Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001279.1 Hibiscus syriacus cultivar Beakdansim tig00002511_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 6984689
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 28 of 29
Found at i:6510591 original size:103 final size:103
Alignment explanation
Indices: 6510471--6510685 Score: 376
Period size: 103 Copynumber: 2.1 Consensus size: 103
6510461 TGTCCATAAA
6510471 GACCACATATCATTCCTTAAGAATAATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATAATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGAC
* *
6510536 CTCACACATGTTCTAAAGAATACATATATGTCCCGAAT
66 CTCACACATGTTCCAAAGAATACATATATGTCCCGAAG
* * *
6510574 GACCACATATCATTCCTTAATAATCATATATATATGCCAAGGATCAAGTATGTGTCTCACCAGAC
1 GACCACATATCATTCCTTAAGAATAATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGAC
*
6510639 TTCACACATGTTCCAAAGAATACATATATGTCCCGAAG
66 CTCACACATGTTCCAAAGAATACATATATGTCCCGAAG
6510677 GACCACATA
1 GACCACATA
6510686 GACCCTCTAC
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 106 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.27
Consensus pattern (103 bp):
GACCACATATCATTCCTTAAGAATAATATACATATGCCAAGGATCAAGTATGTGTCTCACCAGAC
CTCACACATGTTCCAAAGAATACATATATGTCCCGAAG
Found at i:6511251 original size:21 final size:21
Alignment explanation
Indices: 6511227--6511269 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
6511217 TCATATTCGT
*
6511227 TTGAGGGGGGATCGATTCCCC
1 TTGAAGGGGGATCGATTCCCC
* *
6511248 TTGAATGGGTATCGATTCCCC
1 TTGAAGGGGGATCGATTCCCC
6511269 T
1 T
6511270 AGCCCAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.16, C:0.23, G:0.30, T:0.30
Consensus pattern (21 bp):
TTGAAGGGGGATCGATTCCCC
Found at i:6517355 original size:23 final size:22
Alignment explanation
Indices: 6517329--6517392 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 22
6517319 CAGCTCATAT
6517329 AATTGCACCTAAGTGCCACGTAG
1 AATTGCACCT-AGTGCCACGTAG
*
6517352 AATTGCACCGTAGTGCCGCGTAG
1 AATTGCACC-TAGTGCCACGTAG
6517375 AATTGCACCTTAGTGCCA
1 AATTGCACC-TAGTGCCA
6517393 TATAATAATG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 36 0.97
24 1 0.03
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (22 bp):
AATTGCACCTAGTGCCACGTAG
Found at i:6517533 original size:103 final size:103
Alignment explanation
Indices: 6517408--6517625 Score: 409
Period size: 103 Copynumber: 2.1 Consensus size: 103
6517398 TAATGTCCAT
6517408 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
6517473 GACCTCACACTTGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
6517511 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
*
6517576 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
*
6517614 AATGACCACATA
1 AAGGACCACATA
6517626 GACCCTCTAC
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 112 1.00
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACCTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:6521442 original size:34 final size:35
Alignment explanation
Indices: 6521399--6521465 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
6521389 AACTTTAAGA
*
6521399 AATAACTCAATAAAAA-ATACGTAATATTTTTTAT
1 AATAACTCAATAAAAATATACATAATATTTTTTAT
