Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 426 of 438
Found at i:131562485 original size:21 final size:21
Alignment explanation
Indices: 131562461--131562532 Score: 58
Period size: 21 Copynumber: 3.2 Consensus size: 21
131562451 CTTTCTGAAA
131562461 TGAAATGTGTAAGACCATGGT
1 TGAAATGTGTAAGACCATGGT
* *
131562482 TGAAA-G-ATACCATGACAACATGAT
1 TGAAATGTGTA--A-GAC--CATGGT
131562506 ATGAAATGTGTAAGACCATGGT
1 -TGAAATGTGTAAGACCATGGT
131562528 TGAAA
1 TGAAA
131562533 GAAACCATGG
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
19 2 0.05
20 1 0.03
21 11 0.28
22 8 0.21
24 8 0.21
25 6 0.15
26 1 0.03
27 2 0.05
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.25
Consensus pattern (21 bp):
TGAAATGTGTAAGACCATGGT
Found at i:131562512 original size:46 final size:46
Alignment explanation
Indices: 131562460--131562778 Score: 381
Period size: 46 Copynumber: 7.0 Consensus size: 46
131562450 GCTTTCTGAA
*
131562460 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
131562506 ATGAAATGTGTAAGACCATGGTTGAAAGAAACCATGGCAACAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
131562552 ATAAAATGTGTAAGATCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*
131562598 ATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAACATGA-
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * ** ** * *
131562643 CGGGAATGAATAAGACCATGGTTGAAAGATACCATGGCAATGTAAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
*** * * *
131562689 ATGAAATGAACAAGATCATGGTTGAAAGATACCATGGCAACCTGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * *
131562735 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
131562779 TCAAAGATAA
Statistics
Matches: 236, Mismatches: 35, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
45 37 0.16
46 199 0.84
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:131562707 original size:137 final size:138
Alignment explanation
Indices: 131562460--131562778 Score: 410
Period size: 137 Copynumber: 2.3 Consensus size: 138
131562450 GCTTTCTGAA
* * * **
131562460 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGATATGAAATGTGTAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAACATGATAGGAAATGAATAAGACCAT
* * ***
131562525 GGTTGAAAGAAACCATGGCAACAGGATATAAAATGTGTAAGATCATGGTTGAAAGATACCATGGC
66 GGTTGAAAGAAACCATGGCAACAGAACATAAAATGAACAAGATCATGGTTGAAAGATACCATGGC
*
131562590 AACATGAT
131 AACATGAC
* *
131562598 ATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAACATGA-CGGGAATGAATAAGACCAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAACATGATAGGAAATGAATAAGACCAT
* * *
131562662 GGTTGAAAGATACCATGGCAA-TGTAACATGAAATGAACAAGATCATGGTTGAAAGATACCATGG
66 GGTTGAAAGAAACCATGGCAACAG-AACATAAAATGAACAAGATCATGGTTGAAAGATACCATGG
*
131562726 CAACCTGAC
130 CAACATGAC
* * * *
131562735 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACTATGGCAACATG
131562779 TCAAAGATAA
Statistics
Matches: 158, Mismatches: 21, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
136 2 0.01
137 113 0.72
138 43 0.27
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (138 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAACATGATAGGAAATGAATAAGACCAT
GGTTGAAAGAAACCATGGCAACAGAACATAAAATGAACAAGATCATGGTTGAAAGATACCATGGC
AACATGAC
Found at i:131563148 original size:25 final size:26
Alignment explanation
Indices: 131563080--131563186 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
131563070 TGATACAAAT
131563080 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
131563106 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
131563132 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
131563157 TGATAATAGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
131563183 TGAT
1 TGAT
131563187 TGGAATTTCA
Statistics
Matches: 77, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
25 24 0.31
26 53 0.69
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:131563186 original size:51 final size:52
Alignment explanation
Indices: 131563080--131563179 Score: 184
Period size: 51 Copynumber: 1.9 Consensus size: 52
131563070 TGATACAAAT
*
131563080 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTTCA
131563132 TGATAAT-GGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTT
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTT
131563180 CTATGATTGG
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
51 40 0.85
52 7 0.15
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.37
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTTCA
Found at i:131565921 original size:25 final size:25
Alignment explanation
Indices: 131565893--131565968 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
131565883 GTCTTACACA
131565893 TTTCATATCATGTTGCCATGGTATC
1 TTTCATATCATGTTGCCATGGTATC
* *
131565918 TTTCA-ACCATG--GTC-T--TATAC
1 TTTCATATCATGTTGCCATGGTAT-C
131565938 ATTTCATATCATGTTGCCATGGTATC
1 -TTTCATATCATGTTGCCATGGTATC
131565964 TTTCA
1 TTTCA
131565969 ACCATGGTCT
Statistics
Matches: 39, Mismatches: 4, Indels: 16
0.66 0.07 0.27
Matches are distributed among these distances:
19 3 0.08
20 1 0.03
21 6 0.15
22 7 0.18
24 7 0.18
25 11 0.28
26 1 0.03
27 3 0.08
ACGTcount: A:0.22, C:0.21, G:0.13, T:0.43
Consensus pattern (25 bp):
TTTCATATCATGTTGCCATGGTATC
Found at i:131565988 original size:46 final size:46
Alignment explanation
Indices: 131565625--131565990 Score: 509
Period size: 46 Copynumber: 8.0 Consensus size: 46
131565615 TTATCTTTGA
* * * * *
131565625 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGT
* ** *
131565671 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
** *
131565717 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* ** *
131565763 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* * *
131565809 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* *
131565855 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* *
131565901 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
131565947 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
131565991 TTCAGAGAGC
Statistics
Matches: 300, Mismatches: 19, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.01
46 296 0.99
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
Found at i:131568149 original size:11 final size:11
Alignment explanation
Indices: 131568133--131568184 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
131568123 TATACTAAAT
131568133 AAATAATAATA
1 AAATAATAATA
*
131568144 AAATAAT-ATT
1 AAATAATAATA
* *
131568154 AAATATCTCATA
1 AAATA-ATAATA
*
131568166 AAATATTAATA
1 AAATAATAATA
131568177 AAATAATA
1 AAATAATA
131568185 TTTATCTAAT
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:131569737 original size:16 final size:17
Alignment explanation
Indices: 131569716--131569748 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
131569706 ATGATGGAGC
131569716 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
131569732 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
131569749 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:131571772 original size:20 final size:19
Alignment explanation
Indices: 131571721--131571772 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
131571711 AAAGCGCACA
* *
131571721 AAATTATAAAAATTAGTAT
1 AAATTATAAAAAATAATAT
*
131571740 AAATGATACAAAAATAATAT
1 AAATTATA-AAAAATAATAT
*
131571760 AAATTATTAAAAA
1 AAATTATAAAAAA
131571773 CTTGCAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (19 bp):
AAATTATAAAAAATAATAT
Found at i:131574109 original size:27 final size:27
Alignment explanation
Indices: 131573954--131574110 Score: 85
Period size: 28 Copynumber: 5.9 Consensus size: 27
131573944 AGGAGGTTAC
131573954 AAATTAAGATAATTAAGAA-TTTAAATTT
1 AAATTAAGATAATTAA-AATTTTAAA-TT
* * * * * *
131573982 AAATTAGGGTATTTAGAGTTTTAATTT
1 AAATTAAGATAATTAAAATTTTAAATT
* *
131574009 AGA-TAAGATAATTAGGAA-TTT-AATT
1 AAATTAAGATAATTA-AAATTTTAAATT
* * *
131574034 -AA-TAGGTTAAATAAAATTTTAGAATT
1 AAATTAAGATAATTAAAATTTTA-AATT
* * * *
131574060 TAGTTAAGATAATTAAGAGTTTAAATT
1 AAATTAAGATAATTAAAATTTTAAATT
131574087 AAATT-AGTATAATTAAAATTTTAA
1 AAATTAAG-ATAATTAAAATTTTAA
131574111 TTTATTTAAA
Statistics
Matches: 94, Mismatches: 27, Indels: 17
0.68 0.20 0.12
Matches are distributed among these distances:
23 2 0.02
24 12 0.13
25 3 0.03
26 17 0.18
27 29 0.31
28 31 0.33
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (27 bp):
AAATTAAGATAATTAAAATTTTAAATT
Found at i:131575897 original size:52 final size:52
Alignment explanation
Indices: 131575839--131575973 Score: 164
Period size: 52 Copynumber: 2.6 Consensus size: 52
131575829 GACGGAAAAT
* *
131575839 ATGTGATATGTGCTTCTGTATAAGACCATAGCAGGGTTATGGCATCGGTAAA
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCAGGGCTATGGCATCGGTAAA
* * * **
131575891 ATGTGAT-TCATGCTCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATG
1 ATGTGATAT-GTGCTTCCGTATAAGACCATAGCAGGGCTATGGCATCGGTAAA
* *
131575943 ATGTGATAATGTGATTCCATATAAGACCATA
1 ATGTGAT-ATGTGCTTCCGTATAAGACCATA
131575974 TCTGGGATAT
Statistics
Matches: 69, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
51 1 0.01
52 50 0.72
53 17 0.25
54 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (52 bp):
ATGTGATATGTGCTTCCGTATAAGACCATAGCAGGGCTATGGCATCGGTAAA
Found at i:131582116 original size:23 final size:23
Alignment explanation
Indices: 131582090--131582133 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
131582080 ATGCACATCA
131582090 GTTTACAGTTTCAATAATTATCT
1 GTTTACAGTTTCAATAATTATCT
*
131582113 GTTTACAGTTTCGATAATTAT
1 GTTTACAGTTTCAATAATTAT
131582134 TAGCAGATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (23 bp):
GTTTACAGTTTCAATAATTATCT
Found at i:131584438 original size:3 final size:3
Alignment explanation
Indices: 131584432--131584521 Score: 53
Period size: 3 Copynumber: 30.7 Consensus size: 3
131584422 TAACAACACA
* * * * *
131584432 AAT AAT AA- AAT AAC ACT -AT AAT AA- AAT AAC AAA AAT AAT AAT AAG
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
131584477 AAT AAT AAT ACT ATTT AAT AAT GAT AAT AAT ATAT AGT AA- AAT AA
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AA
131584522 CAGAAAAAGA
Statistics
Matches: 65, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
2 7 0.11
3 53 0.82
4 5 0.08
ACGTcount: A:0.63, C:0.04, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:131584942 original size:27 final size:27
Alignment explanation
Indices: 131584900--131584995 Score: 106
Period size: 27 Copynumber: 3.6 Consensus size: 27
131584890 AGGAGGTTAC
*
131584900 AAATTAAGATAATTAAGAATTTAAATT
1 AAATTAAGATAATTAAGAGTTTAAATT
* * *
131584927 AAATTAGGATATTTAA-AGTTTTAATT
1 AAATTAAGATAATTAAGAGTTTAAATT
* *
131584953 -TATATAAGATAATTAGGAGTTTAAATT
1 AAAT-TAAGATAATTAAGAGTTTAAATT
*
131584980 AAATTAATATAATTAA
1 AAATTAAGATAATTAA
131584996 AATTTTAATT
Statistics
Matches: 54, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
25 2 0.04
26 17 0.31
27 33 0.61
28 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (27 bp):
AAATTAAGATAATTAAGAGTTTAAATT
Found at i:131584984 original size:53 final size:53
Alignment explanation
Indices: 131584904--131585008 Score: 156
Period size: 53 Copynumber: 2.0 Consensus size: 53
131584894 GGTTACAAAT
* * *
131584904 TAAGATAATTAAGAATTTAAATTAAATTAGGATATTTAAAGTTTTAATTTATA
1 TAAGATAATTAAGAATTTAAATTAAATTAAGATAATTAAAATTTTAATTTATA
* * *
131584957 TAAGATAATTAGGAGTTTAAATTAAATTAATATAATTAAAATTTTAATTTAT
1 TAAGATAATTAAGAATTTAAATTAAATTAAGATAATTAAAATTTTAATTTAT
131585009 TTAAAAAGAG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.44
Consensus pattern (53 bp):
TAAGATAATTAAGAATTTAAATTAAATTAAGATAATTAAAATTTTAATTTATA
Found at i:131586112 original size:168 final size:167
Alignment explanation
Indices: 131585829--131586336 Score: 718
Period size: 168 Copynumber: 3.0 Consensus size: 167
131585819 CTTTGGGAAC
* * * *
131585829 TCATGTTTATGTTCCTTATCCTCATCTTGTTTTTCCTTGCACTCGGGTATTTTTGGATATTCGGC
1 TCATCTTTATGTTCCTTATCCTCATCTTG-TTTTCCTTGTACTCGGGTATTTTCGGATATTCGAC
** *
131585894 TTTATGTTTCTCATGCTCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTCTCGTACT
