTTATTTAAAAATTATAT
*
107534569 TTTATTT-ATAATTATAT
1 TTTATTTAAAAATTATAT
107534586 T
1 T
107534587 AAATTATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TTTATTTAAAAATTATAT
Found at i:107545300 original size:8 final size:8
Alignment explanation
Indices: 107545287--107545316 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
107545277 ATAATTATTA
107545287 AAAATATC
1 AAAATATC
107545295 AAAATATC
1 AAAATATC
107545303 AAAATATC
1 AAAATATC
107545311 AAAATA
1 AAAATA
107545317 GAAAATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAATATC
Found at i:107546947 original size:2 final size:2
Alignment explanation
Indices: 107546942--107546967 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
107546932 ACACACACAC
107546942 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
107546968 GTCTTAAAAA
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):
AT
Found at i:107555565 original size:34 final size:35
Alignment explanation
Indices: 107555515--107555619 Score: 185
Period size: 34 Copynumber: 3.0 Consensus size: 35
107555505 CACTTGCCTC
107555515 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
107555550 TTCCCACT-TCCCATGCTGTCTGCCACCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
* *
107555584 CTCCCACTCTCCCATGCTGTCTGCCGCCAGCACCA
1 TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
107555619 T
1 T
107555620 CACACACCCC
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
34 33 0.50
35 33 0.50
ACGTcount: A:0.16, C:0.49, G:0.12, T:0.23
Consensus pattern (35 bp):
TTCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
Found at i:107556065 original size:34 final size:33
Alignment explanation
Indices: 107556019--107556096 Score: 104
Period size: 33 Copynumber: 2.4 Consensus size: 33
107556009 AAAGAGGGGA
*
107556019 AGCAAAAAAAAAAAAATCCAGCAAAAAA-TTCC
1 AGCAAAAAAAAAAAAATCCAGAAAAAAATTTCC
* **
107556051 AGCACCAAAAAAAAATTTCCAGAAAAAAATTTCC
1 AGCA-AAAAAAAAAAAATCCAGAAAAAAATTTCC
107556085 AGCAAAAAAAAA
1 AGCAAAAAAAAA
107556097 CCAAAAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
32 4 0.10
33 27 0.69
34 8 0.21
ACGTcount: A:0.64, C:0.18, G:0.06, T:0.12
Consensus pattern (33 bp):
AGCAAAAAAAAAAAAATCCAGAAAAAAATTTCC
Found at i:107556378 original size:11 final size:11
Alignment explanation
Indices: 107556364--107556403 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
107556354 TTCCTTCCCC
107556364 CTCCCTTCTCT
1 CTCCCTTCTCT
107556375 CTCCCTTCTCT
1 CTCCCTTCTCT
107556386 CTTCCC-TCTCT
1 C-TCCCTTCTCT
*
107556397 CTTCCTT
1 CTCCCTT
107556404 TTTTTTCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
10 3 0.12
11 19 0.73
12 4 0.15
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:107556989 original size:2 final size:2
Alignment explanation
Indices: 107556919--107556973 Score: 53
Period size: 2 Copynumber: 29.0 Consensus size: 2
107556909 ATCATTTCTA
* * *
107556919 AT AT GT AT AT AT AT AT AT AT AT AT -T AT GT GT AT -T 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
*
107556959 AT AT -T AT GT AT AT AT
1 AT AT AT AT AT AT AT AT
107556974 GCCATTAGTT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
1 3 0.07
2 41 0.93
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (2 bp):
AT
Found at i:107557150 original size:2 final size:2
Alignment explanation
Indices: 107557133--107557175 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
107557123 GTGTATATTT
* *
107557133 TA TA TA CA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
107557175 T
1 T
107557176 TTGCACATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:107569549 original size:129 final size:132
Alignment explanation
Indices: 107569318--107570278 Score: 1666
Period size: 129 Copynumber: 7.4 Consensus size: 132
107569308 GATATCCGCT
* * **
107569318 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATTTGCTGTCTTCGATCCGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
* *
107569383 AAGCACAGGGATG-CAAATCTGATGTTTTCAACTTGTT-CCTATAAGCACAGAGATGCCATGCTG
66 AAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
107569446 AA
131 AA
107569448 ATCTTTGATCTGCTTC-CTGTAAGC-CAGGAATGTCAGATCTGCTATCTTCGATTTGTT-CCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
* *
107569510 AAGCACAAGGGATACCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATG-CATGCT
66 AAGCAC-AGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCT
107569574 GAA
130 GAA
107569577 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
*
107569642 AAGCACA-GGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
66 AAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
107569706 AA
131 AA
*
107569708 ATCTTTGATCTGCTTCACTGTAAGCATAGG-ATGTCAGATCTGCTATCTTCGA-TTGTT-CCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
*
107569770 AAGCACAGGGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
66 AAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
107569835 AA
131 AA
*
107569837 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
107569902 AAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTA-AAGCACAGGGATGCCATGCTG
66 AAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
107569966 AA
131 AA
**
107569968 ATC-TTGATCTGCTTCA-TGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