6521433 AATAACTCAATAAAAATATACATAATATTTTTT
1 AATAACTCAATAAAAATATACATAATATTTTTT
6521466 TATTAAGATA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 16 0.52
35 15 0.48
ACGTcount: A:0.51, C:0.09, G:0.01, T:0.39
Consensus pattern (35 bp):
AATAACTCAATAAAAATATACATAATATTTTTTAT
Found at i:6523754 original size:16 final size:18
Alignment explanation
Indices: 6523715--6523752 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
6523705 TGTTTGGTTA
*
6523715 TTTTAATTCTTAATTTTT
1 TTTTAATTCTCAATTTTT
6523733 TTTTAATT-TCAATTTTT
1 TTTTAATTCTCAATTTTT
6523750 TTT
1 TTT
6523753 AAAAATTGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTAATTCTCAATTTTT
Found at i:6526277 original size:24 final size:23
Alignment explanation
Indices: 6526239--6526349 Score: 91
Period size: 24 Copynumber: 4.8 Consensus size: 23
6526229 ATAATTTGCA
6526239 CCGAAGTG-CCACGTAGAATTTGTC
1 CCGAAG-GACCACGTAGAA-TTGTC
* *
6526263 CCGAAGGATCGCGTAGAATTTGTC
1 CCGAAGGACCACGTAGAA-TTGTC
* * * *
6526287 CCTAAGGACCACGTAGGAGTATC
1 CCGAAGGACCACGTAGAATTGTC
* *
6526310 CCGAAGGATCACATAG-ATTGTC
1 CCGAAGGACCACGTAGAATTGTC
* *
6526332 CCAAAGGACCGCGTAGAA
1 CCGAAGGACCACGTAGAA
6526350 CCCTCGACTC
Statistics
Matches: 68, Mismatches: 17, Indels: 5
0.76 0.19 0.06
Matches are distributed among these distances:
22 16 0.24
23 18 0.26
24 34 0.50
ACGTcount: A:0.30, C:0.24, G:0.26, T:0.20
Consensus pattern (23 bp):
CCGAAGGACCACGTAGAATTGTC
Found at i:6526917 original size:22 final size:22
Alignment explanation
Indices: 6526884--6526939 Score: 87
Period size: 22 Copynumber: 2.5 Consensus size: 22
6526874 TCAACATATT
6526884 GATA-CTTCCCTTGGTTGGTATC
1 GATACCTT-CCTTGGTTGGTATC
6526906 GATACCTTCCTTGGTTGGTATC
1 GATACCTTCCTTGGTTGGTATC
*
6526928 GATACCTCCCTT
1 GATACCTTCCTT
6526940 TGGTATCGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 29 0.91
23 3 0.09
ACGTcount: A:0.14, C:0.27, G:0.20, T:0.39
Consensus pattern (22 bp):
GATACCTTCCTTGGTTGGTATC
Found at i:6530144 original size:131 final size:131
Alignment explanation
Indices: 6529896--6530264 Score: 388
Period size: 131 Copynumber: 2.8 Consensus size: 131
6529886 TTGATATTGT
* ** * ***
6529896 GAAA-AGTAATATCTTTTCATTTCAATCT-GAGTGATAAATGACTGCTTTAAGGTATTTGAGGTC
1 GAAATAGTAATATCTCTTCATTTCAAT-TGGAGCAATAAATGACTGCTTTAATGTAAGAGAGGTC
* * * * * * * *
6529959 ATTTATTCTCAATTGGAATTAGTTTGATATTGT-TGTTATCTCTCGAATTAATATTG-ATTCTTA
65 ATTTATTCTCGATTGGAAATAATTAGATATTATCT-TTTTCACTCGAATCAATATTGAATT-TTA
* *
6530022 GGAT
128 AGAC
* **
6530026 GAAATAGTGATATCTCTTCATTTTGATTGGAGCAATAAATGACTGCTTTAATGTAAGAGAGGTCA
1 GAAATAGTAATATCTCTTCATTTCAATTGGAGCAATAAATGACTGCTTTAATGTAAGAGAGGTCA
* *
6530091 TTTATTCTCGATTGGAAATCATTAGATATTATCTTTTTCACTCGAATCGATATTGAATTTTAAGA
66 TTTATTCTCGATTGGAAATAATTAGATATTATCTTTTTCACTCGAATCAATATTGAATTTTAAGA
6530156 C
131 C
* * * * * * * *
6530157 GAAATAGTAATATCTTTTTATTTCAATTGGGGTAATAAATGAATG-TTTCAATGCACGAAAGGTC
1 GAAATAGTAATATCTCTTCATTTCAATTGGAGCAATAAATGACTGCTTT-AATGTAAGAGAGGTC
*
6530221 ATTTATTCTCGATTGGAAATAATTAGATATTATCGTTTTCACTC
65 ATTTATTCTCGATTGGAAATAATTAGATATTATCTTTTTCACTC
6530265 TTAAAATTAT
Statistics
Matches: 199, Mismatches: 35, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