65 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTCTCGTACT
* *
131585959 CTTCGTGCTCTTTCGATTCGTGTAACTCGTGGCACTCT
130 CTTCGTGCTCTTTCGATTCGTGTGACTCGTGGAACTCT
* *
131585997 TCATCTTTATGTTCCTTA-CTCTTATCTTGCTTTTCCTTGTACT-GGGTTATTTCCGGATATTCG
1 TCATCTTTATGTTCCTTATC-CTCATCTTG-TTTTCCTTGTACTCGGG-TATTTTCGGATATTCG
* ** *
131586060 ACTTCGTGTTTCTCGTGCTCTTTAGGCTTTTGCTGTTTGGGGAACTCGGGTTTTTCTTTCTCGTA
63 ACTTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTCTCGTA
* *
131586125 CTCTTCGTGCTAC-TTCGATTCGCGTGATTCGTGGAACTCT
128 CTCTTCGTGCT-CTTTCGATTCGTGTGACTCGTGGAACTCT
* *
131586165 TCATTTTTATGTTCCTTATCCTCATCTTGTTTGTCCTTGTACTCGAGTATTTTCGGATATTCGAC
1 TCATCTTTATGTTCCTTATCCTCATCTTGTTT-TCCTTGTACTCGGGTATTTTCGGATATTCGAC
* * *
131586230 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTGTCTTTATTGTACT
65 TTCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTCTCGTACT
*
131586295 CTTCGTGCT-TCTTCGATTCGTGTGACTCGTGGTACTCT
130 CTTCGTGCTCT-TTCGATTCGTGTGACTCGTGGAACTCT
131586333 TCAT
1 TCAT
131586337 GTTGTTTGCA
Statistics
Matches: 300, Mismatches: 32, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
167 7 0.02
168 289 0.96
169 4 0.01
ACGTcount: A:0.12, C:0.22, G:0.19, T:0.47
Consensus pattern (167 bp):
TCATCTTTATGTTCCTTATCCTCATCTTGTTTTCCTTGTACTCGGGTATTTTCGGATATTCGACT
TCGTGTTTCTCGTGCTCTTTAGGCTTTTCCCATTTGGGGAAATCGGGTTTTTCTTTCTCGTACTC
TTCGTGCTCTTTCGATTCGTGTGACTCGTGGAACTCT
Found at i:131588048 original size:7 final size:7
Alignment explanation
Indices: 131588038--131588073 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
131588028 TTTTTTATAC
131588038 TAATAAA
1 TAATAAA
131588045 TAATAAA
1 TAATAAA
131588052 TAATGAAA
1 TAAT-AAA
*
131588060 TAATATA
1 TAATAAA
131588067 TAATAAA
1 TAATAAA
131588074 AGGAAGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (7 bp):
TAATAAA
Found at i:131588062 original size:15 final size:14
Alignment explanation
Indices: 131588038--131588073 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
131588028 TTTTTTATAC
131588038 TAATAAATAATAAA
1 TAATAAATAATAAA
*
131588052 TAATGAAATAATATA
1 TAAT-AAATAATAAA
131588067 TAATAAA
1 TAATAAA
131588074 AGGAAGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
TAATAAATAATAAA
Found at i:131588106 original size:10 final size:10
Alignment explanation
Indices: 131588091--131588163 Score: 62
Period size: 10 Copynumber: 7.2 Consensus size: 10
131588081 TAATATAGGG
131588091 AATAATATAT
1 AATAATATAT
131588101 AATAATATAT
1 AATAATATAT
* *
131588111 GAT-ATGTAAT
1 AATAATAT-AT
131588121 AA-AATATAT
1 AATAATATAT
*
131588130 AAATAAAATAT
1 -AATAATATAT
131588141 AATGAA-ATAT
1 AAT-AATATAT
131588151 AATAATATGAT
1 AATAATAT-AT
131588162 AA
1 AA
131588164 CTATCATATA
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
9 7 0.14
10 32 0.63
11 12 0.24
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.34
Consensus pattern (10 bp):
AATAATATAT
Found at i:131588373 original size:11 final size:12
Alignment explanation
Indices: 131588305--131588377 Score: 51
Period size: 12 Copynumber: 6.1 Consensus size: 12
131588295 ATAGTAAAAT
*
131588305 ATATAATGTATA
1 ATATAATGAATA
* * *
131588317 ATAAAATTTAAAA
1 ATATAA-TGAATA
* *
131588330 ATAAAATGTATA
1 ATATAATGAATA
*
131588342 ATAATAA-AAATA
1 AT-ATAATGAATA
131588354 ATATAATGAATA
1 ATATAATGAATA
131588366 ATAT-ATGAATA
1 ATATAATGAATA
131588377 A
1 A
131588378 AAAATAATAT
Statistics
Matches: 47, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
11 12 0.26
12 23 0.49
13 12 0.26
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (12 bp):
ATATAATGAATA
Found at i:131590145 original size:44 final size:43
Alignment explanation
Indices: 131590071--131590881 Score: 975
Period size: 44 Copynumber: 18.4 Consensus size: 43
131590061 CTTTCTGTAA
* * *
131590071 AGACGCCACATCTGCTATCCTTGATCTGCTCTTTGTCAATACAG
1 AGACGCCAAATCTGCTAT-CTTGATCTGCTCTCTGACAATACAG
* * * *
131590115 AGATGCAAAACCTGCTATCTCTGATCTGCTCT-TTATCAATACAG
1 AGACGCCAAATCTGCTATCT-TGATCTGCTCTCTGA-CAATACAG
* * *
131590159 AGACGCCAAATCTGCTACCTTCGATCTGCTCTCTGTCAATATAG
1 AGACGCCAAATCTGCTATCTT-GATCTGCTCTCTGACAATACAG
* * *
131590203 AGATGACAAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAG
1 AGACGCCAAATCTGCTATCTT-GATCTGCTCTCTGACAATACAG
* *
131590247 AGACGCCAAATCTACTATCTTCGATCTGCTCTCTAACAATACAG
1 AGACGCCAAATCTGCTATCTT-GATCTGCTCTCTGACAATACAG
* * * * *
131590291 AAATGCCAAATCT-ATCATCTTCAATCTACTCTCTGACAATACAG
1 AGACGCCAAATCTGCT-ATCTT-GATCTGCTCTCTGACAATACAG
* *
131590335 AGATGCCAAATCTG-TCATCTTTGATCTGCTCTCTGTCAATACAG
1 AGACGCCAAATCTGCT-ATC-TTGATCTGCTCTCTGACAATACAG
*
131590379 AGACGCCAAATCTGCTATCTTTGATTTGCTCTCTGACAATACAG
1 AGACGCCAAATCTGCTATC-TTGATCTGCTCTCTGACAATACAG
* * * *
131590423 AGACACCAAATTTGCTATATTCGATCTGCTCTCTGACAATACAA
1 AGACGCCAAATCTGCTATCTT-GATCTGCTCTCTGACAATACAG
*
131590467 AGACGCAAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAG
1 AGACGCCAAATCTGCTATCTT-GATCTGCTCTCTGACAATACAG
* * *
131590511 AGATGCTAAATCTG-TCATCTTCGATCTGCTCTCTGTCAATACAG
1 AGACGCCAAATCTGCT-ATCTT-GATCTGCTCTCTGACAATACAG
*
131590555 AGACGCCAAATCTGCTATCTTTGATCTGTTCTCTGACAATACAG
1 AGACGCCAAATCTGCTATC-TTGATCTGCTCTCTGACAATACAG
* *
131590599 AGACGCCAAATCTACTATCTTTGATCTACTCTCTGACAATACAG
1 AGACGCCAAATCTGCTATC-TTGATCTGCTCTCTGACAATACAG
*
131590643 AGACGCCAAATCTACTATCTTTGATCTGCTCTCTGACAATACAG
1 AGACGCCAAATCTGCTATC-TTGATCTGCTCTCTGACAATACAG
*
131590687 AGACGCCAAATCTG-TCATCTTCGATCTGCTCTCTGTCAATACAG
1 AGACGCCAAATCTGCT-ATCTT-GATCTGCTCTCTGACAATACAG
*
131590731 AGACGCCAAATCTGCTATCTTTGATCTGTTCTCTGACAATACAG
1 AGACGCCAAATCTGCTATC-TTGATCTGCTCTCTGACAATACAG
* *
131590775 AGACGCCAAATCTACTATCTTTGATCTACTCTCTGACAATACAG
1 AGACGCCAAATCTGCTATC-TTGATCTGCTCTCTGACAATACAG
* * * * *
131590819 AGACGCCAAATCTACTATCTTCAATTTGCTCTCTGATAATACAA
1 AGACGCCAAATCTGCTATCTT-GATCTGCTCTCTGACAATACAG
*
131590863 AGACGCCAAATCAGCTATC
1 AGACGCCAAATCTGCTATC
131590882 GGTGATCTAC
Statistics
Matches: 680, Mismatches: 70, Indels: 34
0.87 0.09 0.04
Matches are distributed among these distances:
43 13 0.02
44 657 0.97
45 10 0.01
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (43 bp):
AGACGCCAAATCTGCTATCTTGATCTGCTCTCTGACAATACAG
Found at i:131590889 original size:132 final size:132
Alignment explanation
Indices: 131590071--131590881 Score: 1074
Period size: 132 Copynumber: 6.1 Consensus size: 132
131590061 CTTTCTGTAA
* * * * * * * * *
131590071 AGACGCCACATCTGCTATCCTTGATCTGCTCTTTGTCAATACAGAGATGCAAAACCTGCTATCTC
1 AGACGCCAAATCTGCTATCTTTGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTT
* * *
131590136 TGATCTGCTCT-TTATCAATACAGAGACGCCAAATCTGCTACCTTCGATCTGCTCTCTGTCAATA
66 TGATCTGCTCTCTGA-CAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATA
*
131590200 TAG
130 CAG
* * * *
131590203 AGATGACAAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTACTATCTT
1 AGACGCCAAATCTGCTATCTTTGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTT
* * * * * * *
131590268 CGATCTGCTCTCTAACAATACAGAAATGCCAAATCT-ATCATCTTCAATCTACTCTCTGACAATA
66 TGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT-ATCTTCGATCTGCTCTCTGACAATA
131590332 CAG
130 CAG
* * *
131590335 AGATGCCAAATCTG-TCATCTTTGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATCT
1 AGACGCCAAATCTGCT-ATCTTTGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCT
* * * *
131590399 TTGATTTGCTCTCTGACAATACAGAGACACCAAATTTGCTATATTCGATCTGCTCTCTGACAATA
65 TTGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATA
*
131590464 CAA
130 CAG
* * * * *
131590467 AGACGCAAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGATGCTAAATCT-GTCATCT
1 AGACGCCAAATCTGCTATCTTTGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACT-ATCT
* * * *
131590531 TCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGCTATCTTTGATCTGTTCTCTGACAATA
65 TTGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATA
131590596 CAG
130 CAG
* *
131590599 AGACGCCAAATCTACTATCTTTGATCTACTCTCTGACAATACAGAGACGCCAAATCTACTATCTT
1 AGACGCCAAATCTGCTATCTTTGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTT
*
131590664 TGATCTGCTCTCTGACAATACAGAGACGCCAAATCTG-TCATCTTCGATCTGCTCTCTGTCAATA
66 TGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCT-ATCTTCGATCTGCTCTCTGACAATA
131590728 CAG
130 CAG
*
131590731 AGACGCCAAATCTGCTATCTTTGATCTGTTCTCTGACAATACAGAGACGCCAAATCTACTATCTT
1 AGACGCCAAATCTGCTATCTTTGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTT
* * * * *
131590796 TGATCTACTCTCTGACAATACAGAGACGCCAAATCTACTATCTTCAATTTGCTCTCTGATAATAC
66 TGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATAC
*
131590861 AA
131 AG
*
131590863 AGACGCCAAATCAGCTATC
1 AGACGCCAAATCTGCTATC
131590882 GGTGATCTAC
Statistics
Matches: 595, Mismatches: 75, Indels: 18
0.86 0.11 0.03
Matches are distributed among these distances:
131 4 0.01
132 585 0.98
133 6 0.01
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (132 bp):
AGACGCCAAATCTGCTATCTTTGATCTGCTCTCTGACAATACAGAGACGCCAAATCTACTATCTT
TGATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATAC
AG
Found at i:131596350 original size:29 final size:28
Alignment explanation
Indices: 131596267--131596350 Score: 114
Period size: 28 Copynumber: 3.0 Consensus size: 28
131596257 AACACACCGG
* * *
131596267 TATAATCCTTCAAAACACACCAGCATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
131596295 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
*
131596323 TATAATCCATCCAAAACACACCAAAATA
1 TATAATCC-TCCAAAACACACCAGAATA
131596351 GCACAAAGTG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 32 0.65
29 17 0.35
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:131601910 original size:30 final size:30
Alignment explanation
Indices: 131601874--131601933 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
131601864 TATAAAGGTG
131601874 GTTTTATCCATGTCCCCAAGATGCATCTTT
1 GTTTTATCCATGTCCCCAAGATGCATCTTT
* *
131601904 GTTTTATCCATGTCCTCAGGATGCATCTTT
1 GTTTTATCCATGTCCCCAAGATGCATCTTT
131601934 ATTTGATTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.18, C:0.25, G:0.15, T:0.42
Consensus pattern (30 bp):
GTTTTATCCATGTCCCCAAGATGCATCTTT
Found at i:131605954 original size:26 final size:26
Alignment explanation
Indices: 131605917--131606000 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
131605907 TGATACAAAT
* *
131605917 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
131605943 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
131605969 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
131605995 TGATAA
1 TGATAA
131606001 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:131607506 original size:26 final size:26
Alignment explanation
Indices: 131607477--131607529 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
131607467 TTTACAGTTT
131607477 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
131607503 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
131607529 T
1 T
131607530 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:131611710 original size:25 final size:26
Alignment explanation
Indices: 131611642--131611724 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
131611632 TGATACAAAT
* *
131611642 TGATAATAGGTTAGGTAAATATTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
131611668 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
131611694 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
131611719 TGATAA
1 TGATAA
131611725 GAATTTCATG
Statistics
Matches: 54, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
25 24 0.44
26 30 0.56
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:131613239 original size:25 final size:25
Alignment explanation
Indices: 131613191--131613239 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
131613181 ACAGTTTTAC
131613191 CCCTAGGAGATAAATTACCGAAATA
1 CCCTAGGAGATAAATTACCGAAATA
* *
131613216 CCCTAGG-GTTAAATTGACCTAAAT
1 CCCTAGGAGATAAATT-ACCGAAAT
131613240 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
CCCTAGGAGATAAATTACCGAAATA
Found at i:131614893 original size:12 final size:12
Alignment explanation