107570031 AAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
66 AAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
107570096 AA
131 AA
107570098 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTT-CCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
107570162 AAGCACAGGGATGCCAAATCTGCTG-TTTCAACTT-TTCCCTATAAGCACAGGGATGCCATGCTG
66 AAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
107570225 AA
131 AA
*
107570227 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
107570279 TCTGCTCTCT
Statistics
Matches: 800, Mismatches: 17, Indels: 29
0.95 0.02 0.03
Matches are distributed among these distances:
127 11 0.01
128 47 0.06
129 319 0.40
130 181 0.23
131 145 0.18
132 97 0.12
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.32
Consensus pattern (132 bp):
ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTAT
AAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
AA
Found at i:107570092 original size:390 final size:391
Alignment explanation
Indices: 107569318--107570282 Score: 1655
Period size: 390 Copynumber: 2.5 Consensus size: 391
107569308 GATATCCGCT
* * *
107569318 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATTTGCTGTCTTCGATCCGTTCCCTAT
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGAT-TGTT-CCTAT
* *
107569383 AAGCACAGGGATG-CAAATCTGATGTTTTCAACTTGTT-CCTATAAGCACAGAGATGCCATGCTG
64 AAGCACAGGGATGCCAAATCTGCT-TTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTG
*
107569446 AAATCTTTGATCTGCTTC-CTGTAAGC-CAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCTA
128 AAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCTA
107569509 TAAGCACAAGGGATACCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCATGCT
193 TAAGCACAAGGGATACCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCATGCT
**
107569574 GAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCC
258 GAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCC
107569639 TATAAGCACAGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGC
323 TATAAGCACAGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGC
107569704 TGAA
388 TGAA
*
107569708 ATCTTTGATCTGCTTCACTGTAAGCATAGG-ATGTCAGATCTGCTATCTTCGATTGTTCCTATAA
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTGTTCCTATAA
107569772 GCACAGGGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAA
66 GCACAGGGATGCCAAATCTGCT-TTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAA
107569837 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTAT
130 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTT-CCTAT
* *
107569902 AAGCAC-AGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTA-AAGCACAGGGATGCCATGCT
194 AAGCACAAGGGATACCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATG-CATGCT
107569965 GAAATC-TTGATCTGCTTCA-TGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCC
258 GAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCC
*
107570028 TATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATG
323 TATAAGCACA-GGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATG
107570093 CTGAA
387 CTGAA
107570098 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCTATA
1 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA-TTGTTCCTATA
*
107570163 AGCACAGGGATGCCAAATCTGCTGTTTCAACTT-TTCCCTATAAGCACAGGGATGCCATGCTGAA
65 AGCACAGGGATGCCAAATCTGCTTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAA
*
107570227 ATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG-TCTG
130 ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTG
107570283 CTCTCTGCAA
Statistics
Matches: 550, Mismatches: 16, Indels: 19
0.94 0.03 0.03
Matches are distributed among these distances:
387 18 0.03
388 25 0.05
389 120 0.22
390 232 0.42
391 110 0.20
392 45 0.08
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (391 bp):
ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTGTTCCTATAA
GCACAGGGATGCCAAATCTGCTTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAA
TCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCTATAA
GCACAAGGGATACCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCATGCTGAA
ATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGTTCCCTAT
AAGCACAGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGA
A
Found at i:107570253 original size:217 final size:216
Alignment explanation
Indices: 107569364--107570273 Score: 736
Period size: 217 Copynumber: 4.2 Consensus size: 216
107569354 AGATTTGCTG
* * *
107569364 TCTTCGATCCGTTCCCTATAAGCACAGGGATG-CAAATCTGATGTTTTCAACTTGTT-CCTATAA
1 TCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAA
* *
107569427 GCACAGAGATGCCATGCTGAAATCTTTGATCTGCTT-CCTGTAAGC-CAGGAATGTCAGATCTGC
66 GCACAGGGATGCCATGCTGAAATCTTTGATCTG-TTCCCTATAAGCACAGGAATGTCAGATCTGC
* * *
107569490 TATCTTCGATTTGTTCCTATAAGCACAAGGGATACCAAATCTGATGTTTTCAACTTGTTCCCTAT
130 TATCTTCGATTTGTTCCTATAAGCAC-AGGGATGCCAAATCTGATATCTTCAACTTGTT-CCTAT
107569555 AAGCACAGGGATG-CATGCTGAAA
193 AAGCACAGGGATGCCATGCTGAAA
* * * * * * * * *
107569578 TCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATA
1 TCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATA
** * * * *
107569643 AGCACA-GGATGCCAAAT-CTGATGT-TTTCAACTTGTTCCCTATAAGCACAGGGATG-C-CATG
65 AGCACAGGGATGCC--ATGCTGAAATCTTTGATC-TGTTCCCTATAAGCACAGGAATGTCAGAT-