130 8 0.04
131 187 0.94
132 4 0.02
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (131 bp):
GAAATAGTAATATCTCTTCATTTCAATTGGAGCAATAAATGACTGCTTTAATGTAAGAGAGGTCA
TTTATTCTCGATTGGAAATAATTAGATATTATCTTTTTCACTCGAATCAATATTGAATTTTAAGA
C
Found at i:6541440 original size:18 final size:19
Alignment explanation
Indices: 6541405--6541441 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
6541395 TCTTCATGAG
6541405 GTATCGATACCGAAGGGTA
1 GTATCGATACCGAAGGGTA
6541424 GTATCGATACC-AAGGGTA
1 GTATCGATACCGAAGGGTA
6541442 CCGATACCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (19 bp):
GTATCGATACCGAAGGGTA
Found at i:6542178 original size:21 final size:21
Alignment explanation
Indices: 6542154--6542231 Score: 81
Period size: 21 Copynumber: 3.8 Consensus size: 21
6542144 GTTCTTCGGG
*
6542154 ACATATATGTGATCCTTTGGA
1 ACATATATGTGGTCCTTTGGA
*
6542175 ACATATATGAGGTCCTTTTTGG-
1 ACATATATGTGGTCC--TTTGGA
* *
6542197 ACAGATATTTGGTCCTTTGGA
1 ACATATATGTGGTCCTTTGGA
6542218 AC--ATATGTGGTCCT
1 ACATATATGTGGTCCT
6542232 ATGATTCTAC
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 11 0.23
20 5 0.10
21 15 0.31
22 12 0.25
23 5 0.10
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.38
Consensus pattern (21 bp):
ACATATATGTGGTCCTTTGGA
Found at i:6542228 original size:19 final size:19
Alignment explanation
Indices: 6542158--6542231 Score: 67
Period size: 19 Copynumber: 3.6 Consensus size: 19
6542148 TTCGGGACAT
*
6542158 ATATGTGATCCTTTGGAAC
1 ATATGTGGTCCTTTGGAAC
* *
6542177 ATATATGAGGTCCTTTTTGGACAG
1 --ATATGTGGTCC--TTTGGA-AC
*
6542201 ATATTTGGTCCTTTGGAAC
1 ATATGTGGTCCTTTGGAAC
6542220 ATATGTGGTCCT
1 ATATGTGGTCCT
6542232 ATGATTCTAC
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
19 12 0.28
20 6 0.14
21 9 0.21
22 9 0.21
23 6 0.14
24 1 0.02
ACGTcount: A:0.23, C:0.15, G:0.23, T:0.39
Consensus pattern (19 bp):
ATATGTGGTCCTTTGGAAC
Found at i:6542278 original size:21 final size:21
Alignment explanation
Indices: 6542242--6542287 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
6542232 ATGATTCTAC
*
6542242 GTGGTCCTTCAGACATATT-T
1 GTGGTCATTCAGACATATTAT
*
6542262 GTGGTCATTCAAGACATTTTAT
1 GTGGTCATTC-AGACATATTAT
6542284 GTGG
1 GTGG
6542288 CACTTCGATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.41
21 8 0.36
22 5 0.23
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.39
Consensus pattern (21 bp):
GTGGTCATTCAGACATATTAT
Found at i:6542312 original size:23 final size:22
Alignment explanation
Indices: 6542276--6542328 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
6542266 TCATTCAAGA
*
6542276 CATTTTATGTGGCACTTC-GATG
1 CATTTTATGCGGCACTTCAG-TG
6542298 CATTTCTATGCGGCACTTCAGTG
1 CATTT-TATGCGGCACTTCAGTG
6542321 CATTTTAT
1 CATTTTAT
6542329 ACAAGTTATG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 8 0.29
23 19 0.68
24 1 0.04
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.42
Consensus pattern (22 bp):
CATTTTATGCGGCACTTCAGTG
Found at i:6546523 original size:29 final size:29
Alignment explanation
Indices: 6546480--6546562 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
6546470 CTCACCTAAC
6546480 TAAATTGATGTAAGCAATGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTACT
*
6546510 TAAATGATGTAAGCAATGACATCTTTACT
1 TAAATGATGTAAGCAATGACATCATTACT
*
6546539 TAAATAATGTAAGCAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
6546563 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTACT
Found at i:6551286 original size:29 final size:29
Alignment explanation
Indices: 6551243--6551325 Score: 148
Period size: 29 Copynumber: 2.8 Consensus size: 29
6551233 CTCACCTAAC
6551243 TAAATTGATGTAAGCAATGACATCATTACT
1 TAAA-TGATGTAAGCAATGACATCATTACT
*
6551273 TAAATGATGTAAGCAATGACATCTTTACT
1 TAAATGATGTAAGCAATGACATCATTACT
6551302 TAAATGATGTAAGCAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
6551326 ATTTAGTTTG
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 47 0.92
30 4 0.08
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.31
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTACT
Found at i:6556172 original size:14 final size:14
Alignment explanation
Indices: 6556153--6556185 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
6556143 AAAAATATTA
6556153 ATATTTTTAATAAT
1 ATATTTTTAATAAT
6556167 ATATTTTTAATAAT
1 ATATTTTTAATAAT
6556181 ATATT
1 ATATT
6556186 AAGACTGTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATATTTTTAATAAT
Found at i:6556776 original size:18 final size:18
Alignment explanation
Indices: 6556749--6556785 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6556739 AAAATCGTTC
*
6556749 TTTAAAAGTATAATAAAT
1 TTTAAAAGTAAAATAAAT
*
6556767 TTTAATAGTAAAATAAAT
1 TTTAAAAGTAAAATAAAT
6556785 T
1 T
6556786 ATTCAAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (18 bp):
TTTAAAAGTAAAATAAAT
Found at i:6560239 original size:12 final size:10
Alignment explanation
Indices: 6560198--6560238 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
6560188 TTTATCACAC
6560198 CAAATTCTCT
1 CAAATTCTCT
6560208 CAAATTCTCT
1 CAAATTCTCT
6560218 -AAATTTCTCT
1 CAAA-TTCTCT
*
6560228 CAAATACTCT
1 CAAATTCTCT
6560238 C
1 C
6560239 TTTTTAAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 3 0.11
10 22 0.79
11 3 0.11
ACGTcount: A:0.32, C:0.29, G:0.00, T:0.39
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:6560488 original size:110 final size:111
Alignment explanation
Indices: 6560348--6560568 Score: 363
Period size: 110 Copynumber: 2.0 Consensus size: 111
6560338 TGGAAATCAT
* *
6560348 ATATCTCTACACTTTGCTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTACTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
* * * * *
6560413 TATTTAGTT-ATTTATTTAATGCATGATTATTATATTAATAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATCATTAGATTAAGAATTAA
*
6560458 ATATCTCGACACTTTACTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTATTAA
1 ATATCTCGACACTTTACTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
6560523 TAATTAGTTGATTCATTTAATGCATGATCATTAGATTAAGAATTAA
66 TAATTAGTTGATTCATTTAATGCATGATCATTAGATTAAGAATTAA
6560569 TTTTTGTAAT
Statistics
Matches: 102, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
110 70 0.69
111 32 0.31
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.46
Consensus pattern (111 bp):
ATATCTCGACACTTTACTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTCATTTAATGCATGATCATTAGATTAAGAATTAA