Indices: 131614876--131614900 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
131614866 GATTTTTGCT
131614876 AATTGCTCCTGC
1 AATTGCTCCTGC
131614888 AATTGCTCCTGC
1 AATTGCTCCTGC
131614900 A
1 A
131614901 TTTTTTCTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.20, C:0.32, G:0.16, T:0.32
Consensus pattern (12 bp):
AATTGCTCCTGC
Found at i:131618696 original size:19 final size:19
Alignment explanation
Indices: 131618672--131618757 Score: 142
Period size: 19 Copynumber: 4.7 Consensus size: 19
131618662 AATCTTTAAG
131618672 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
131618691 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
131618710 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
131618727 GATATACAATCTT-GATAT
1 GATATGCAATCTTAGATAT
131618745 GATATGCAATCTT
1 GATATGCAATCTT
131618758 GAAGATAAGA
Statistics
Matches: 64, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
17 17 0.27
18 17 0.27
19 30 0.47
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:131618702 original size:36 final size:35
Alignment explanation
Indices: 131618662--131618757 Score: 106
Period size: 36 Copynumber: 2.6 Consensus size: 35
131618652 ATGGAAATAT
*
131618662 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATGATATAC
131618698 AATC-TT-AGATATGATACAATCTTAGATATGATATAC
1 AATCTTTAAGATATG---CAATCTTAGATATGATATAC
*
131618734 AATCTTGATATGATATGCAATCTT
1 AATCTT--TAAGATATGCAATCTT
131618758 GAAGATAAGA
Statistics
Matches: 51, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
33 6 0.12
34 1 0.02
35 2 0.04
36 27 0.53
37 8 0.16
39 1 0.02
40 6 0.12
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.38
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATGATATAC
Found at i:131621885 original size:13 final size:13
Alignment explanation
Indices: 131621867--131621893 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
131621857 ATATATGGTT
131621867 AATAGAAATAAAA
1 AATAGAAATAAAA
131621880 AATAGAAATAAAA
1 AATAGAAATAAAA
131621893 A
1 A
131621894 TATACACGAT
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:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (13 bp):
AATAGAAATAAAA
Found at i:131625160 original size:83 final size:83
Alignment explanation
Indices: 131625041--131625198 Score: 262
Period size: 83 Copynumber: 1.9 Consensus size: 83
131625031 TTTGAATTCA
** * * *
131625041 TTTGAGAATGTTTGAGAGTTATATCTGCCATATCCTCGATTTGTCCTTTGTAAGCACAAGGATGC
1 TTTGAGAACATTTGAGAGTTATATCTGCAATATCCTCGATTTGTCCCTTGCAAGCACAAGGATGC
131625106 CAAACCATCTAGAGTTTG
66 CAAACCATCTAGAGTTTG
*
131625124 TTTGAGAACATTTGAGAGTTATATCTGCAATGTCCTCGATTTGTCCCTTGCAAGCACAAGGATGC
1 TTTGAGAACATTTGAGAGTTATATCTGCAATATCCTCGATTTGTCCCTTGCAAGCACAAGGATGC
131625189 CAAACCATCT
66 CAAACCATCT
131625199 TAGATCTGCT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
83 69 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (83 bp):
TTTGAGAACATTTGAGAGTTATATCTGCAATATCCTCGATTTGTCCCTTGCAAGCACAAGGATGC
CAAACCATCTAGAGTTTG
Found at i:131625533 original size:111 final size:111
Alignment explanation
Indices: 131625339--131625887 Score: 1010
Period size: 111 Copynumber: 4.9 Consensus size: 111
131625329 CAGTATAAAC
* * *
131625339 ATCTGAAGGT-TAGATCTGCCGCCTTTGAGGACATCTGAGAGTCAAATCTGCTATGTCCTCGATT
1 ATCTGAA-GTCTAGATCTGCTGCCTTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATT
*
131625403 TGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTACTTCA
65 TGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGCTTCA
131625450 ATCTGAAGTCTAGATCTGCTGCCTTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTT
1 ATCTGAAGTCTAGATCTGCTGCCTTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTT
131625515 GTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGCTTCA
66 GTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGCTTCA
131625561 ATCTGAAGTCTAGATCTGCTGCCTTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTT
1 ATCTGAAGTCTAGATCTGCTGCCTTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTT
131625626 GTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGCTTCA
66 GTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGCTTCA
*
131625672 ATCTGAAGTCTAGATCTGCTGCCTTTGAGAACGTTTGAGAGTCAAATCTGCTATGTCCTCGATTT
1 ATCTGAAGTCTAGATCTGCTGCCTTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTT
* *
131625737 GTTCCTTGTCAGCACAAGGATGCCAAATCATCTTGGATCTGTTTCA
66 GTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGCTTCA
*
131625783 ATCTGAAGTCTAGATCTGCTGCCTTTGAGAACGTCTGAGAGTTAAATCTGCTATGTCCTCGATTT
1 ATCTGAAGTCTAGATCTGCTGCCTTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTT
131625848 GTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCT
66 GTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCT
131625888 ATTTGAGAAC
Statistics
Matches: 427, Mismatches: 10, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
110 2 0.00
111 425 1.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (111 bp):
ATCTGAAGTCTAGATCTGCTGCCTTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTT
GTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGCTTCA
Found at i:131625657 original size:222 final size:222
Alignment explanation
Indices: 131625124--131625888 Score: 1120
Period size: 222 Copynumber: 3.4 Consensus size: 222
131625114 CTAGAGTTTG
* * * * * *
131625124 TTTGAGAACATTTGAGAGTTATATCTGCAATGTCCTCGATTTGTCCCTTGCAAGCACAAGGATGC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
* * * ***
131625189 CAAACCATCTTAGATCTGCTTCAGTATAAACATCTGAAGGT-TAGATCTGCTATATTTGAGAACG
66 CAAATCATCTTGGATCTACTTC-------A-ATCTGAA-GTCTAGATCTGCTGCCTTTGAGAACG
* * * * *
131625253 TCTGAGAGTCAAATCTACTATGCCCTCGATTTGTTTCTTGTAAACACAAGAATGCCAAATCATCT
122 TCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCT
*
131625318 TGGATCTGCTTCAGTATAAACATCTGAAGGT-TAGATCTGCCGCC
187 TGGATCTGCTTC-------A-ATCTGAA-GTCTAGATCTGCTGCC
*
131625362 TTTGAGGACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
131625427 CAAATCATCTTGGATCTACTTCAATCTGAAGTCTAGATCTGCTGCCTTTGAGAACGTCTGAGAGT
66 CAAATCATCTTGGATCTACTTCAATCTGAAGTCTAGATCTGCTGCCTTTGAGAACGTCTGAGAGT
131625492 CAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGC
131 CAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGC
131625557 TTCAATCTGAAGTCTAGATCTGCTGCC
196 TTCAATCTGAAGTCTAGATCTGCTGCC
*
131625584 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
* *
131625649 CAAATCATCTTGGATCTGCTTCAATCTGAAGTCTAGATCTGCTGCCTTTGAGAACGTTTGAGAGT
66 CAAATCATCTTGGATCTACTTCAATCTGAAGTCTAGATCTGCTGCCTTTGAGAACGTCTGAGAGT
* *
131625714 CAAATCTGCTATGTCCTCGATTTGTTCCTTGTCAGCACAAGGATGCCAAATCATCTTGGATCTGT
131 CAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGC
131625779 TTCAATCTGAAGTCTAGATCTGCTGCC
196 TTCAATCTGAAGTCTAGATCTGCTGCC
* *
131625806 TTTGAGAACGTCTGAGAGTTAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
131625871 CAAATCATCTTGGATCTA
66 CAAATCATCTTGGATCTA
131625889 TTTGAGAACA
Statistics
Matches: 498, Mismatches: 27, Indels: 20
0.91 0.05 0.04
Matches are distributed among these distances:
221 2 0.00
222 316 0.63
223 1 0.00
229 2 0.00
230 99 0.20
231 1 0.00
238 77 0.15
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (222 bp):
TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
CAAATCATCTTGGATCTACTTCAATCTGAAGTCTAGATCTGCTGCCTTTGAGAACGTCTGAGAGT
CAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTGC
TTCAATCTGAAGTCTAGATCTGCTGCC
Found at i:131625834 original size:333 final size:337
Alignment explanation
Indices: 131625124--131625887 Score: 1144
Period size: 333 Copynumber: 2.2 Consensus size: 337
131625114 CTAGAGTTTG
* * * * * *
131625124 TTTGAGAACATTTGAGAGTTATATCTGCAATGTCCTCGATTTGTCCCTTGCAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTTAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
* * *
131625189 CAAACCATCTTAGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATATTTGAGAACGT
66 CAAATCATCTTGGATCTGCTTC------AACATCTGAAGGTTAGATCTGCTACATTTGAGAACGT
*
131625254 CTGAGAGTCAAATCTACTATGCCCTCGATTTGTTTCTTGTAAACACAAGAATGCCAAATCATCTT
125 CTGAGAGTCAAATCTACTATGCCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTT
*
131625319 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCCGCCTTTGAGGACATCTGAGAGTCAA
190 GGATCTGCTTC------AACATCTGAAGGTTAGATCTGCCGCCTTTGAGAACATCTGAGAGTCAA
131625384 ATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTACTTC
249 ATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTACTTC
131625449 AATCTGAAGTCTAGATCTGCTGCC
314 AATCTGAAGTCTAGATCTGCTGCC
*
131625473 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTTAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
* *
131625538 CAAATCATCTTGGATCTGCTTC-A-ATCTGAA-GTCTAGATCTGCTGCCTTTGAGAACGTCTGAG
66 CAAATCATCTTGGATCTGCTTCAACATCTGAAGGT-TAGATCTGCTACATTTGAGAACGTCTGAG
* * * *
131625600 AGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATC
130 AGTCAAATCTACTATGCCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATC
* * *
131625665 TGCTTC-A-ATCTGAA-GTCTAGATCTGCTGCCTTTGAGAACGTTTGAGAGTCAAATCTGCTATG
195 TGCTTCAACATCTGAAGGT-TAGATCTGCCGCCTTTGAGAACATCTGAGAGTCAAATCTGCTATG
* **
131625727 TCCTCGATTTGTTCCTTGTCAGCACAAGGATGCCAAATCATCTTGGATCTGTTTCAATCTGAAGT
259 TCCTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTACTTCAATCTGAAGT
131625792 CTAGATCTGCTGCC
324 CTAGATCTGCTGCC
131625806 TTTGAGAACGTCTGAGAGTTAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTTAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
131625871 CAAATCATCTTGGATCT
66 CAAATCATCTTGGATCT
131625888 ATTTGAGAAC
Statistics
Matches: 388, Mismatches: 25, Indels: 20
0.90 0.06 0.05
Matches are distributed among these distances:
332 2 0.01
333 205 0.53
334 1 0.00
340 2 0.01
341 99 0.26
342 1 0.00
349 78 0.20
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.33
Consensus pattern (337 bp):
TTTGAGAACGTCTGAGAGTTAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
CAAATCATCTTGGATCTGCTTCAACATCTGAAGGTTAGATCTGCTACATTTGAGAACGTCTGAGA
GTCAAATCTACTATGCCCTCGATTTGTTCCTTGTAAACACAAGAATGCCAAATCATCTTGGATCT
GCTTCAACATCTGAAGGTTAGATCTGCCGCCTTTGAGAACATCTGAGAGTCAAATCTGCTATGTC
CTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAATCATCTTGGATCTACTTCAATCTGAAGTCT
AGATCTGCTGCC
Found at i:131638085 original size:18 final size:18
Alignment explanation
Indices: 131638048--131638091 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
131638038 TTCAAATTAC
131638048 TATTTTTTTATATTAATAA
1 TATTTTTTTATATT-ATAA
*
131638067 TGTTTTATTTATATT-TAA
1 TATTTT-TTTATATTATAA
131638085 TATTTTT
1 TATTTTT
131638092 AAATTTCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 1 0.05
18 8 0.36
19 5 0.23
20 8 0.36
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (18 bp):
TATTTTTTTATATTATAA
Found at i:131638241 original size:368 final size:372
Alignment explanation
Indices: 131637425--131638292 Score: 1692
Period size: 368 Copynumber: 2.3 Consensus size: 372
131637415 AAACATAANA
131637425 AAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCA
1 AAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCA
131637490 AGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAA
66 AGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAA
131637555 GACTTGAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCA
131 GACTTGAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCA
131637620 ATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTT
196 ATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTT
131637685 TATATTAATAATGTTTTATTTTAATATTTAATATTTTTTAAATTTCTTTAAAAGTTATACTACTT
261 TATATTAATAATGTTTTATTTTAATATTTAATATTTTTTAAATTTCTTTAAAAGTTATACTACTT
131637750 TTTATCAAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTT
326 TTTATCAAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTT
131637797 AAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCA
1 AAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCA
131637862 AGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAA
66 AGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAA
131637927 -ACTTGAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCA
131 GACTTGAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCA
131637991 ATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTT
196 ATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTT
131638056 TATATTAATAATGTTTTA-TTT-ATATTTAATA-TTTTTAAATTTCTTTAAAA-TTATAACTACT
261 TATATTAATAATGTTTTATTTTAATATTTAATATTTTTTAAATTTCTTTAAAAGTTAT-ACTACT
131638117 TTTTATCAAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTT
325 TTTTATCAAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTT
131638165 AAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCA
1 AAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCA
131638230 AGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAA
66 AGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAA
131638293 TGTTTCAATT
Statistics
Matches: 495, Mismatches: 0, Indels: 6
0.99 0.00 0.01
Matches are distributed among these distances:
367 4 0.01
368 201 0.41
369 10 0.02
370 3 0.01
371 147 0.30
372 130 0.26
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.39
Consensus pattern (372 bp):
AAATATTTTAAAGATTCAAAGTATATAGGCTGGAAACCTGACGGGTTGCCTTATATCGAGCTGCA
AGATATAATGGATCCTCCCTAGGTGTAACAACGCCACGTATGATGAATCTTAAAAAATTCAAAAA
GACTTGAAAAAGTTCTATCGAGCTCATTTACTATTGAATATTTATATAACCTTAATTTATTTCCA
ATTTACTTATAAAAATTAAACTACGATTCTTTTTTGATATTATTATATTCAAATTACTATTTTTT
TATATTAATAATGTTTTATTTTAATATTTAATATTTTTTAAATTTCTTTAAAAGTTATACTACTT
TTTATCAAAATTACAACAATAGCTGACCTTCTCTCCAACCTTATTTT
Found at i:131638407 original size:24 final size:24
Alignment explanation
Indices: 131638380--131638447 Score: 102
Period size: 24 Copynumber: 2.8 Consensus size: 24
131638370 ATTATTATTG
*
131638380 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
*
131638404 AAATATTATTC-TCCGTTTTATTAC
1 AAATATTA-TCGTCCGTTTTATCAC
131638428 AAATATTATCGTCCGTTTTA
1 AAATATTATCGTCCGTTTTA
131638448 CCATTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.05
24 36 0.90
25 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.07, T:0.46
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:131638668 original size:15 final size:15
Alignment explanation
Indices: 131638624--131638678 Score: 78
Period size: 15 Copynumber: 3.8 Consensus size: 15
131638614 AACGACATGT
131638624 ATATTATTTAATTAA
1 ATATTATTTAATTAA
* *
131638639 A-ATAATTT-TTTAA
1 ATATTATTTAATTAA
131638652 ATATTATTTAATTAA
1 ATATTATTTAATTAA
131638667 ATATTATTTAAT
1 ATATTATTTAAT
131638679 CCCGCTACTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
13 5 0.15
14 12 0.35
15 17 0.50
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:131638805 original size:9 final size:9
Alignment explanation
Indices: 131638793--131639025 Score: 127
Period size: 9 Copynumber: 25.4 Consensus size: 9
131638783 CATAATTTAC
131638793 ATAACTTAT
1 ATAACTTAT
*
131638802 ATAACATAT
1 ATAACTTAT
*
131638811 ATAACTTAC
1 ATAACTTAT
131638820 AT-A--TACT
1 ATAACTTA-T
131638827 ATAACTTAT
1 ATAACTTAT
* *
131638836 ATAACATAC
1 ATAACTTAT
131638845 ATAACTTAT
1 ATAACTTAT
131638854 ATAACTTAT
1 ATAACTTAT
131638863 ATATACTTAT
1 ATA-ACTTAT
*
131638873 ATAACTTAG
1 ATAACTTAT
*
131638882 ATAA-ATAT
1 ATAACTTAT
*
131638890 ATAACTTAC
1 ATAACTTAT
*
131638899 ATAACTTAC
1 ATAACTTAT
131638908 ATAATACTTAAAT
1 AT-A-ACTT--AT
**
131638921 ATATTTTATAT
1 ATA-ACT-TAT
* *
131638932 CATAATTTAC
1 -ATAACTTAT
*
131638942 ATAACTTAC
1 ATAACTTAT
131638951 ATAACTTAT
1 ATAACTTAT
*
131638960 ATAACTTAG
1 ATAACTTAT
*
131638969 ATAA-ATAT
1 ATAACTTAT
* *
131638977 ATAATTTAC
1 ATAACTTAT
*
131638986 ATAA-ATAT
1 ATAACTTAT
* *
131638994 ATATCATAT
1 ATAACTTAT
* *
131639003 CATAAATTAC
1 -ATAACTTAT
*
131639013 ATAACTTAC
1 ATAACTTAT
131639022 ATAA
1 ATAA
131639026 TACTTAAATA
Statistics
Matches: 176, Mismatches: 33, Indels: 30
0.74 0.14 0.13
Matches are distributed among these distances:
6 2 0.01
7 2 0.01
8 19 0.11
9 116 0.66
10 19 0.11
11 8 0.05
12 6 0.03
13 4 0.02
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (9 bp):
ATAACTTAT
Found at i:131638836 original size:25 final size:25
Alignment explanation
Indices: 131638779--131638906 Score: 116
Period size: 27 Copynumber: 4.8 Consensus size: 25
131638769 AATATATTTG
*
131638779 ATATCATAATTTACATAACTTATATAAC
1 ATAT-ATAACTTACATAAC-T-TATAAC
131638807 ATATATAACTTACATATAC-TATAAC
1 ATATATAACTTACATA-ACTTATAAC
* *
131638832 TTATATAACATACATAACTTATATAAC
1 ATATATAACTTACATAAC-T-TATAAC
* *
131638859 TTATATATACTTATATAACTTAGATAA-
1 ATATATA-ACTTACATAACTT--ATAAC
131638886 ATATATAACTTACATAACTTA
1 ATATATAACTTACATAACTTA
131638907 CATAATACTT
Statistics
Matches: 86, Mismatches: 7, Indels: 18
0.77 0.06 0.16
Matches are distributed among these distances:
24 3 0.03
25 20 0.23
26 13 0.15
27 31 0.36
28 19 0.22
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (25 bp):
ATATATAACTTACATAACTTATAAC
Found at i:131638840 original size:43 final size:42
Alignment explanation
Indices: 131638779--131638901 Score: 132
Period size: 43 Copynumber: 3.0 Consensus size: 42
131638769 AATATATTTG
* * *
131638779 ATATCATAATTTACATAACTTATATAACATATATAACTTACAT
1 ATAT-ATAACTTATATAACTTACATAACATATATAACTTACAT
* *
131638822 ATACTATAACTTATATAACATACATAACTTATATAAC-T---T
1 ATA-TATAACTTATATAACTTACATAACATATATAACTTACAT
*
131638861 ATATAT-ACTTATATAACTTAGATAA-ATATATAACTTACAT
1 ATATATAACTTATATAACTTACATAACATATATAACTTACAT
131638901 A
1 A
131638902 ACTTACATAA
Statistics
Matches: 67, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
36 8 0.12
37 18 0.27
38 3 0.04
39 4 0.06
40 2 0.03
42 1 0.01
43 30 0.45
44 1 0.01
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (42 bp):
ATATATAACTTATATAACTTACATAACATATATAACTTACAT
Found at i:131638946 original size:106 final size:105
Alignment explanation
Indices: 131638827--131639016 Score: 265
Period size: 106 Copynumber: 1.8 Consensus size: 105
131638817 TACATATACT
* * * *
131638827 ATAACTTATATAACATACATAACTTATATAACTTATATATACTTATATAACTTAGATAAATATAT
1 ATAACTTACATAACATACATAACTTATATAACTTAGATA-A-ATATATAACTTACATAAATATAT
* *
131638892 AACTTA-CATAACTTACATAATACTTAAATATATTTTATATC
64 AACATATCATAAATTACATAATACTTAAATATATTTTATATC
* * * *
131638933 ATAATTTACATAACTTACATAACTTATATAACTTAGATAAATATATAATTTACATAAATATATAT
1 ATAACTTACATAACATACATAACTTATATAACTTAGATAAATATATAACTTACATAAATATATAA
131638998 CATATCATAAATTACATAA
66 CATATCATAAATTACATAA
131639017 CTTACATAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
104 24 0.33
105 14 0.19
106 35 0.48
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (105 bp):
ATAACTTACATAACATACATAACTTATATAACTTAGATAAATATATAACTTACATAAATATATAA
CATATCATAAATTACATAATACTTAAATATATTTTATATC
Found at i:131639003 original size:71 final size:69
Alignment explanation
Indices: 131638873--131639025 Score: 191
Period size: 71 Copynumber: 2.2 Consensus size: 69
131638863 ATATACTTAT
* * * * * *
131638873 ATAACTTAGATAAATATATAACTTACATAACTTACATAATACTTAAATATATTTTATATCATAAT
1 ATAACTTACATAAATATATAACTTACATAACATACATAATACATAAATATATATCATATCATAAA
131638938 TTAC
66 TTAC
* * *
131638942 ATAACTTACATAACTTATATAACTTAGATAA-ATATATAATTTACATAAATATATATCATATCAT
1 ATAACTTACATAA-ATATATAACTTACATAACATACATAA--TACATAAATATATATCATATCAT
131639006 AAATTAC
63 AAATTAC
131639013 ATAACTTACATAA
1 ATAACTTACATAA
131639026 TACTTAAATA
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
69 18 0.25
70 15 0.21
71 39 0.54
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (69 bp):
ATAACTTACATAAATATATAACTTACATAACATACATAATACATAAATATATATCATATCATAAA
TTAC
Found at i:131639040 original size:149 final size:149
Alignment explanation
Indices: 131638752--131639025 Score: 383
Period size: 149 Copynumber: 1.8 Consensus size: 149
131638742 TGAAATAAAA
*
131638752 AACTTACATAATACATAAATATATTTGATATCATAATTTACATAACTTATATAACATATATAACT
1 AACTTACATAATACATAAATATATTTGATATCATAATTTACATAACTTACATAACATATATAACT
* * * * *
131638817 TACATATACTATAACTTATATAACATACATAACTTATATAACTTATATATACTTATATAACTTAG
66 TACATATACTATAACTTACATAACATACATAACATATATAAATTACATATACTTACATAACTTAG
131638882 ATAAATATATAACTTACAT
131 ATAAATATATAACTTACAT
* * *
131638901 AACTTACATAATACTTAAATATATTTTATATCATAATTTACATAACTTACATAACTTATATAACT
1 AACTTACATAATACATAAATATATTTGATATCATAATTTACATAACTTACATAACATATATAACT
* * * *
131638966 TAGATAAATA-TATAATTTACATAA-ATATATATCATATCATAAATTACATA-ACTTACATAA
66 TACAT--ATACTATAACTTACATAACATACATAACATAT-ATAAATTACATATACTTACATAA
131639026 TACTTAAATA
Statistics
Matches: 109, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
149 84 0.77
150 22 0.20
151 3 0.03
ACGTcount: A:0.47, C:0.12, G:0.01, T:0.39
Consensus pattern (149 bp):
AACTTACATAATACATAAATATATTTGATATCATAATTTACATAACTTACATAACATATATAACT
TACATATACTATAACTTACATAACATACATAACATATATAAATTACATATACTTACATAACTTAG
ATAAATATATAACTTACAT
Found at i:131639073 original size:43 final size:43
Alignment explanation
Indices: 131638979--131639075 Score: 108
Period size: 43 Copynumber: 2.3 Consensus size: 43
131638969 ATAAATATAT
* *
131638979 AATTTACATAAATATATATCATATCATAAATTACATAACTTAC
1 AATTTACTTAAATATATATCATATCATAAATAACATAACTTAC
* * **
131639022 -ATAATACTTAAATATATATCATATCATACATAAC-TAGTTTAC
1 AAT-TTACTTAAATATATATCATATCATAAATAACATAACTTAC
131639064 GAATTTACTTAA
1 -AATTTACTTAA
131639076 CTTACATAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
42 8 0.18
43 34 0.77
44 2 0.05
ACGTcount: A:0.46, C:0.13, G:0.02, T:0.38
Consensus pattern (43 bp):
AATTTACTTAAATATATATCATATCATAAATAACATAACTTAC
Found at i:131645485 original size:43 final size:43
Alignment explanation
Indices: 131645115--131645473 Score: 558
Period size: 43 Copynumber: 8.3 Consensus size: 43
131645105 GTAAAAAAAG
* *
131645115 CGCCGCTAAAAGCCCTGACCTTTAGAGGCGCTTTTCGCACAAA
1 CGCCGCTAAAAGCCCTGACCTTTAGCGGCGCTTTTCCCACAAA
*
131645158 CGCCGCTAAAAGCCCTGACCTCTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCCTGACCTTTAGCGGCGCTTTTCCCACAAA
*
131645201 CGTCGCTAAAAAGCCCTGACCTTTAGCGGCGCTTTT-CCACAAA
1 CGCCGCT-AAAAGCCCTGACCTTTAGCGGCGCTTTTCCCACAAA
*
131645244 CGCCGCTAAAAAGCCCTGACCTTTACCGGCGCTTTTCCCACAAA
1 CGCCGCT-AAAAGCCCTGACCTTTAGCGGCGCTTTTCCCACAAA
* *
131645288 CGCCGCTAAAAGCCCTGGCCTTTAGCGGCGCTTTTCACACAAA
1 CGCCGCTAAAAGCCCTGACCTTTAGCGGCGCTTTTCCCACAAA
* *
131645331 TGCCGCTAAAAGCCCTGACATTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCCTGACCTTTAGCGGCGCTTTTCCCACAAA
131645374 CGCCGCTAAAAGCCCTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCCTGACCTTTAGCGGCGCTTTTCCCACAAA
* * ** * *
131645417 CGCCGCTAAAGGTCAAGGCCTTTAGCGGCGCTTTTCACACAAA
1 CGCCGCTAAAAGCCCTGACCTTTAGCGGCGCTTTTCCCACAAA
131645460 CGCCGCTAAAAGCC
1 CGCCGCTAAAAGCC
131645474 AAGGCCTTTA
Statistics
Matches: 290, Mismatches: 24, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
43 249 0.86
44 41 0.14
ACGTcount: A:0.25, C:0.35, G:0.19, T:0.21
Consensus pattern (43 bp):
CGCCGCTAAAAGCCCTGACCTTTAGCGGCGCTTTTCCCACAAA
Found at i:131645678 original size:15 final size:17
Alignment explanation
Indices: 131645647--131645686 Score: 57
Period size: 15 Copynumber: 2.4 Consensus size: 17
131645637 TTCACATGTT
131645647 TTTAATTGTTCTTGAAA
1 TTTAATTGTTCTTGAAA
131645664 TTTAATT-TT-TTGAAA
1 TTTAATTGTTCTTGAAA
131645679 TTTCAATT
1 TTT-AATT
131645687 ATTATTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.41
16 6 0.27
17 7 0.32
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.57
Consensus pattern (17 bp):
TTTAATTGTTCTTGAAA
Found at i:131648291 original size:19 final size:19
Alignment explanation
Indices: 131648267--131648310 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
131648257 TGTTTTTCAA
* *
131648267 TTTTTAAGGGTCCAATTTT
1 TTTTTAAGGATCCAAATTT
*
131648286 TTTTTAAGGATCGAAATTT
1 TTTTTAAGGATCCAAATTT
131648305 TTTTTA
1 TTTTTA
131648311 CTAACTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.25, C:0.07, G:0.14, T:0.55
Consensus pattern (19 bp):
TTTTTAAGGATCCAAATTT
Found at i:131649224 original size:29 final size:27
Alignment explanation
Indices: 131649163--131649226 Score: 74
Period size: 29 Copynumber: 2.3 Consensus size: 27
131649153 ATTAAGCCCC
*
131649163 CCAAAAAAAACCTAACCCAAAAAAAAA
1 CCAAGAAAAACCTAACCCAAAAAAAAA
** *
131649190 AAAAGAAAAACCTAACCCCCCAAAAAAAA