** * * * * * * * *
107569703 CTGAAATCTTTGATCTGCTTCACTGTAAGCATA-GGATGTCAGATCTGCTATCTTCGA-TTGTTC
126 CTGCTATCTTCGATTTG-TTC-CTATAAGCACAGGGATGCCAAATCTGATATCTTCAACTTGTTC
**
107569766 CTATAAGCACAGGGATGCCAAAT-CTGCTA
189 CTATAAGCACAGGGATGCC--ATGCTGAAA
* * ** * * *
107569795 TTTTC-AACTTGTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATCTTTGATC-TGCTTCACT
1 TCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAAAT-CTGCTAT-TTTCAACTTG-TTCCCT
* * * ** * * * *
107569856 GTAAGCACAGGAATGTCA-GATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAA
62 ATAAGCACAGGGATGCCATG--CTGAAATCTTTGATCTGTTCCCTATAAGCACAGGAATGTCAGA
* * * * * * *
107569920 TCTGCTGTTTTCAACTTGTTCCCTA-AAGCACAGGGATGCC--ATGCTGAAATCTTGATC-TGCT
125 TCTGCTATCTTCGATTTGTT-CCTATAAGCACAGGGATGCCAAAT-CTGATATCTTCAACTTG-T
* * * * **
107569981 TCATGTAAGCACAGGAATGTCA-GATCTGCTA
187 TCCTATAAGCACAGGGATGCCATG--CTGAAA
* *
107570012 TCTTCGATCCGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAA
1 TCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAA
* *
107570077 GCACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGC
66 GCACAGGGATGCCATGCTGAAATCTTTGATCTG-TTCCCTATAAGCACAGGAATGTCAGATCTGC
* *
107570142 TATCTTCGATTTGTTCCTATAAGCACAGGGATGCCAAATCTGCTGT-TTCAACTT-TTCCCTATA
130 TATCTTCGATTTGTTCCTATAAGCACAGGGATGCCAAATCTGATATCTTCAACTTGTT-CCTATA
107570205 AGCACAGGGATGCCATGCTGAAA
194 AGCACAGGGATGCCATGCTGAAA
* * * * *
107570228 TCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTAT
1 TCTTCGATCTG-TTCCCTATAAGCACAGGGATGCCAAATCTGCTAT
107570274 CTTCGTCTGC
Statistics
Matches: 530, Mismatches: 120, Indels: 89
0.72 0.16 0.12
Matches are distributed among these distances:
214 11 0.02
215 47 0.09
216 125 0.24
217 288 0.54
218 45 0.08
219 14 0.03
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (216 bp):
TCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAA
GCACAGGGATGCCATGCTGAAATCTTTGATCTGTTCCCTATAAGCACAGGAATGTCAGATCTGCT
ATCTTCGATTTGTTCCTATAAGCACAGGGATGCCAAATCTGATATCTTCAACTTGTTCCTATAAG
CACAGGGATGCCATGCTGAAA
Found at i:107570411 original size:68 final size:68
Alignment explanation
Indices: 107570327--107570525 Score: 303
Period size: 68 Copynumber: 2.9 Consensus size: 68
107570317 TCTTCTTCCA
* * * *
107570327 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCTCTCCAATGCCATTTCTGGAAGAAGAGGT
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGAT
*
107570392 -TT
66 CCT
* *
107570394 GCTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAAAGA
1 -CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGA
107570459 TCCT
65 TCCT
*
107570463 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGGA-AAAAGA
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGA
107570526 AATTTGTAAT
Statistics
Matches: 120, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
67 6 0.05
68 113 0.94
69 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (68 bp):
CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGAT
CCT
Found at i:107570718 original size:43 final size:43
Alignment explanation
Indices: 107570594--107571255 Score: 315
Period size: 43 Copynumber: 15.4 Consensus size: 43
107570584 CTATTTCCCA
* * ** *
107570594 ACTGCTTAAGGGGTTAAGATCTGT-AATTCAACCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATTTGTAAATTCGGCTTGTTACCCT
* *
107570636 ACTGGTTAGGGGGTTAAGATTTGTAAATCTTCAGC-TGTTACCCT
1 ACTGCTTAGGGGGTTAAGATTTGTAAA--TTCGGCTTGTTACCCT
* *
107570680 ACTGCTTAGGGGTTTAAGGTTTGTAAATTCGGCTTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATTTGTAAATTCGGCTTGTTACCCT
**** * * **** *
107570723 ACTGCTTA-GGGGTTAA-AGCCCATCATTTTTTATCTGTTTCCCT
1 ACTGCTTAGGGGGTTAAGA-TTTGTAAATTCGGCT-TGTTACCCT
* * **
107570766 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCAGTTACCCT
1 ACTGCTTAGGGGGTTAAGATTTGTAAA--TTCGGCTTGTTACCCT
* **
107570811 ACTGCTTA-GGGTTTAAGGCTTGTAAATTCGGCTTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATTTGTAAATTCGGCTTGTTACCCT
**** * ** * *
107570853 ACTGCTTAGGGGGTTAA-A-GCCCATCATCTTTGATCTGTTTCCCT
1 ACTGCTTAGGGGGTTAAGATTTGTA-AAT-TCGGCT-TGTTACCCT
* * *
107570897 ACTGCTTA-GGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATTTGTAAA--TTCGGCTTGTTACCCT
* ** *
107570941 A--GCTTAGAGGGTTAAGGCTTGTAAATTTGGCTTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATTTGTAAATTCGGCTTGTTACCCT
*** * ** * *
107570982 ACTGCTTAGGGGGTTAAAGCCAT-CATCTTC-GATCTGTTTCCCT
1 ACTGCTTAGGGGGTT-AAGATTTGTAAATTCGGCT-TGTTACCCT
* ** * *
107571025 ACTGCTTAGGGGGTTAAGATCTT-CATCTTC-GATCTGTTTCCCT
1 ACTGCTTAGGGGGTTAAGAT-TTGTAAATTCGGCT-TGTTACCCT
* * * *
107571068 ACTGCTTAGGGAGATAAGATCTG-CAATTCGG-TCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATTTGTAAATTCGGCT-TGTTACCCT
* * * * * * *
107571110 ACCGATTAGGGGTTTAAGACCCTTCGT--CTTC-GATCTGTT-TCCT
1 ACTGCTTAGGGGGTTAAGA---TTTGTAAATTCGGCT-TGTTACCCT
* * *
107571153 ACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATTTGTAAA--TTCGGCTTGTTACCCT
** *
107571198 ACTGCTTA-GGGGTTAAGGCTTGT-AATTTGGCTTGTTACCCT
1 ACTGCTTAGGGGGTTAAGATTTGTAAATTCGGCTTGTTACCCT
107571239 ACTGCTTAGGGGGTTAA
1 ACTGCTTAGGGGGTTAA
107571256 AGCCCATCAT
Statistics
Matches: 471, Mismatches: 111, Indels: 76
0.72 0.17 0.12
Matches are distributed among these distances:
40 3 0.01
41 36 0.08
42 107 0.23
43 166 0.35