1 CCAAGAAAAACCTAA--CCCAAAAAAAAA
131649219 CCAAGAAA
1 CCAAGAAA
131649227 CCCTAGCCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
27 12 0.41
29 17 0.59
ACGTcount: A:0.67, C:0.27, G:0.03, T:0.03
Consensus pattern (27 bp):
CCAAGAAAAACCTAACCCAAAAAAAAA
Found at i:131650043 original size:3 final size:3
Alignment explanation
Indices: 131650001--131650026 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
131649991 TTATTGTAGA
131650001 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
131650027 CTACATACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:131652871 original size:136 final size:136
Alignment explanation
Indices: 131652627--131652911 Score: 543
Period size: 136 Copynumber: 2.1 Consensus size: 136
131652617 CATTGGGCCT
** *
131652627 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
131652692 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
131652757 ATATGC
131 ATATGC
131652763 AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
131652828 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
131652893 ATATGC
131 ATATGC
131652899 AAGCCCATTTGGG
1 AAGCCCATTTGGG
131652912 GAGACTACTC
Statistics
Matches: 146, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
136 146 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:131653196 original size:25 final size:27
Alignment explanation
Indices: 131653159--131653211 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
131653149 TCAAACATGC
131653159 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
131653185 ATTTTGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
131653211 A
1 A
131653212 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.40
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:131654725 original size:26 final size:26
Alignment explanation
Indices: 131654689--131654798 Score: 170
Period size: 26 Copynumber: 4.2 Consensus size: 26
131654679 CATGAAATTC
131654689 TTATCATGAAACATTTACCTAACAC-A
1 TTATCATGAAACATTTACCTAAC-CTA
*
131654715 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
131654741 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
131654767 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCTA
131654793 TTATCA
1 TTATCA
131654799 ATTTGTACCA
Statistics
Matches: 80, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
25 1 0.01
26 77 0.96
27 2 0.03
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:131657653 original size:14 final size:13
Alignment explanation
Indices: 131657636--131657735 Score: 53
Period size: 15 Copynumber: 7.0 Consensus size: 13
131657626 TATTCTAATA
131657636 CTATTATTATTTAT
1 CTATTATTATTT-T
131657650 CTATT-TATATTTCT
1 CTATTAT-TATTT-T
131657664 ACTATTATTATATTT
1 -CTATTATTAT-TTT
131657679 CTATTTATTATATTT
1 CTA-TTATTAT-TTT
*
131657694 TTATT-TCTATTTATAT
1 CTATTAT-TA-TT-T-T
*
131657710 ACTAATATTATTTT
1 -CTATTATTATTTT
131657724 C-ATTATTATTTT
1 CTATTATTATTTT
131657736 TCTTATATAT
Statistics
Matches: 70, Mismatches: 5, Indels: 24
0.71 0.05 0.24
Matches are distributed among these distances:
12 10 0.14
13 3 0.04
14 20 0.29
15 25 0.36
16 6 0.09
17 5 0.07
18 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (13 bp):
CTATTATTATTTT
Found at i:131657657 original size:29 final size:28
Alignment explanation
Indices: 131657625--131657687 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
131657615 ATTTATTTTG
131657625 TTATTCTAATACTATTATTAT-TTATCTAT
1 TTATT-TAATACTATTATTATATT-TCTAT
**
131657654 TTATATTTCTACTATTATTATATTTCTAT
1 TTAT-TTAATACTATTATTATATTTCTAT
131657683 TTATT
1 TTATT
131657688 ATATTTTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
28 1 0.03
29 26 0.87
30 3 0.10
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.62
Consensus pattern (28 bp):
TTATTTAATACTATTATTATATTTCTAT
Found at i:131657686 original size:15 final size:15
Alignment explanation
Indices: 131657654--131657699 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
131657644 ATTTATCTAT
131657654 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
131657671 TTATATTTCTATTTA
1 TTATATTTCTATTTA
*
131657686 TTATATTTTTATTT
1 TTATATTTCTATTT
131657700 CTATTTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:131657692 original size:23 final size:23
Alignment explanation
Indices: 131657666--131657732 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
131657656 ATATTTCTAC
131657666 TATTATTATATTTCTATTTATTA
1 TATTATTATATTTCTATTTATTA
131657689 TATT-TT-TATTTCTATTTATATA
1 TATTATTATATTTCTATTTAT-TA
*
131657711 CTAATATTAT-TTTC-A-TTATTA
1 -TATTATTATATTTCTATTTATTA
131657732 T
1 T
131657733 TTTTCTTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 8 0.21
23 8 0.21
24 6 0.15
25 1 0.03
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (23 bp):
TATTATTATATTTCTATTTATTA
Found at i:131658934 original size:35 final size:35
Alignment explanation
Indices: 131658854--131659072 Score: 377
Period size: 35 Copynumber: 6.3 Consensus size: 35
131658844 GGTTTCGACA
*
131658854 GTAGGTATGGTATCATCCATACCGAGTTATGAAA-
1 GTAGGTATGGTATCATCCATACCGAGTTGTGAAAC
131658888 GTAGGTATGGTATCATCCATACCGAGTTGTGAAAC
1 GTAGGTATGGTATCATCCATACCGAGTTGTGAAAC
131658923 GTAGGTATGGTATCATCCATACCGAGTTGTGAAAC
1 GTAGGTATGGTATCATCCATACCGAGTTGTGAAAC
131658958 GTAGGTATGGTATCATCCATACCGAGTTGTGAAAC
1 GTAGGTATGGTATCATCCATACCGAGTTGTGAAAC
* * * *
131658993 GTAGGTATGGTATTAACCACATCGAGTTGTGAAAC
1 GTAGGTATGGTATCATCCATACCGAGTTGTGAAAC
*
131659028 GTAGGTATGGTATCATCCATACCGAGTTGTGGAAC
1 GTAGGTATGGTATCATCCATACCGAGTTGTGAAAC
131659063 GTAGGTATGG
1 GTAGGTATGG
131659073 CATCCGAATC
Statistics
Matches: 174, Mismatches: 10, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
34 33 0.19
35 141 0.81
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (35 bp):
GTAGGTATGGTATCATCCATACCGAGTTGTGAAAC
Found at i:131659335 original size:35 final size:35
Alignment explanation
Indices: 131659256--131659547 Score: 363
Period size: 35 Copynumber: 8.4 Consensus size: 35
131659246 GTTTCGACAA
* *
131659256 TAGGTATGGTATCATCCATACCGAGTTATGAAA-G
1 TAGGTATGGTATTATCCATACCGAGTTGTGAAACG
* *
131659290 TAGGTATGGTATTAACCATATCGAGTTGTGAAACG
1 TAGGTATGGTATTATCCATACCGAGTTGTGAAACG
* **
131659325 TAGGTATGGTATTAACCATGTCGAGTTGTGAAACG
1 TAGGTATGGTATTATCCATACCGAGTTGTGAAACG
* *
131659360 TAGGTATGGTATCATCCATACCGAGTTGTGGAACG
1 TAGGTATGGTATTATCCATACCGAGTTGTGAAACG
* * *
131659395 TAGGTATGGCATCATCCATACCGAGTTGTGGAACG
1 TAGGTATGGTATTATCCATACCGAGTTGTGAAACG
** * *
131659430 TAGGTATTTTATCATCTATACCGAGTTGTGAAACG
1 TAGGTATGGTATTATCCATACCGAGTTGTGAAACG
* * **
131659465 TAGGTATGTTATTATCCATACTGAGTTAAGAAACG
1 TAGGTATGGTATTATCCATACCGAGTTGTGAAACG
* *
131659500 TAGGTATGGCATT-TCCCATACCGAGTTGTGAAATG
1 TAGGTATGGTATTAT-CCATACCGAGTTGTGAAACG
131659535 TAGGTATGGTATT
1 TAGGTATGGTATT
131659548 TTCAATGAGG
Statistics
Matches: 227, Mismatches: 29, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
34 30 0.13
35 197 0.87
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (35 bp):
TAGGTATGGTATTATCCATACCGAGTTGTGAAACG
Found at i:131659432 original size:401 final size:401
Alignment explanation
Indices: 131658682--131659472 Score: 1366
Period size: 401 Copynumber: 2.0 Consensus size: 401
131658672 CTCTCAAATT
* * *
131658682 CGTCTTCTAGTTTTTTGTAGACCAAAAACGTTGTTTTAATAAACCAAAATGTTTTATTAAAATGA
1 CGTCTTCTAGTTTTTCGTAAACCAAAAACATTGTTTTAATAAACCAAAATGTTTTATTAAAATGA
*
131658747 TCGACCACAGGGTGACCCGATCACACCTAAACAAAAAGGATTGGTGGCGACTCTATTCCTTGTTT
66 TCGACCACAGGGTGACCCGATCACACCTAAACAAAAAGGATTGGTGGCGACTCTATACCTTGTTT
*
131658812 AAAAGTCGATCCCCATTTTCCAAAATAAAAATGGTTTCGACAGTAGGTATGGTATCATCCATACC
131 AAAAGTCGATCCCCATTTTCCAAAATAAAAATGGTTTCGACAATAGGTATGGTATCATCCATACC
* *
131658877 GAGTTATGAAAGTAGGTATGGTATCATCCATACCGAGTTGTGAAACGTAGGTATGGTATCATCCA
196 GAGTTATGAAAGTAGGTATGGTATCAACCATACCGAGTTGTGAAACGTAGGTATGGTATCAACCA
* *
131658942 TACCGAGTTGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAACGTAGGTATGGTATT
261 TACCGAGTTGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAACGTAGGTATGGCATC
* *
131659007 AACCACATCGAGTTGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGTGGAACGTAGGTATG
326 AACCACACCGAGTTGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAACGTAGGTATG
131659072 GCATCCGAATC
391 GCATCCGAATC
131659083 CGTCTTCTAGTTTTTCGTAAACCAAAAACATTGTTTTAATAAACCAAAATGTTTTATTAAAATGA
1 CGTCTTCTAGTTTTTCGTAAACCAAAAACATTGTTTTAATAAACCAAAATGTTTTATTAAAATGA
131659148 TCGACCACAGGGTGACCCGATCACACCTAAACAAAAAGGATTGGTGGCGACTCTATACCTTGTTT
66 TCGACCACAGGGTGACCCGATCACACCTAAACAAAAAGGATTGGTGGCGACTCTATACCTTGTTT
*
131659213 AAAAGTCGATCCCCGTTTTCCAAAATAAAAATGGTTTCGACAATAGGTATGGTATCATCCATACC
131 AAAAGTCGATCCCCATTTTCCAAAATAAAAATGGTTTCGACAATAGGTATGGTATCATCCATACC
* * *
131659278 GAGTTATGAAAGTAGGTATGGTATTAACCATATCGAGTTGTGAAACGTAGGTATGGTATTAACCA
196 GAGTTATGAAAGTAGGTATGGTATCAACCATACCGAGTTGTGAAACGTAGGTATGGTATCAACCA
** *
131659343 TGTCGAGTTGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGTGGAACGTAGGTATGGCATC
261 TACCGAGTTGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAACGTAGGTATGGCATC
* * * ** *
131659408 ATCCATACCGAGTTGTGGAACGTAGGTATTTTATCATCTATACCGAGTTGTGAAACGTAGGTATG
326 AACCACACCGAGTTGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAACGTAGGTATG
131659473 TTATTATCCA
Statistics
Matches: 366, Mismatches: 24, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
401 366 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.30
Consensus pattern (401 bp):
CGTCTTCTAGTTTTTCGTAAACCAAAAACATTGTTTTAATAAACCAAAATGTTTTATTAAAATGA
TCGACCACAGGGTGACCCGATCACACCTAAACAAAAAGGATTGGTGGCGACTCTATACCTTGTTT
AAAAGTCGATCCCCATTTTCCAAAATAAAAATGGTTTCGACAATAGGTATGGTATCATCCATACC
GAGTTATGAAAGTAGGTATGGTATCAACCATACCGAGTTGTGAAACGTAGGTATGGTATCAACCA
TACCGAGTTGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAACGTAGGTATGGCATC
AACCACACCGAGTTGTGAAACGTAGGTATGGTATCATCCATACCGAGTTGTGAAACGTAGGTATG
GCATCCGAATC
Found at i:131660211 original size:22 final size:22
Alignment explanation
Indices: 131660168--131660221 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
131660158 AAGAAAGACT
* * *
131660168 TGTTATTGTTTCCATTATTTTGG
1 TGTTATT-TTACCACTATTTTGC
131660191 TGTTATTTTACCACTATTTTGC
1 TGTTATTTTACCACTATTTTGC
*
131660213 TGTCATTTT
1 TGTTATTTT
131660222 GCAATTATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 20 0.74
23 7 0.26
ACGTcount: A:0.15, C:0.13, G:0.13, T:0.59
Consensus pattern (22 bp):
TGTTATTTTACCACTATTTTGC
Found at i:131662176 original size:11 final size:10
Alignment explanation
Indices: 131662162--131662236 Score: 53
Period size: 11 Copynumber: 6.9 Consensus size: 10
131662152 TATTTTATTG
131662162 CTATTTTGCTA
1 CTATTTT-CTA
131662173 CTATTTTCTTA
1 CTATTTTC-TA
* *
131662184 ATGTTTTCTCA
1 CTATTTTCT-A
131662195 CTATTTTACTA
1 CTATTTT-CTA
131662206 CTATTTTACTA
1 CTATTTT-CTA
*
131662217 TTATGTTAT-TA
1 CTAT-TT-TCTA
131662228 CTATTTTCT
1 CTATTTTCT
131662237 TGTTGTTTGA
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
9 1 0.02
10 5 0.10
11 41 0.79
12 4 0.08
13 1 0.02
ACGTcount: A:0.21, C:0.16, G:0.04, T:0.59
Consensus pattern (10 bp):
CTATTTTCTA
Found at i:131662212 original size:22 final size:22
Alignment explanation
Indices: 131662152--131662234 Score: 62
Period size: 22 Copynumber: 3.8 Consensus size: 22
131662142 CAAAAAAATT
* * *
131662152 TATTTTATTGCTATTTTGCTAC
1 TATTTTACTACTATTTTACTAC
* *
131662174 TATTTT-CTTAATGTTTT-CTCAC
1 TATTTTAC-TACTATTTTACT-AC
*
131662196 TATTTTACTACTATTTTACTAT
1 TATTTTACTACTATTTTACTAC
* *
131662218 TATGTTATTACTATTTT
1 TATTTTACTACTATTTT
131662235 CTTGTTGTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
21 2 0.04
22 43 0.90
23 3 0.06
ACGTcount: A:0.22, C:0.13, G:0.05, T:0.60
Consensus pattern (22 bp):
TATTTTACTACTATTTTACTAC
Found at i:131662231 original size:33 final size:31
Alignment explanation
Indices: 131662150--131662234 Score: 89
Period size: 33 Copynumber: 2.6 Consensus size: 31
131662140 GACAAAAAAA
* * *
131662150 TTTATTTTATTGCTATTTTGCTACTATTTTC
1 TTTATGTTATTACTATTTTACTACTATTTTC
* *
131662181 TTAATGTTTTCTCACTATTTTACTACTATTTTAC
1 TTTATGTTAT-T-ACTATTTTACTACTATTTT-C
131662215 TATTATGTTATTACTATTTT
1 T-TTATGTTATTACTATTTT
131662235 CTTGTTGTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
31 7 0.16
32 1 0.02
33 25 0.58
34 3 0.07
35 7 0.16
ACGTcount: A:0.21, C:0.13, G:0.05, T:0.61
Consensus pattern (31 bp):
TTTATGTTATTACTATTTTACTACTATTTTC
Found at i:131663468 original size:18 final size:19
Alignment explanation
Indices: 131663447--131663486 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
131663437 TATATAACGC
131663447 ATAAATA-ATAA-ATTTATA
1 ATAAATATATAATA-TTATA
131663465 AT-AATATATAATATTATA
1 ATAAATATATAATATTATA
131663483 ATAA
1 ATAA
131663487 TAAAATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
17 4 0.21
18 13 0.68
19 2 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAAATATATAATATTATA
Found at i:131663502 original size:29 final size:30
Alignment explanation
Indices: 131663448--131663516 Score: 81
Period size: 32 Copynumber: 2.3 Consensus size: 30
131663438 ATATAACGCA
*
131663448 TAAATAATAAATTTATAATAATATATAATAT
1 TAAATAATAAAATTAT-ATAATATATAATAT
*
131663479 TATAATAATAAAATTAT-TAA-ATATCATAT
1 TA-AATAATAAAATTATATAATATATAATAT
131663508 TAAA-AATAA
1 TAAATAATAA
131663517 GGGGAGGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 5 0.14
28 2 0.06
29 10 0.29
30 3 0.09
31 2 0.06
32 13 0.37
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (30 bp):
TAAATAATAAAATTATATAATATATAATAT
Found at i:131670699 original size:30 final size:30
Alignment explanation
Indices: 131670664--131670726 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
131670654 AATTAATAAG
*
131670664 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
131670694 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
131670724 CAA
1 CAA
131670727 TAAAATAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:131670781 original size:22 final size:22
Alignment explanation
Indices: 131670756--131670798 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
131670746 TATCCAAATA
131670756 ATAATAATAAAATAGTAGCAAC
1 ATAATAATAAAATAGTAGCAAC
* *
131670778 ATAATAGTAAAATGGTAGCAA
1 ATAATAATAAAATAGTAGCAA
131670799 AATAGGGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.56, C:0.07, G:0.14, T:0.23
Consensus pattern (22 bp):
ATAATAATAAAATAGTAGCAAC
Found at i:131671230 original size:30 final size:31
Alignment explanation
Indices: 131671194--131671251 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 31
131671184 GTTATTAATA
131671194 TTTTAGATCATTTCTA-TTTGGTCACTTACG
1 TTTTAGATCATTTCTATTTTGGTCACTTACG
*
131671224 TTTTAGATCGTTTCTATTTTGGTCACTT
1 TTTTAGATCATTTCTATTTTGGTCACTT
131671252 TTCGTCAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.17, C:0.16, G:0.14, T:0.53
Consensus pattern (31 bp):
TTTTAGATCATTTCTATTTTGGTCACTTACG
Found at i:131673811 original size:16 final size:16
Alignment explanation
Indices: 131673773--131673827 Score: 67
Period size: 16 Copynumber: 3.4 Consensus size: 16
131673763 GTTTGGTTCA
131673773 CTGTAATGGAATA-AGG
1 CTGTAATGGAATAGA-G
* * *
131673789 TTATAATTGAATAGAG
1 CTGTAATGGAATAGAG
131673805 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
131673821 CTGTAAT
1 CTGTAAT
131673828 CAGTAATTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
16 31 0.97
17 1 0.03
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.31
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:131673925 original size:16 final size:16
Alignment explanation
Indices: 131673906--131673959 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
131673896 GGAATGGGAT
131673906 TGTAATTGAATAGAGC
1 TGTAATTGAATAGAGC
*
131673922 TGTAATTGAATAGAGT
1 TGTAATTGAATAGAGC
*
131673938 TGTAATGGAATAGAGC
1 TGTAATTGAATAGAGC
131673954 TGTAAT
1 TGTAAT
131673960 CAGTAATTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.37, C:0.04, G:0.26, T:0.33
Consensus pattern (16 bp):
TGTAATTGAATAGAGC
Found at i:131674030 original size:44 final size:46
Alignment explanation
Indices: 131673945--131674033 Score: 130
Period size: 44 Copynumber: 2.0 Consensus size: 46
131673935 AGTTGTAATG
131673945 GAATAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATGGAATT
1 GAATAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATGGAATT
**
131673991 GAATAGAGCTGTAAT-AG-AATT-TTTGTGTTTGGTTGAATGGAAT
1 GAATAGAGCTGTAATCAGTAATTCAAT-TGTTTGGTTGAATGGAAT
131674034 AGATGTTGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
43 1 0.03
44 22 0.55
45 2 0.05
46 15 0.38
ACGTcount: A:0.31, C:0.04, G:0.26, T:0.38
Consensus pattern (46 bp):
GAATAGAGCTGTAATCAGTAATTCAATTGTTTGGTTGAATGGAATT
Found at i:131674137 original size:25 final size:26
Alignment explanation
Indices: 131674108--131674156 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
131674098 AGGTAAATAA
*
131674108 TTATTGTT-ATTAAATTTTAATAAGG
1 TTATTGTTAAATAAATTTTAATAAGG
*
131674133 TTATTGTTAAATATATTTTAATAA
1 TTATTGTTAAATAAATTTTAATAA
131674157 AAATAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (26 bp):
TTATTGTTAAATAAATTTTAATAAGG
Found at i:131677436 original size:26 final size:26
Alignment explanation
Indices: 131677400--131677483 Score: 132
Period size: 26 Copynumber: 3.2 Consensus size: 26
131677390 CATGAAATTC
*
131677400 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
*
131677426 TTATCATGGAACATTTACCTAATCTA
1 TTATCATGGAACATTTACCTAACCTA
* *
131677452 TTATCATGGAATATTTACCTAACTTA
1 TTATCATGGAACATTTACCTAACCTA
131677478 TTATCA
1 TTATCA
131677484 ATTTGTATCA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:131680039 original size:2 final size:2
Alignment explanation
Indices: 131680027--131680073 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
131680017 TCTGATGCTA
* *
131680027 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
131680069 AT AT A
1 AT AT A
131680074 CACAATCTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
AT
Found at i:131681702 original size:2 final size:2
Alignment explanation
Indices: 131681690--131681876 Score: 338
Period size: 2 Copynumber: 93.0 Consensus size: 2
131681680 TTCATCTTCA
*
131681690 TC TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
131681732 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
131681774 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
131681816 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* *
131681858 TC TC TGG TA TC TC TC TC TC
1 TC TC T-C TC TC TC TC TC TC
131681877 CAAAGCTTCA
Statistics
Matches: 179, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
2 178 0.99
3 1 0.01
ACGTcount: A:0.01, C:0.49, G:0.01, T:0.49
Consensus pattern (2 bp):
TC
Found at i:131691462 original size:15 final size:15
Alignment explanation
Indices: 131691442--131691474 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
131691432 AATACGAGAG
131691442 AAAGAAGAAAAAGAA
1 AAAGAAGAAAAAGAA
*
131691457 AAAGAAGAAAAGGAA
1 AAAGAAGAAAAAGAA
131691472 AAA
1 AAA
131691475 ACTTTATGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAGAAGAAAAAGAA
Found at i:131692227 original size:5 final size:5
Alignment explanation
Indices: 131692217--131692245 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
131692207 GTAACTGTGA
131692217 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
131692246 AACACAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:131696029 original size:14 final size:14
Alignment explanation
Indices: 131696010--131696037 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
131696000 GCCCTCTCTC
131696010 CTCCCCTCTCCTTT
1 CTCCCCTCTCCTTT
131696024 CTCCCCTCTCCTTT
1 CTCCCCTCTCCTTT
131696038 TCTCTCTTTT
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:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (14 bp):
CTCCCCTCTCCTTT
Found at i:131696788 original size:11 final size:11
Alignment explanation
Indices: 131696734--131696793 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
131696724 ATGTTTAATA
131696734 TTATATAT-TT
1 TTATATATATT
*
131696744 TTCATATATGTT
1 TT-ATATATATT
* *
131696756 ATATATAAGTCTT
1 TTATAT-A-TATT
131696769 TTAATATATATT
1 TT-ATATATATT
131696781 TTATATATATT
1 TTATATATATT
131696792 TT
1 TT
131696794 TTAATGTTAC
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
10 2 0.05
11 21 0.51
12 9 0.22
13 5 0.12
14 4 0.10
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (11 bp):
TTATATATATT
Found at i:131696795 original size:25 final size:25
Alignment explanation
Indices: 131696735--131696798 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
131696725 TGTTTAATAT
* *
131696735 TATATA-TTTTTCATATATGTTATA
1 TATATATTTTTTAATATATATTATA
* *
131696759 TATA-AGTCTTTTAATATATATTTTA
1 TATATA-TTTTTTAATATATATTATA
131696784 TATATATTTTTTAAT
1 TATATATTTTTTAAT
131696799 GTTACTAGTT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.03
24 4 0.12
25 26 0.81
26 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (25 bp):
TATATATTTTTTAATATATATTATA
Found at i:131696851 original size:21 final size:23
Alignment explanation
Indices: 131696827--131696868 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
131696817 ATGTATACCT
131696827 CTAATA-TTATA-TTATATATTC
1 CTAATACTTATATTTATATATTC
*
131696848 CTAATACTTGTATTTATATAT
1 CTAATACTTATATTTATATAT
131696869 ATATGCATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 4 0.22
23 8 0.44
ACGTcount: A:0.36, C:0.10, G:0.02, T:0.52
Consensus pattern (23 bp):
CTAATACTTATATTTATATATTC
Found at i:131700836 original size:12 final size:12
Alignment explanation
Indices: 131700819--131700854 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
131700809 AACATTTTGA
131700819 CATTCATACATT
1 CATTCATACATT
*
131700831 CATTCATGCATT
1 CATTCATACATT
*
131700843 CATCCATACATT
1 CATTCATACATT
131700855 GCATATCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.28, G:0.03, T:0.39
Consensus pattern (12 bp):
CATTCATACATT
Found at i:131720198 original size:16 final size:16
Alignment explanation
Indices: 131720177--131720209 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
131720167 TGTTTGTGTG
131720177 TACATGAAATATATGT
1 TACATGAAATATATGT
131720193 TACATGAAATATATGT
1 TACATGAAATATATGT
131720209 T
1 T
131720210 TGTATAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.12, T:0.39
Consensus pattern (16 bp):
TACATGAAATATATGT
Found at i:131722908 original size:16 final size:15
Alignment explanation
Indices: 131722887--131722939 Score: 67
Period size: 16 Copynumber: 3.6 Consensus size: 15
131722877 CACAATCTGT
131722887 TAAAAAAAATTGAATC
1 TAAAAAAAA-TGAATC
131722903 TAAAAAAAATG--T-
1 TAAAAAAAATGAATC
131722915 TAAAAAAAATGAATC
1 TAAAAAAAATGAATC
131722930 TGAAAAAAAA
1 T-AAAAAAAA
131722940 AATATCGGTC
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
12 11 0.33
13 1 0.03
14 1 0.03
15 3 0.09
16 17 0.52
ACGTcount: A:0.68, C:0.04, G:0.08, T:0.21
Consensus pattern (15 bp):
TAAAAAAAATGAATC
Found at i:131722927 original size:27 final size:29
Alignment explanation
Indices: 131722884--131722939 Score: 98
Period size: 28 Copynumber: 2.0 Consensus size: 29
131722874 TGACACAATC
131722884 TGTTAAAAAAAATTGAATCT-AAAAAAAA
1 TGTTAAAAAAAATTGAATCTGAAAAAAAA
131722912 TGTTAAAAAAAA-TGAATCTGAAAAAAAA
1 TGTTAAAAAAAATTGAATCTGAAAAAAAA
131722940 AATATCGGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 7 0.26
28 20 0.74
ACGTcount: A:0.64, C:0.04, G:0.09, T:0.23
Consensus pattern (29 bp):
TGTTAAAAAAAATTGAATCTGAAAAAAAA
Found at i:131725871 original size:14 final size:14
Alignment explanation
Indices: 131725852--131725918 Score: 79
Period size: 14 Copynumber: 4.9 Consensus size: 14
131725842 ACTAAAATAA
131725852 AATAAAAATAAAAT
1 AATAAAAATAAAAT
131725866 AATAAATAAT-AAAT
1 AATAAA-AATAAAAT
*
131725880 AATAAAAGA-AAAAA
1 AATAAAA-ATAAAAT
131725894 AATAAAAAT-AAA-
1 AATAAAAATAAAAT
131725906 AATAAAAATAAAA
1 AATAAAAATAAAA
131725919 ATAAAAAGAA
Statistics
Matches: 47, Mismatches: 1, Indels: 11
0.80 0.02 0.19
Matches are distributed among these distances:
12 9 0.19
13 8 0.17
14 27 0.57
15 3 0.06
ACGTcount: A:0.81, C:0.00, G:0.01, T:0.18
Consensus pattern (14 bp):
AATAAAAATAAAAT