44 118 0.25
45 38 0.08
46 3 0.01
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (43 bp):
ACTGCTTAGGGGGTTAAGATTTGTAAATTCGGCTTGTTACCCT
Found at i:107571185 original size:257 final size:260
Alignment explanation
Indices: 107570626--107571484 Score: 1282
Period size: 257 Copynumber: 3.3 Consensus size: 260
107570616 GTAATTCAAC
* * *
107570626 CTGTTACCCTACTGGTTAGGGGGTTAAGATTTGTAAATCTTCAG-CTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTAC-GCTTAGG
* * * * **
107570690 GGTTTAAGGTTTGTAAATTCGGCTTGTTACCCTACTGCTTA-GGGGTTAAAGCCCATCATTTTTT
65 GGCTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
* * * *
107570754 ATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGCCAGTTACCCTACTGCTT
130 ATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCGA-TCTGTTTCCCTACTGCTT
** * * * * * * *
107570818 AGGG-TTTAAG-GCTTGTAAATTCGG-CTTGTTACCCTACTGCTTAGGGGGTTAA-AGCCCATCA
192 AGGGAGATAAGATC-TG-CAATTCGGTC-TGTTACCCTACCGATTAGGGGTTTAAGA-CCCTTCG
*
107570879 TCTTTGAT
253 TCTTCGAT
107570887 CTGTTTCCCTACTGCTTA-GGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTA-GCTTAGAG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACGCTTAG-G
107570950 GG-TTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAG-CCATCATCTTCG
65 GGCTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
107571013 ATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCTTAGG
130 ATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCTTAGG
107571078 GAGATAAGATCTGCAATTCGGTCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGA
195 GAGATAAGATCTGCAATTCGGTCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGA
107571143 T
260 T
107571144 CTGTTT-CCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTAC-GCTTAGG
107571208 GG-TTAAGGCTTGT-AATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
65 GGCTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCG
107571271 ATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTT-GATCTGTTTCCCTACTGCTTAGG
130 ATCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCTTAGG
107571335 GAGATAAGATCTGCAATTCGGTCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGA
195 GAGATAAGATCTGCAATTCGGTCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGA
107571400 T
260 T
107571401 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGA
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTAC-GCTTAG-
*
107571466 GGGCTTAA-GCTTGTGAATT
64 GGGCTTAAGGCTTGTAAATT
107571485 CACTGATTCT
Statistics
Matches: 560, Mismatches: 22, Indels: 33
0.91 0.04 0.05
Matches are distributed among these distances:
256 11 0.02
257 242 0.43
258 134 0.24
259 101 0.18
260 45 0.08
261 27 0.05
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (260 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACGCTTAGGG
GCTTAAGGCTTGTAAATTTGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGA
TCTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGATCTGTTTCCCTACTGCTTAGGG
AGATAAGATCTGCAATTCGGTCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGAT
Found at i:107571325 original size:86 final size:87
Alignment explanation
Indices: 107570543--107571474 Score: 475
Period size: 86 Copynumber: 10.8 Consensus size: 87
107570533 AATTTCCAGC
* * * * * * *
107570543 CTGTTA-CCTACTACTTAGGGGTTTAAG-GCAT-CATCTTCGATCTATTTCCCAACTGCTTAAGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAGCCCATACATCTTCGATCTGTTACCCTACTGCTTAGGG
** *
107570605 GGTTAAGATCTGTAAT-TCAAC
66 GGTTAAGATCTGTAATCTTGAT
* **** * *
107570626 CTGTTACCCTACTGGTTAGGGGGTTAAGATTTGTAAATCTTC-AGCTGTTACCCTACTGCTTAGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAG-CCCATACATCTTCGATCTGTTACCCTACTGCTTAGG
* * * * *
107570690 GGTTTAAGGTTTGTAAAT-TCG-G
65 GGGTTAAGATCTGT-AATCTTGAT
* ** *
107570712 CTTGTTACCCTACTGCTTA-GGGGTTAAAGCCCAT-CATTTTTTATCTGTTTCCCTACTGCTTAG
1 C-TGTTACCCTACTGCTTAGGGGGTT-AAGCCCATACATCTTCGATCTGTTACCCTACTGCTTAG
* *
107570775 GGGGTTAAGATCTGTAAATCTTCAGC
64 GGGGTTAAGATCTGT-AATCTTGA-T
* * *** * *
107570801 CAGTTACCCTACTGCTTA-GGGTTTAAGGCTTGTA-A-ATTCG-GCTTGTTACCCTACTGCTTAG
1 CTGTTACCCTACTGCTTAGGGGGTTAA-GCCCATACATCTTCGATC-TGTTACCCTACTGCTTAG
* ** *
107570862 GGGGTTAA-AGCCCATCATCTTTGAT
64 GGGGTTAAGA-TCTGTAATC-TTGAT
* * ** * *
107570887 CTGTTTCCCTACTGCTTA-GGGGTTAAGATCTGTAAATCTTC-AGCCTGTTACCCTA--GCTTAG
1 CTGTTACCCTACTGCTTAGGGGGTTAAG-CCCATACATCTTCGA-TCTGTTACCCTACTGCTTAG
* * *
107570948 AGGGTTAAG-GCTTGTAAAT-TTG-G
64 GGGGTTAAGATC-TGT-AATCTTGAT
*
107570971 CTTGTTACCCTACTGCTTAGGGGGTTAAAG-CCAT-CATCTTCGATCTGTTTCCCTACTGCTTAG
1 C-TGTTACCCTACTGCTTAGGGGGTT-AAGCCCATACATCTTCGATCTGTTACCCTACTGCTTAG
*
107571034 GGGGTTAAGATCT-TCATCTTCGAT
64 GGGGTTAAGATCTGTAATCTT-GAT
* * * ** * * * * *
107571058 CTGTTTCCCTACTGCTTAGGGAGATAAGATC-TGCA-ATTCGGTCTGTTACCCTACCGATTAGGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAGCCCATACATCTTCGATCTGTTACCCTACTGCTTAGGG
* * **
107571121 GTTTAAGACCCT-TCGTCTTCGAT
66 GGTTAAGA-TCTGTAATCTT-GAT
* * ** * *
107571144 CTGTT-TCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGCCTGTTACCCTACTGCTTA-
1 CTGTTACCCTACTGCTTAGGGGGTTAAG-CCCATACATCTTCGA-TCTGTTACCCTACTGCTTAG
* *
107571206 GGGGTTAAG-GCTTGTAAT-TTG-G
64 GGGGTTAAGATC-TGTAATCTTGAT
*
107571228 CTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCAT-CATCTTCGATCTGTTTCCCTACTGCTTAG
1 C-TGTTACCCTACTGCTTAGGGGGTT-AAGCCCATACATCTTCGATCTGTTACCCTACTGCTTAG
*
107571292 GGGGTTAAGATCT-TCATCTTGAT
64 GGGGTTAAGATCTGTAATCTTGAT
* * * ** * * * * *
107571315 CTGTTTCCCTACTGCTTAGGGAGATAAGATC-TGCA-ATTCGGTCTGTTACCCTACCGATTAGGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAGCCCATACATCTTCGATCTGTTACCCTACTGCTTAGGG
* * **
107571378 GTTTAAGACCCT-TCGTCTTCGAT
66 GGTTAAGA-TCTGTAATCTT-GAT
* * ** * *
107571401 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGCCTGTTACCCTACTGCTTAG
1 CTGTTACCCTACTGCTTAGGGGGTTAAG-CCCATACATCTTCGA-TCTGTTACCCTACTGCTTAG
*
107571465 AGGGCTTAAG
64 -GGGGTTAAG
107571475 CTTGTGAATT
Statistics
Matches: 652, Mismatches: 138, Indels: 111
0.72 0.15 0.12
Matches are distributed among these distances:
83 6 0.01
84 69 0.11
85 130 0.20
86 268 0.41
87 90 0.14
88 59 0.09
89 22 0.03
90 8 0.01
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (87 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAGCCCATACATCTTCGATCTGTTACCCTACTGCTTAGGG
GGTTAAGATCTGTAATCTTGAT
Found at i:107571643 original size:66 final size:66
Alignment explanation
Indices: 107571537--107571663 Score: 236
Period size: 66 Copynumber: 1.9 Consensus size: 66
107571527 TCTATGCTTA
*
107571537 TGTCAAATGATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
107571602 G
66 G
*
107571603 TGTCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
107571664 TATATGAATG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (66 bp):
TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTGTTATGAAT
G
Found at i:107572796 original size:1 final size:1
Alignment explanation
Indices: 107572792--107572840 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
107572782 TTTTTTAGAA
* * * * *
107572792 TTTTTTTTTTTTTTTGTTTTGTGTTTTTGTGTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
107572841 CCTTTGCCTT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (1 bp):
T
Found at i:107575648 original size:19 final size:20
Alignment explanation
Indices: 107575624--107575670 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
107575614 AGTGAAAGTT
107575624 TAATGCAAATGT-TGCAATG
1 TAATGCAAATGTATGCAATG
*
107575643 TAATGCAAATGTATGGAATG
1 TAATGCAAATGTATGCAATG
107575663 -AATGCAAA
1 TAATGCAAA
107575671 AGAAAGGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGTATGCAATG
Found at i:107578507 original size:3 final size:3
Alignment explanation
Indices: 107578494--107578576 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
107578484 GAGGGCATAT
107578494 ATA AT- ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA ATA
* *
107578538 ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
107578577 AACAAAGCTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 9 0.14
3 45 0.69
4 9 0.14
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:107578516 original size:12 final size:12
Alignment explanation
Indices: 107578492--107578573 Score: 69
Period size: 12 Copynumber: 6.5 Consensus size: 12
107578482 GAGAGGGCAT
107578492 ATATAATATAATA
1 ATATAA-ATAATA
107578505 ATATAAATAATA
1 ATATAAATAATA
107578517 ATATATACATGAGA-A
1 ATATA-A-AT-A-ATA
107578532 ATA-ATAATAATA
1 ATATA-AATAATA
107578544 ATATAAATAATA
1 ATATAAATAATA
* *
107578556 GTAAAAATAATA
1 ATATAAATAATA
*
107578568 AAATAA
1 ATATAA
107578574 TAAAACAAAG
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
11 1 0.02
12 36 0.62
13 10 0.17
14 5 0.09
15 5 0.09
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATATAAATAATA
Found at i:107578535 original size:21 final size:18
Alignment explanation
Indices: 107578494--107578576 Score: 73
Period size: 18 Copynumber: 4.6 Consensus size: 18
107578484 GAGGGCATAT
*
107578494 ATAAT-ATAATAATATAA
1 ATAATAATAATAATAGAA
107578511 ATAATAATATATACATGAGAA
1 ATAATAATA-ATA-AT-AGAA
*
107578532 ATAATAATAATAATATAA
1 ATAATAATAATAATAGAA
* *
107578550 ATAATAGTAAAAATA-ATA
1 ATAATAATAATAATAGA-A
107578568 A-AATAATAA
1 ATAATAATAA
107578577 AACAAAGCTC
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
17 13 0.23
18 21 0.38
19 5 0.09
20 5 0.09
21 12 0.21
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (18 bp):
ATAATAATAATAATAGAA
Found at i:107578564 original size:27 final size:27
Alignment explanation
Indices: 107578492--107578577 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 27
107578482 GAGAGGGCAT
* *
107578492 ATATAATATAATAATATAAATAATAAT-
1 ATATAA-ATAATAGTAAAAATAATAATA
* *
107578519 ATATACAT--GAG-AAATAATAATAATA
1 ATATAAATAATAGTAAA-AATAATAATA
107578544 ATATAAATAATAGTAAAAATAATAA-A
1 ATATAAATAATAGTAAAAATAATAATA
107578570 ATAATAAA
1 AT-ATAAA
107578578 ACAAAGCTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
23 2 0.04
24 10 0.21
25 7 0.15
26 5 0.11
27 20 0.43
28 3 0.06
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (27 bp):
ATATAAATAATAGTAAAAATAATAATA
Found at i:107578934 original size:21 final size:22
Alignment explanation
Indices: 107578910--107579009 Score: 80
Period size: 23 Copynumber: 4.5 Consensus size: 22
107578900 CTTCTTTCTA
107578910 AAAAAACAAAAAAA-CACCTCC
1 AAAAAACAAAAAAACCACCTCC
* *
107578931 AAAAAATAAAAAAACCTCCTCC
1 AAAAAACAAAAAAACCACCTCC
*
107578953 --AAAACAAAGAACAATCCTCCTCC
1 AAAAAACAAA-AA-AA-CCACCTCC
* * *
107578976 AAAAAACCAAAAACCCACCCCCC
1 AAAAAACAAAAAAACCA-CCTCC