Found at i:131725874 original size:7 final size:6
Alignment explanation
Indices: 131725845--131725925 Score: 98
Period size: 6 Copynumber: 13.7 Consensus size: 6
131725835 ATATTTAACT
*
131725845 AAAAT- AAAATA AAAAT- AAAATA ATAAATA ATAAATA ATAAA-A GAAA-A
1 AAAATA AAAATA AAAATA AAAATA A-AAATA A-AAATA A-AAATA AAAATA
131725892 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
131725926 GAAAGATTGG
Statistics
Matches: 70, Mismatches: 2, Indels: 7
0.89 0.03 0.09
Matches are distributed among these distances:
5 17 0.24
6 36 0.51
7 17 0.24
ACGTcount: A:0.81, C:0.00, G:0.01, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:131733026 original size:123 final size:122
Alignment explanation
Indices: 131732808--131733037 Score: 424
Period size: 123 Copynumber: 1.9 Consensus size: 122
131732798 AGGGAGGAAC
*
131732808 AGAAGAAAAAAATTCAGTAAAAAAAGATTACAGAAGAGAAGAGAGGGAGAAAGAAGGAGAAGAAG
1 AGAAGAAAAAAATTCAGTAAAAAAAGATTACAGAAGAGAAGAGAGGGAGAAAGAAGGAGAAGAAA
131732873 AAATTAAAGGTATTTTTTTGTTATTTTTAAATATAACAGATTTTCTGAAAAAAAGAA
66 AAATTAAAGGTATTTTTTTGTTATTTTTAAATATAACAGATTTTCTGAAAAAAAGAA
* *
131732930 AGAAGGAAAAAATTTCAGTAAAAAAAGATTACAGAAGAGAAGTGAGGGAGAAAGAAGGAGAAGAA
1 AGAA-GAAAAAAATTCAGTAAAAAAAGATTACAGAAGAGAAGAGAGGGAGAAAGAAGGAGAAGAA
131732995 AAAATTAAAGGTATTTTTTTGTTATTTTTAAATATAACAGATT
65 AAAATTAAAGGTATTTTTTTGTTATTTTTAAATATAACAGATT
131733038 ATAATAAGAA
Statistics
Matches: 104, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
122 4 0.04
123 100 0.96
ACGTcount: A:0.51, C:0.03, G:0.21, T:0.25
Consensus pattern (122 bp):
AGAAGAAAAAAATTCAGTAAAAAAAGATTACAGAAGAGAAGAGAGGGAGAAAGAAGGAGAAGAAA
AAATTAAAGGTATTTTTTTGTTATTTTTAAATATAACAGATTTTCTGAAAAAAAGAA
Found at i:131736716 original size:12 final size:12
Alignment explanation
Indices: 131736701--131736734 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
131736691 GTCAAGCTCG
*
131736701 GGATCTGGCTGT
1 GGATCAGGCTGT
131736713 GGATCAGGCTGT
1 GGATCAGGCTGT
*
131736725 GGATCGGGCT
1 GGATCAGGCT
131736735 CTATATCGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.12, C:0.18, G:0.44, T:0.26
Consensus pattern (12 bp):
GGATCAGGCTGT
Found at i:131738744 original size:200 final size:202
Alignment explanation
Indices: 131738401--131738864 Score: 860
Period size: 200 Copynumber: 2.3 Consensus size: 202
131738391 ATTAGTACAT
*
131738401 AAATTAAATTGAAATATTAAATAAGAAATAAAACAATATGCTATTTAGAAAATAACTATTATTGT
1 AAATTAAATTGAAATATTAAATAAGAAATAAAACAATATGTTATTTAGAAAATAACTATTATTGT
*
131738466 AATGACATACATGTTTTATTAGGTATAAGTATTTAAATTTTTGTTTTTGTAATGTGAAACATGTG
66 AATGACATACATGTTTTATTAGGTATAAGTATTTAAATTTTTGTTTTTGTAATGTGAAACATGCG
* *
131738531 T-AA-ATATATATATAATCATATTAGTGAATCTGCTAATACATACTTTACCCGGGTAAAGTGTTC
131 TAAATATATATATATAATCATATTAGTGAATCTGCTAATACATACTTTACCCGGGTAAAGTATGC
131738594 ATTATTA
196 ATTATTA
*
131738601 AAATTAAATTGAAATATTAAATAAGAAATAAAACAATATGTTATTTGGAAAATAACTATTATTGT
1 AAATTAAATTGAAATATTAAATAAGAAATAAAACAATATGTTATTTAGAAAATAACTATTATTGT
131738666 AATGACATACATGTTTTATTAGGTATAAGTATTTAAATTTTTGTTTTTGTAATGTGAAACATGCG
66 AATGACATACATGTTTTATTAGGTATAAGTATTTAAATTTTTGTTTTTGTAATGTGAAACATGCG
131738731 TAAATATATATATATAATCATATTAGTGAATCTGCTAATACATACTTTACCCGGGTAAAGTATGC
131 TAAATATATATATATAATCATATTAGTGAATCTGCTAATACATACTTTACCCGGGTAAAGTATGC
131738796 ATTATTA
196 ATTATTA
*
131738803 AAATTAAATTGAAATATTAAATAAGAAATAAAACAATATGTTATTTAAAAAATAACTATTAT
1 AAATTAAATTGAAATATTAAATAAGAAATAAAACAATATGTTATTTAGAAAATAACTATTAT
131738865 GTTTTATTAG
Statistics
Matches: 255, Mismatches: 7, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
200 128 0.50
201 2 0.01
202 125 0.49
ACGTcount: A:0.43, C:0.07, G:0.11, T:0.39
Consensus pattern (202 bp):
AAATTAAATTGAAATATTAAATAAGAAATAAAACAATATGTTATTTAGAAAATAACTATTATTGT
AATGACATACATGTTTTATTAGGTATAAGTATTTAAATTTTTGTTTTTGTAATGTGAAACATGCG
TAAATATATATATATAATCATATTAGTGAATCTGCTAATACATACTTTACCCGGGTAAAGTATGC
ATTATTA
Found at i:131739167 original size:23 final size:24
Alignment explanation
Indices: 131739114--131739168 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 24
131739104 TTGAATAGGT
131739114 GTATTTCTAAAATATTATGATTTTA
1 GTATTT-TAAAATATTATGATTTTA
*
131739139 -TTTTTTAAAATA-TACT-ATTTTA
1 GTATTTTAAAATATTA-TGATTTTA
131739161 GTATTTTA
1 GTATTTTA
131739169 TTTTTTTATC
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
22 8 0.31
23 14 0.54
24 4 0.15
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (24 bp):
GTATTTTAAAATATTATGATTTTA
Found at i:131739426 original size:22 final size:23
Alignment explanation
Indices: 131739377--131739436 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
131739367 GTCCTTTTAT
*
131739377 TATTTGTA-TTTTTAAAATATTCA
1 TATTT-TATTTTTTAAAATATACA
*
131739400 GATTTTATTTTTTAAAATATAC-
1 TATTTTATTTTTTAAAATATACA
*
131739422 TATTTTCATATTTTA
1 TATTTT-ATTTTTTA
131739437 CTTTTTATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 7 0.23
23 24 0.77
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.58
Consensus pattern (23 bp):
TATTTTATTTTTTAAAATATACA
Found at i:131739654 original size:133 final size:133
Alignment explanation
Indices: 131739113--131740115 Score: 1616
Period size: 133 Copynumber: 7.5 Consensus size: 133
131739103 ATTGAATAGG
*
131739113 TGTATTTCTAAAATATT--ATGATTTTATTTTTTAAAATATACTATTTTAGTATTTTATTTTTTT
1 TGTATTTCTAAAATATTCGA-GATTTTATTTTTTAAAATATACTATTTTCGTATTTTA--TTTTT
131739176 ATCTTATTTTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTT
63 ATCTTATTTTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTT
131739241 ATTATT
128 ATTATT
131739247 TGTATTTCTAAAATATTCG-GATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTATC
1 TGTATTTCTAAAATATTCGAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTATC
* * *
131739311 TTATTTTAGTACATAAATGTATAACTTTAGTATTTTTTTTATATAACCTTAATTTTGTCCTTTTA
66 TTATTTTAGTACATAAATGTATAACTTTAG--TGTTTTTTATATAACCCTAATTTTGTCCCTTTA
131739376 TTATT
129 TTATT
* *
131739381 TGTATTTTTAAAATATTC-AGATTTTATTTTTTAAAATATACTATTTTCATATTTTACTTTTTAT
1 TGTATTTCTAAAATATTCGAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTAT
131739445 CTTATATTTTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTT
65 C-T-TATTTTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTT
131739510 ATTATT
128 ATTATT
131739516 TGTATTTCTAAAATATTCGA-ATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTAT
1 TGTATTTCTAAAATATTCGAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTAT
131739580 CTTATTTTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTAT
65 CTTATTTTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTAT
131739645 TATT
130 TATT
131739649 TGTATTTCTAAAATATTC-AGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTTAT
1 TGTATTTCTAAAATATTCGAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTAT
* * *
131739713 CTTATGTTAGTACATAAATGTATTACTTTAGTGTTTTTTTTATAACCCTAATTTTGTCCCTTTAT
65 CTTATTTTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTAT
131739778 TATT
130 TATT
*
131739782 TGTATTTCTAAAATATT-AAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTATC
1 TGTATTTCTAAAATATTCGAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTATC
*
131739846 TTATTTTAGTACATAAATGTATTACTTTAGTGTTTTTTTATATAACCCTAATTTTGTCCCTTTAT
66 TTATTTTAGTACATAAATGTATAACTTTAGTG-TTTTTTATATAACCCTAATTTTGTCCCTTTAT
131739911 TATT
130 TATT
*
131739915 TTTATTTCTAAAATATTC-AGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTATC
1 TGTATTTCTAAAATATTCGAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTATC
* * *
131739979 GTATTTTAGTACATAAATGTATTACTTTAGTGTTTTTTAAATAACCCTAATTTTGTCCC--T-TT
66 TTATTTTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATT
*
131740041 GTT
131 ATT
* * * * * * *
131740044 TATATTTTTAAAATTTTTG-GATTTTATTTTTTAAAATATACTATTTTCATATTTTATTCTTATA
1 TGTATTTCTAAAATATTCGAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTATC
131740108 TTATTTTA
66 TTATTTTA
131740116 TACTATTTTT
Statistics
Matches: 826, Mismatches: 29, Indels: 33
0.93 0.03 0.04
Matches are distributed among these distances:
129 67 0.08
130 1 0.00
132 104 0.13
133 378 0.46
134 142 0.17
135 103 0.12
136 2 0.00
137 29 0.04
ACGTcount: A:0.29, C:0.09, G:0.06, T:0.57
Consensus pattern (133 bp):
TGTATTTCTAAAATATTCGAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTTATC
TTATTTTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTATT
ATT
Found at i:131739876 original size:535 final size:528
Alignment explanation
Indices: 131739113--131740115 Score: 1686
Period size: 535 Copynumber: 1.9 Consensus size: 528
131739103 ATTGAATAGG
131739113 TGTATTTCTAAAATATTATGATTTTATTTTTTAAAATATACTATTTTAGTATTTTATTTTTTTAT
1 TGTATTTCTAAAATATTATGATTTTATTTTTTAAAATATACTATTTTAGTATTTTATTTTTTTAT
*
131739178 CTTATTTTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTAT
66 CTTATGTTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTAT
**
131739243 TATTTGTATTTCTAAAATATTCGGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTT
131 TATTTGTATTTCTAAAATATTAAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTT
* * *
131739308 ATCTTATTTTAGTACATAAATGTATAACTTTAGTATTTTTTTTATATAACCTTAATTTTGTCCTT
196 ATCTTATTTTAGTACATAAATGTATAACTTTAGT-GTTTTTTTATATAACCCTAATTTTGTCCCT
*
131739373 TTATTATTTGTATTTTTAAAATATTCAGATTTTATTTTTTAAAATATACTATTTTCATATTTTAC
260 TTATTATTTGTATTTCTAAAATATTCAGATTTTATTTTTTAAAATATACTATTTTCATATTTTA-
*
131739438 TTTTTATCTTATATTTTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTG
324 TTTTTATC--ATATTTTAGTACATAAATGTATAACTTTAGTGTTTTTTAAATAACCCTAATTTTG
* *
131739503 TCCCTTTATTATTTGTATTTCTAAAATATTCGAATTTTATTTTTTAAAATATACTATTTTCGTAT
387 TCCC--T-TTATTTATATTTCTAAAATATTCGAATTTTATTTTTTAAAATATACTATTTTCATAT
* *
131739568 TTTATTTTTTATCTTATTTTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATT
449 TTTA-TTCTTATATTATTTTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATT
131739633 TTGTCCCTTTATTATT
513 TTGTCCCTTTATTATT
*
131739649 TGTATTTCTAAAATATTCA-GATTTTATTTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTA
1 TGTATTTCTAAAATATT-ATGATTTTATTTTTTAAAATATACTATTTTAGTATTTTATTTTTTTA
* *
131739712 TCTTATGTTAGTACATAAATGTATTACTTTAGTGTTTTTTTTATAACCCTAATTTTGTCCCTTTA
65 TCTTATGTTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTA
131739777 TTATTTGTATTTCTAAAATATTAAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTT
130 TTATTTGTATTTCTAAAATATTAAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTT
*
131739842 TATCTTATTTTAGTACATAAATGTATTACTTTAGTGTTTTTTTATATAACCCTAATTTTGTCCCT
195 TATCTTATTTTAGTACATAAATGTATAACTTTAGTGTTTTTTTATATAACCCTAATTTTGTCCCT
* *
131739907 TTATTATTTTTATTTCTAAAATATTCAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTAT
260 TTATTATTTGTATTTCTAAAATATTCAGATTTTATTTTTTAAAATATACTATTTTCATATTTTAT
* *
131739972 TTTTATCGTATTTTAGTACATAAATGTATTACTTTAGTGTTTTTTAAATAACCCTAATTTTGTCC
325 TTTTATCATATTTTAGTACATAAATGTATAACTTTAGTGTTTTTTAAATAACCCTAATTTTGTCC
* * * * *
131740037 CTTTGTTTATATTTTTAAAATTTTTGGATTTTATTTTTTAAAATATACTATTTTCATATTTTATT
390 CTTTATTTATATTTCTAAAATATTCGAATTTTATTTTTTAAAATATACTATTTTCATATTTTATT
131740102 CTTATATTATTTTA
455 CTTATATTATTTTA
131740116 TACTATTTTT
Statistics
Matches: 441, Mismatches: 25, Indels: 11
0.92 0.05 0.02
Matches are distributed among these distances:
527 14 0.03
528 54 0.12
529 1 0.00
531 56 0.13
533 8 0.02
534 88 0.20
535 166 0.38
536 53 0.12
537 1 0.00
ACGTcount: A:0.29, C:0.09, G:0.06, T:0.57
Consensus pattern (528 bp):
TGTATTTCTAAAATATTATGATTTTATTTTTTAAAATATACTATTTTAGTATTTTATTTTTTTAT
CTTATGTTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCTTTAT
TATTTGTATTTCTAAAATATTAAGATTTTATTTTTTAAAATATACTATTTTCGTATTTTATTTTT
ATCTTATTTTAGTACATAAATGTATAACTTTAGTGTTTTTTTATATAACCCTAATTTTGTCCCTT
TATTATTTGTATTTCTAAAATATTCAGATTTTATTTTTTAAAATATACTATTTTCATATTTTATT
TTTATCATATTTTAGTACATAAATGTATAACTTTAGTGTTTTTTAAATAACCCTAATTTTGTCCC
TTTATTTATATTTCTAAAATATTCGAATTTTATTTTTTAAAATATACTATTTTCATATTTTATTC
TTATATTATTTTAGTACATAAATGTATAACTTTAGTGTTTTTTATATAACCCTAATTTTGTCCCT
TTATTATT
Found at i:131740157 original size:35 final size:33
Alignment explanation
Indices: 131740064--131740160 Score: 90