*
107578999 TAAAAACAAAA
1 AAAAAACAAAA
107579010 TCTTGAATGG
Statistics
Matches: 63, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
20 7 0.11
21 15 0.24
22 10 0.16
23 22 0.35
24 2 0.03
25 7 0.11
ACGTcount: A:0.59, C:0.32, G:0.01, T:0.08
Consensus pattern (22 bp):
AAAAAACAAAAAAACCACCTCC
Found at i:107578942 original size:22 final size:22
Alignment explanation
Indices: 107578909--107578988 Score: 63
Period size: 22 Copynumber: 3.6 Consensus size: 22
107578899 CCTTCTTTCT
107578909 AAAAAAACAAAAAAACACCTCC
1 AAAAAAACAAAAAAACACCTCC
* *
107578931 AAAAAATA-AAAAAACCTCCTCC
1 AAAAAA-ACAAAAAAACACCTCC
* * ** *
107578953 AAAACAAAGAACAATCCTCCTCC
1 AAAA-AAACAAAAAAACACCTCC
*
107578976 AAAAAACCAAAAA
1 AAAAAAACAAAAA
107578989 CCCACCCCCC
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
22 29 0.60
23 19 0.40
ACGTcount: A:0.62, C:0.28, G:0.01, T:0.09
Consensus pattern (22 bp):
AAAAAAACAAAAAAACACCTCC
Found at i:107579918 original size:15 final size:14
Alignment explanation
Indices: 107579891--107579917 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
107579881 GACAATAGTA
107579891 AAATATTAAAAAAT
1 AAATATTAAAAAAT
107579905 AAATATTAAAAAA
1 AAATATTAAAAAA
107579918 AGGCATGTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATATTAAAAAAT
Found at i:107582634 original size:2 final size:2
Alignment explanation
Indices: 107582627--107582657 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
107582617 ATTAAAAATG
107582627 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
107582658 TAAATACACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:107594357 original size:46 final size:46
Alignment explanation
Indices: 107594306--107594583 Score: 364
Period size: 46 Copynumber: 6.0 Consensus size: 46
107594296 GTGTGCTCTC
**
107594306 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA-A
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
** * *
107594351 CTGATATGAAATGTGTAAGACCATGGTTAAAAGATACCATGGCAACG
1 -TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
107594398 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
** * *
107594444 TGA-CGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCG
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
*
107594490 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * *
107594536 TGACA-GAAAATGAGTAAGACCATGGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
107594582 TG
1 TG
107594584 TCAAAGATAA
Statistics
Matches: 210, Mismatches: 18, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
45 2 0.01
46 207 0.99
47 1 0.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:107594463 original size:92 final size:92
Alignment explanation
Indices: 107594306--107594578 Score: 415
Period size: 92 Copynumber: 3.0 Consensus size: 92
107594296 GTGTGCTCTC
** * *
107594306 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA-ACTGATATG-AAATGTGTAA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACA-TGACA-GAAAATGAGTAA
*
107594369 GACCATGGTTAAAAGATACCATGGCAACG
64 GACCATGGTTGAAAGATACCATGGCAACG
* *
107594398 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGAAAATGAATAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGA
*
107594463 CCATGGTTGAAAGATACCATGGCAGCG
66 CCATGGTTGAAAGATACCATGGCAACG
*
107594490 TGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGA
1 TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGA
* *
107594555 CCATGGTTGAAAGACACTATGGCA
66 CCATGGTTGAAAGATACCATGGCA
107594579 TCATGTCAAA
Statistics
Matches: 166, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
91 1 0.01
92 164 0.99
93 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (92 bp):
TGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGA
CCATGGTTGAAAGATACCATGGCAACG
Found at i:107614238 original size:66 final size:67
Alignment explanation
Indices: 107614166--107614301 Score: 202
Period size: 66 Copynumber: 2.0 Consensus size: 67
107614156 TTAATGTAAG
* * * *
107614166 ATTAAAATTAATTTTTTAATTTCTTAAATTAAATTTAAAAGTATCTATC-TTTTGTCTTATTAAT
1 ATTAAAATTAACTTTTTAATTTCTTAAATTAAATCTAAAAATATCTATCTTTTTATCTTATTAAT
107614230 TT
66 TT
* * *
107614232 ATTAAAATTAACTTTTTAATTTCTTACATTATATCTAAAAATATGTATCTTTTTATCTTATTAAT
1 ATTAAAATTAACTTTTTAATTTCTTAAATTAAATCTAAAAATATCTATCTTTTTATCTTATTAAT
107614297 TT
66 TT
107614299 ATT
1 ATT
107614302 TTTAAATTAA
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
66 43 0.69
67 19 0.31
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.54
Consensus pattern (67 bp):
ATTAAAATTAACTTTTTAATTTCTTAAATTAAATCTAAAAATATCTATCTTTTTATCTTATTAAT
TT
Found at i:107614271 original size:33 final size:31
Alignment explanation
Indices: 107614166--107614271 Score: 79
Period size: 33 Copynumber: 3.2 Consensus size: 31
107614156 TTAATGTAAG
* *
107614166 ATTAAAATTAATTTTTTAATTTCTTAAATTAA
1 ATTAAAATTAACTTTTTAATTTCTT-AATTAT
* * ** *
107614198 ATTTAAAAGTATCTATCTTTTGTCTTATTAATT-T
1 A-TTAAAATTAACT-T-TTTAAT-TTCTTAATTAT
107614232 ATTAAAATTAACTTTTTAATTTCTTACATTAT
1 ATTAAAATTAACTTTTTAATTTCTTA-ATTAT
107614264 ATCTAAAA
1 AT-TAAAA
107614272 ATATGTATCT
Statistics
Matches: 55, Mismatches: 12, Indels: 13
0.69 0.15 0.16
Matches are distributed among these distances:
30 5 0.09
31 7 0.13
32 5 0.09
33 24 0.44
34 2 0.04
35 8 0.15
36 4 0.07
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.52
Consensus pattern (31 bp):
ATTAAAATTAACTTTTTAATTTCTTAATTAT
Found at i:107614815 original size:11 final size:11
Alignment explanation
Indices: 107614799--107614826 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
107614789 GTCCCTACCC
107614799 AGCCTCTGCCT
1 AGCCTCTGCCT
107614810 AGCCTCTGCCT
1 AGCCTCTGCCT
107614821 AGCCTC
1 AGCCTC
107614827 CCCACTTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.11, C:0.46, G:0.18, T:0.25
Consensus pattern (11 bp):
AGCCTCTGCCT
Found at i:107616710 original size:26 final size:24
Alignment explanation
Indices: 107616681--107616754 Score: 60
Period size: 26 Copynumber: 2.8 Consensus size: 24
107616671 CTTATGTACA
107616681 TATATTTACATGCATATATTTTCTTT
1 TATATTTA-ATGCATATATTTT-TTT
107616707 TATATATT-ATGCATATACATTTTTTT
1 TATAT-TTAATGCATAT--ATTTTTTT
* *
107616733 AATATTATATATGTATATATTT
1 TATATT-TA-ATGCATATATTT
107616755 ATACTATATT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
25 9 0.22
26 17 0.43
27 7 0.17
28 7 0.17
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (24 bp):
TATATTTAATGCATATATTTTTTT
Found at i:107616711 original size:28 final size:26
Alignment explanation
Indices: 107616680--107616754 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 26
107616670 TCTTATGTAC
107616680 ATATATTTACATGCATATATTTTCTTTT
1 ATATATTTA-ATGCATATATTTT-TTTT
*
107616708 ATATA-TT-ATGCATATACATTTTTTT
1 ATATATTTAATGCATATA-TTTTTTTT
*
107616733 A-ATATTATATATGTATATATTT
1 ATATATT-TA-ATGCATATATTT
107616755 ATACTATATT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
24 3 0.08
25 15 0.38
26 4 0.10
27 4 0.10
28 13 0.33
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (26 bp):
ATATATTTAATGCATATATTTTTTTT
Found at i:107616721 original size:25 final size:24
Alignment explanation
Indices: 107616690--107616740 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
107616680 ATATATTTAC
*
107616690 ATGCATATA-TTTTCTTTTATATATT
1 ATGCATATACATTT-TTTTA-ATATT
107616715 ATGCATATACATTTTTTTAATATT
1 ATGCATATACATTTTTTTAATATT
107616739 AT
1 AT
107616741 ATATGTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 7 0.29
25 14 0.58
26 3 0.12
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.57
Consensus pattern (24 bp):
ATGCATATACATTTTTTTAATATT
Found at i:107618400 original size:10 final size:10
Alignment explanation
Indices: 107618382--107618413 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
107618372 GCTCTTTCAC
*
107618382 TTAGTTTTGT
1 TTAGATTTGT
107618392 TTAGATTTGT
1 TTAGATTTGT
107618402 TTAGATTTGT
1 TTAGATTTGT
107618412 TT
1 TT
107618414 GGGTCTATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.16, C:0.00, G:0.19, T:0.66
Consensus pattern (10 bp):
TTAGATTTGT
Found at i:107628139 original size:18 final size:18
Alignment explanation
Indices: 107628102--107628140 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
107628092 ATTAAAGGCA
*
107628102 ATAAAATAATTTAATAAT
1 ATAAAATAATTTAACAAT
107628120 ATAAAAT-ATTTAACATAT
1 ATAAAATAATTTAACA-AT
107628138 ATA
1 ATA
107628141 CACTAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAAAATAATTTAACAAT
Found at i:107632975 original size:15 final size:16
Alignment explanation
Indices: 107632938--107632998 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 16
107632928 AAATTTTAAG
* * *
107632938 TTATTTTGAGTTAGGA
1 TTATTTTAAGTTTGAA
107632954 TTATTTTAAGTTTGAA
1 TTATTTTAAGTTTGAA
* *
107632970 -TATTTTAAATTTAAA
1 TTATTTTAAGTTTGAA
*
107632985 TTATTTTGAGTTTG
1 TTATTTTAAGTTTG
107632999 GGATATTCGG
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
15 13 0.36
16 23 0.64
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.56
Consensus pattern (16 bp):
TTATTTTAAGTTTGAA
Found at i:107632991 original size:16 final size:16
Alignment explanation
Indices: 107632953--107632991 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
107632943 TTGAGTTAGG
* *
107632953 ATTATTTTAAGTTTGA
1 ATTATTTTAAATTTAA
107632969 A-TATTTTAAATTTAA
1 ATTATTTTAAATTTAA
107632984 ATTATTTT
1 ATTATTTT
107632992 GAGTTTGGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (16 bp):
ATTATTTTAAATTTAA
Found at i:107633843 original size:71 final size:71
Alignment explanation
Indices: 107633727--107633865 Score: 278
Period size: 71 Copynumber: 2.0 Consensus size: 71
107633717 GTTAAGAGGA
107633727 AGCTTCAATTTGGAAGATATCAGTTATACCTGTTACCATTTCAAAACCACCAACCACCCTCTGCC
1 AGCTTCAATTTGGAAGATATCAGTTATACCTGTTACCATTTCAAAACCACCAACCACCCTCTGCC
107633792 TGGTCC
66 TGGTCC
107633798 AGCTTCAATTTGGAAGATATCAGTTATACCTGTTACCATTTCAAAACCACCAACCACCCTCTGCC
1 AGCTTCAATTTGGAAGATATCAGTTATACCTGTTACCATTTCAAAACCACCAACCACCCTCTGCC
107633863 TGG
66 TGG
107633866 CCCTCTCAAC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 68 1.00
ACGTcount: A:0.29, C:0.30, G:0.13, T:0.28
Consensus pattern (71 bp):
AGCTTCAATTTGGAAGATATCAGTTATACCTGTTACCATTTCAAAACCACCAACCACCCTCTGCC
TGGTCC
Found at i:107640803 original size:21 final size:19
Alignment explanation
Indices: 107640779--107640826 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
107640769 TTAGTATCAT
*
107640779 TTTTATTTGTTTTAATATTTA
1 TTTTATTT-TTTTAA-ATATA
*
107640800 TTTTATGTTTTTAAATATA
1 TTTTATTTTTTTAAATATA