Period size: 35 Copynumber: 2.8 Consensus size: 33
131740054 AAATTTTTGG
*
131740064 ATTTTATTTTTTAAAATATACTA-TTTTCATATTTT
1 ATTTTATTTTTT--TATAT-CTATTTTTCATATTTT
*
131740099 ATTCTTATATTATTTTATA-CTATTTTTCGTATTTT
1 ATT-TTAT-TT-TTTTATATCTATTTTTCATATTTT
131740134 ATTTTATTTTTTTCATATTCTATTTTT
1 ATTTTATTTTTTT-ATA-TCTATTTTT
131740161 TCATTAAGAT
Statistics
Matches: 53, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
32 4 0.08
33 5 0.09
34 7 0.13
35 25 0.47
36 7 0.13
37 2 0.04
38 3 0.06
ACGTcount: A:0.25, C:0.07, G:0.01, T:0.67
Consensus pattern (33 bp):
ATTTTATTTTTTTATATCTATTTTTCATATTTT
Found at i:131740191 original size:16 final size:16
Alignment explanation
Indices: 131740133--131740193 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
131740123 TTTCGTATTT
131740133 TATTTTATTTTTTTCA
1 TATTTTATTTTTTTCA
*
131740149 TATTCTA-TTTTTTCA
1 TATTTTATTTTTTTCA
***
131740164 TTAAGATATTTTTTTCA
1 -TATTTTATTTTTTTCA
*
131740181 TATTTTCTTTTTT
1 TATTTTATTTTTT
131740194 ATACTATTTC
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
15 8 0.23
16 19 0.54
17 8 0.23
ACGTcount: A:0.20, C:0.08, G:0.02, T:0.70
Consensus pattern (16 bp):
TATTTTATTTTTTTCA
Found at i:131740518 original size:10 final size:11
Alignment explanation
Indices: 131740493--131740521 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
131740483 ATAAAATTAA
131740493 AAATTAAATCT
1 AAATTAAATCT
131740504 AAATTAAAT-T
1 AAATTAAATCT
131740514 AAATTAAA
1 AAATTAAA
131740522 ATCAACAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (11 bp):
AAATTAAATCT
Found at i:131740610 original size:7 final size:7
Alignment explanation
Indices: 131740593--131740625 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
131740583 CTTCTTCTCC
131740593 TTCTCTTT
1 TTCT-TTT
131740601 TTCTTTT
1 TTCTTTT
131740608 TTC-TTT
1 TTCTTTT
131740614 TTCTTTT
1 TTCTTTT
131740621 TTCTT
1 TTCTT
131740626 CCCTTCCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.25
7 14 0.58
8 4 0.17
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (7 bp):
TTCTTTT
Found at i:131740614 original size:13 final size:13
Alignment explanation
Indices: 131740596--131740625 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
131740586 CTTCTCCTTC
131740596 TCTTTTTCTTTTT
1 TCTTTTTCTTTTT
131740609 TCTTTTTCTTTTT
1 TCTTTTTCTTTTT
131740622 TCTT
1 TCTT
131740626 CCCTTCCTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TCTTTTTCTTTTT
Found at i:131740680 original size:13 final size:13
Alignment explanation
Indices: 131740662--131740702 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
131740652 TCCTTCTTCG
131740662 TCTTCTCTTCTTT
1 TCTTCTCTTCTTT
*
131740675 TCTTCTCTTTTTT
1 TCTTCTCTTCTTT
131740688 TCTTCT-TTCTTT
1 TCTTCTCTTCTTT
131740700 TCT
1 TCT
131740703 CTCCTTTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
12 8 0.31
13 18 0.69
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (13 bp):
TCTTCTCTTCTTT
Found at i:131740709 original size:14 final size:13
Alignment explanation
Indices: 131740669--131740712 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 13
131740659 TCGTCTTCTC
131740669 TTCTTTTCTTCTCT
1 TTCTTTTCTTC-CT
131740683 TT-TTTTCTT-CT
1 TTCTTTTCTTCCT
131740694 TTCTTTTCTCTCCT
1 TTCTTTTCT-TCCT
131740708 TTCTT
1 TTCTT
131740713 CTCCCCAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 4 0.15
12 6 0.22
13 8 0.30
14 9 0.33
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (13 bp):
TTCTTTTCTTCCT
Found at i:131740915 original size:11 final size:11
Alignment explanation
Indices: 131740901--131740939 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
131740891 TTTATACTAT
131740901 TTTTTTACTTG
1 TTTTTTACTTG
*
131740912 TTTTATACTCT-
1 TTTTTTACT-TG
131740923 TTTTTTACTTG
1 TTTTTTACTTG
131740934 TTTTTT
1 TTTTTT
131740940 TAACAGATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 1 0.04
11 22 0.92
12 1 0.04
ACGTcount: A:0.10, C:0.10, G:0.05, T:0.74
Consensus pattern (11 bp):
TTTTTTACTTG
Found at i:131740916 original size:22 final size:22
Alignment explanation
Indices: 131740891--131740937 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
131740881 TTTTTTCAAC
131740891 TTTATACTATTTTTTTACTTGT
1 TTTATACTATTTTTTTACTTGT
*
131740913 TTTATACTCTTTTTTTACTTGT
1 TTTATACTATTTTTTTACTTGT
131740935 TTT
1 TTT
131740938 TTTAACAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.15, C:0.11, G:0.04, T:0.70
Consensus pattern (22 bp):
TTTATACTATTTTTTTACTTGT
Found at i:131742590 original size:9 final size:9
Alignment explanation
Indices: 131742566--131742602 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
131742556 TTTTCAAAAG
131742566 TAATTTTTA
1 TAATTTTTA
131742575 T--TTTTTA
1 TAATTTTTA
131742582 TAATTTTTA
1 TAATTTTTA
131742591 TAA-TTTTA
1 TAATTTTTA
131742599 TAAT
1 TAAT
131742603 ATCTGAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
7 7 0.28
8 8 0.32
9 10 0.40
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TAATTTTTA
Found at i:131742597 original size:17 final size:16
Alignment explanation
Indices: 131742566--131742602 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
131742556 TTTTCAAAAG
*
131742566 TAATTTTTATTTTTTA
1 TAATTTTTATATTTTA
131742582 TAATTTTTATAATTTTA
1 TAATTTTTAT-ATTTTA
131742599 TAAT
1 TAAT
131742603 ATCTGAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TAATTTTTATATTTTA
Found at i:131742757 original size:23 final size:25
Alignment explanation
Indices: 131742731--131742786 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 25
131742721 TAAACTTGAC
131742731 AATTTTTC-T-TAATTTGATACTTA
1 AATTTTTCGTCTAATTTGATACTTA
131742754 AATTTTTTTCGGTCTAATTTGATACTTA
1 AA--TTTTTC-GTCTAATTTGATACTTA
131742782 AATTT
1 AATTT
131742787 GACACTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
23 2 0.07
25 6 0.21
26 3 0.11
27 1 0.04
28 16 0.57
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.55
Consensus pattern (25 bp):
AATTTTTCGTCTAATTTGATACTTA
Found at i:131742796 original size:59 final size:59
Alignment explanation
Indices: 131742711--131742865 Score: 150
Period size: 60 Copynumber: 2.6 Consensus size: 59
131742701 TTAATATAAT
** * * ** *
131742711 ATTTAGTTTTTAAACTTGACAATTTTTCTTAATTTGATACTTAAATTTTTTTCGGTCTA
1 ATTTAGTACTTAAACTTGACACTTTTTCTTAATTTGATACTTAAACTTTTTGAGGTCCA
* * * *
131742770 ATTT-GATACTTAAATTTGACACTTTTTTTTTAAATTGGTACTTAAACTTTTTGAGGTCCA
1 ATTTAG-TACTTAAACTTGACAC-TTTTTCTTAATTTGATACTTAAACTTTTTGAGGTCCA
* * * *
131742830 ATTTAGTACTTGAACTCGACTCTTTTCCTTAATTTG
1 ATTTAGTACTTAAACTTGACACTTTTTCTTAATTTG
131742866 GTACCTAATA
Statistics
Matches: 75, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
58 1 0.01
59 27 0.36
60 46 0.61
61 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.10, T:0.50
Consensus pattern (59 bp):
ATTTAGTACTTAAACTTGACACTTTTTCTTAATTTGATACTTAAACTTTTTGAGGTCCA
Found at i:131743161 original size:26 final size:26
Alignment explanation
Indices: 131743075--131743161 Score: 77
Period size: 26 Copynumber: 3.2 Consensus size: 26
131743065 ACTTGGGTCC
* *
131743075 AAAAAAAATTTAGATACCAAATTAGG
1 AAAAAAAAATTAGGTACCAAATTAGG
* *
131743101 AAAAAATATCAAGTTCAGGTA-CTAATTTGG
1 AAAAAA-A--AA-TT-AGGTACCAAATTAGG
*
131743131 TAAAAAAAATTAGGTACCAAATTAGG
1 AAAAAAAAATTAGGTACCAAATTAGG
131743157 AAAAA
1 AAAAA
131743162 GTGTCAAGTT
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
25 5 0.11
26 19 0.40
27 3 0.06
29 2 0.04
30 14 0.30
31 4 0.09
ACGTcount: A:0.54, C:0.08, G:0.14, T:0.24
Consensus pattern (26 bp):
AAAAAAAAATTAGGTACCAAATTAGG
Found at i:131743169 original size:56 final size:58
Alignment explanation
Indices: 131743014--131743171 Score: 196
Period size: 60 Copynumber: 2.7 Consensus size: 58
131743004 ATTGAATCTA
* *
131743014 AAAAAAAAGCTTAGGTACCAAATTAGGAAAATATGCCAAGTTCATGTACTAACTTGGGTCC
1 AAAAAAAA-CTTAGGTACCAAATTAGGAAAA-ATGTCAAGTTCAGGTACTAACTTGGGT-C
* * * *
131743075 AAAAAAAATTTAGATACCAAATTAGGAAAAAATATCAAGTTCAGGTACTAA-TTTGGT-
1 AAAAAAAACTTAGGTACCAAATTAGG-AAAAATGTCAAGTTCAGGTACTAACTTGGGTC
131743132 AAAAAAAA-TTAGGTACCAAATTAGGAAAAAGTGTCAAGTT
1 AAAAAAAACTTAGGTACCAAATTAGGAAAAA-TGTCAAGTT
131743172 TAAGTACCAA
Statistics
Matches: 87, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
55 5 0.06
56 24 0.28
57 8 0.09
59 5 0.06
60 33 0.38
61 12 0.14
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.25
Consensus pattern (58 bp):
AAAAAAAACTTAGGTACCAAATTAGGAAAAATGTCAAGTTCAGGTACTAACTTGGGTC
Found at i:131747753 original size:14 final size:14
Alignment explanation
Indices: 131747736--131747766 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
131747726 CTTGTCCACA
131747736 AAACTGCTCTACTG
1 AAACTGCTCTACTG
131747750 AAACTGCTCTACTG
1 AAACTGCTCTACTG
131747764 AAA
1 AAA
131747767 GAATCATGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (14 bp):
AAACTGCTCTACTG
Found at i:131757885 original size:6 final size:6
Alignment explanation
Indices: 131757870--131757906 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
131757860 AAGCAGTGGG
* *
131757870 ATTCCA ATTCCT ATTCCT ATTCCT ATTCCC ATTCCT A
1 ATTCCT ATTCCT ATTCCT ATTCCT ATTCCT ATTCCT A
131757907 ACCAAGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.22, C:0.35, G:0.00, T:0.43
Consensus pattern (6 bp):
ATTCCT
Found at i:131767038 original size:28 final size:27
Alignment explanation
Indices: 131767007--131767104 Score: 90
Period size: 28 Copynumber: 3.6 Consensus size: 27
131766997 TCGATATTTT
*
131767007 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCT-AATATCTC
*
131767035 GCACACTAAGTGCCATTCTAATATTTC
1 GCACACTAAGTGCCATTCTAATATCTC
* * * * * *
131767062 GTACACTGAGTACCATATTTGAT-TGCCC
1 GCACACTAAGTGCCAT-TCTAATAT-CTC
131767090 GCACACTAAGTGCCA
1 GCACACTAAGTGCCA
131767105 CATTTTGTCG
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
27 21 0.38
28 35 0.62
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.30
Consensus pattern (27 bp):
GCACACTAAGTGCCATTCTAATATCTC
Found at i:131767067 original size:27 final size:28
Alignment explanation
Indices: 131767000--131767077 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
131766990 GAATCATTCG
* *
131767000 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
131767028 ATATCTCGCACACTAAGTGCCATTCT-A
1 ATATTTCGCACACTAAGTGCCATTCTCA
* * *
131767055 ATATTTCGTACACTGAGTACCAT
1 ATATTTCGCACACTAAGTGCCAT
131767078 ATTTGATTGC
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 20 0.47
28 23 0.53
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:131771680 original size:11 final size:11
Alignment explanation
Indices: 131771664--131771723 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
131771654 GTAACATTAA
131771664 AAAATATATAT
1 AAAATATATAT
131771675 AAAATATATATT
1 AAAATATATA-T
*
131771687 AAAAGACTTATAT
1 AAAATA--TATAT
* *
131771700 ATAACATATAT
1 AAAATATATAT
131771711 GAAAA-ATATAT
1 -AAAATATATAT
131771722 AA
1 AA
131771724 TATTAAACAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
10 2 0.05
11 21 0.51
12 9 0.22
13 5 0.12
14 4 0.10
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (11 bp):
AAAATATATAT
Found at i:131771726 original size:25 final size:24
Alignment explanation
Indices: 131771663--131771722 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
131771653 AGTAACATTA
* * *
131771663 AAAAATATATATAAAATATATATT
1 AAAAATATATATATAACATATATG
131771687 AAAAGACT-TATATATAACATATATG
1 AAAA-A-TATATATATAACATATATG
131771712 AAAAATATATA
1 AAAAATATATA
131771723 ATATTAAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
23 1 0.03
24 9 0.30
25 19 0.63
26 1 0.03
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (24 bp):
AAAAATATATATATAACATATATG
Found at i:131772454 original size:12 final size:14
Alignment explanation
Indices: 131772418--131772445 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
131772408 AAAAGAGAGA
131772418 AAAGGAGAGGGGAG
1 AAAGGAGAGGGGAG
131772432 AAAGGAGAGGGGAG
1 AAAGGAGAGGGGAG
131772446 GAGAGAGGGC
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:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (14 bp):
AAAGGAGAGGGGAG
Done.