*
107640819 TTTGATTT
1 TTTTATTT
107640827 ATTATATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 10 0.43
20 6 0.26
21 7 0.30
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (19 bp):
TTTTATTTTTTTAAATATA
Found at i:107653949 original size:38 final size:38
Alignment explanation
Indices: 107653898--107653973 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
107653888 ATAATTAGCC
*
107653898 TCCCTAGGAATATGTCTTACCACCCAATGCTCTGTATT
1 TCCCTAGGAATATGTCTTACCACCCAATACTCTGTATT
107653936 TCCCTAGGAATATGTCTTACCACCCAATACTCTGTATT
1 TCCCTAGGAATATGTCTTACCACCCAATACTCTGTATT
107653974 ATGTAGCAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (38 bp):
TCCCTAGGAATATGTCTTACCACCCAATACTCTGTATT
Found at i:107654951 original size:10 final size:10
Alignment explanation
Indices: 107654937--107654981 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
107654927 CAAAATTGAA
107654937 ATTATTTTAT
1 ATTATTTTAT
*
107654947 TTTATTTTAT
1 ATTATTTTAT
*
107654957 AATATTTTAT
1 ATTATTTTAT
107654967 A-TA-TTTA-
1 ATTATTTTAT
107654974 ATTATTTT
1 ATTATTTT
107654982 TAATAAATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
7 1 0.03
8 6 0.20
9 5 0.17
10 18 0.60
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
ATTATTTTAT
Found at i:107655139 original size:2 final size:2
Alignment explanation
Indices: 107655132--107655176 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
107655122 TATCACTAAC
* *
107655132 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
107655174 TA T
1 TA T
107655177 TAGTTTTGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (2 bp):
TA
Found at i:107659600 original size:56 final size:56
Alignment explanation
Indices: 107659514--107659625 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
107659504 TTACTCTACC
107659514 AACCCCTCTCCCTCAATGATGTGAATCGTCATAATAAGCAACCCCTATCTTTTGTG
1 AACCCCTCTCCCTCAATGATGTGAATCGTCATAATAAGCAACCCCTATCTTTTGTG
107659570 AACCCCTCTCCCTCAATGATGTGAATCGTCATAATAAGCAACCCCTATCTTTTGTG
1 AACCCCTCTCCCTCAATGATGTGAATCGTCATAATAAGCAACCCCTATCTTTTGTG
107659626 TTGAACAATA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.27, C:0.30, G:0.12, T:0.30
Consensus pattern (56 bp):
AACCCCTCTCCCTCAATGATGTGAATCGTCATAATAAGCAACCCCTATCTTTTGTG
Found at i:107660369 original size:2 final size:2
Alignment explanation
Indices: 107660356--107660388 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
107660346 AAATTGAAAA
*
107660356 AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
107660389 AAAGTGATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:107662416 original size:24 final size:24
Alignment explanation
Indices: 107662370--107662416 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
107662360 TGCATTATGT
** * *
107662370 ATTTTAATTATTATTTTTTAAAAA
1 ATTTTAATTAGAATCTTTCAAAAA
107662394 ATTTTAATTAGAATCTTTCAAAA
1 ATTTTAATTAGAATCTTTCAAAA
107662417 TATTAATTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (24 bp):
ATTTTAATTAGAATCTTTCAAAAA
Found at i:107669764 original size:2 final size:2
Alignment explanation
Indices: 107669757--107669782 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
107669747 AAATTTTTCC
107669757 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
107669783 TTGTTACATA
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):
AT
Found at i:107682082 original size:2 final size:2
Alignment explanation
Indices: 107682075--107682108 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
107682065 ATTCACTGCA
107682075 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
107682109 ACCAAATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:107682826 original size:17 final size:17
Alignment explanation
Indices: 107682804--107682837 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
107682794 AATTATAAAT
107682804 AGTGTTCTTCTCATGTA
1 AGTGTTCTTCTCATGTA
107682821 AGTGTTCTTCTCATGTA
1 AGTGTTCTTCTCATGTA
107682838 GATCATCTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.47
Consensus pattern (17 bp):
AGTGTTCTTCTCATGTA
Found at i:107683669 original size:20 final size:19
Alignment explanation
Indices: 107683630--107683669 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
107683620 AATTAGAGAG
*
107683630 AATTTATTTTCTAAGTATA
1 AATTTATTTTCTAAGAATA
*
107683649 AATTATATTTTCTAGGAATA
1 AATT-TATTTTCTAAGAATA
107683669 A
1 A
107683670 CAATTTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (19 bp):
AATTTATTTTCTAAGAATA
Found at i:107686859 original size:16 final size:15
Alignment explanation
Indices: 107686821--107686863 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
107686811 TTTTATTTGA
*
107686821 TTTTTATATTTTAAT
1 TTTTTATAATTTAAT
**
107686836 TTGATATAATTTAATT
1 TTTTTATAATTTAA-T
107686852 TTTTTATAATTT
1 TTTTTATAATTT
107686864 CAGGATTTGG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (15 bp):
TTTTTATAATTTAAT
Found at i:107687705 original size:14 final size:15
Alignment explanation
Indices: 107687682--107687714 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
107687672 TTCGAACTTC
*
107687682 AATTATTTAAAT-AT
1 AATTAATTAAATAAT
107687696 AATTAATTAAATAAT
1 AATTAATTAAATAAT
107687711 AATT
1 AATT
107687715 TGAAAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTAATTAAATAAT
Done.