Found at i:6562102 original size:18 final size:18
Alignment explanation
Indices: 6562079--6562115 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
6562069 CCAGCAGCCA
6562079 CCGCAGCCATATATGATG
1 CCGCAGCCATATATGATG
6562097 CCGCAGCCATATATGATG
1 CCGCAGCCATATATGATG
6562115 C
1 C
6562116 TGTCATCGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (18 bp):
CCGCAGCCATATATGATG
Found at i:6566352 original size:49 final size:51
Alignment explanation
Indices: 6566228--6566340 Score: 176
Period size: 51 Copynumber: 2.3 Consensus size: 51
6566218 AGTTATACAA
*
6566228 AACGCGGTACCTGCCCCGCGCTATATAAAATTATGTCAGGAGTAAAGGTAT
1 AACGCGGTACCTGCCCCGCGCTATATAAAATTATGTCAGGAGTAAAGGAAT
**
6566279 GTCGCGGTACCTGCCCCGCGCTATATAAAATTAT-T-AGGAGTAAAGGAAT
1 AACGCGGTACCTGCCCCGCGCTATATAAAATTATGTCAGGAGTAAAGGAAT
*
6566328 AACGCGATACCTG
1 AACGCGGTACCTG
6566341 ATCCACGCTA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
49 23 0.41
50 1 0.02
51 32 0.57
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (51 bp):
AACGCGGTACCTGCCCCGCGCTATATAAAATTATGTCAGGAGTAAAGGAAT
Found at i:6566439 original size:50 final size:50
Alignment explanation
Indices: 6566364--6566491 Score: 168
Period size: 51 Copynumber: 2.5 Consensus size: 50
6566354 CCCTACGTGG
* * **
6566364 CGTATAGCGCGCTGCAGGGGCCGCGCTATA-CCCACGTGGCGCCAGCTCAC
1 CGTATAGCGCGGTGCAGGGG-CGCGCTATACCCCACGTAGCGCCAAATCAC
* *
6566414 CGTATAGCACGGTGCATGGGGCGCGCTATACCCCACGTAGCGCCAAATCAT
1 CGTATAGCGCGGTGCA-GGGGCGCGCTATACCCCACGTAGCGCCAAATCAC
6566465 CGTATAGCGCGGTGCAGGGGGCGCGCT
1 CGTATAGCGCGGTGCA-GGGGCGCGCT
6566492 TTACTTCTAA
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
50 23 0.34
51 45 0.66
ACGTcount: A:0.18, C:0.33, G:0.34, T:0.16
Consensus pattern (50 bp):
CGTATAGCGCGGTGCAGGGGCGCGCTATACCCCACGTAGCGCCAAATCAC
Found at i:6578668 original size:22 final size:21
Alignment explanation
Indices: 6578644--6578683 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
6578634 GAGAAATTGT
6578644 TTTTAAAATAT-AAAAATGATA
1 TTTTAAAAT-TGAAAAATGATA
6578665 TTTTAAAATTGAAAAATGA
1 TTTTAAAATTGAAAAATGA
6578684 AAATAATCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (21 bp):
TTTTAAAATTGAAAAATGATA
Found at i:6582494 original size:23 final size:23
Alignment explanation
Indices: 6582466--6582547 Score: 73
Period size: 23 Copynumber: 3.7 Consensus size: 23
6582456 TTGGTGCAGA
6582466 GGGAATCAATACCCCAC-TTGAAG
1 GGGAATCAATACCCC-CTTTGAAG
* *
6582489 GGGAATCGATTCCCCCTTTGAAG
1 GGGAATCAATACCCCCTTTGAAG
* *
6582512 GGGAA-CGAATTCCCCCTAT--AG
1 GGGAATC-AATACCCCCTTTGAAG
*
6582533 GGGAATCGATACCCC
1 GGGAATCAATACCCC
6582548 TGGGGGTTCT
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
21 13 0.26
22 3 0.06
23 34 0.68
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (23 bp):
GGGAATCAATACCCCCTTTGAAG
Found at i:6583812 original size:22 final size:21
Alignment explanation
Indices: 6583777--6583838 Score: 67
Period size: 18 Copynumber: 3.0 Consensus size: 21
6583767 ACTGAATATT
*
6583777 TGTCCCAAAGGACCACTGTATA
1 TGTCCCGAAGGACCA-TGTATA
*
6583799 TGTCCCGAATGACCA---ATA
1 TGTCCCGAAGGACCATGTATA
6583817 TGTCCCGAAGGACCATTGTATA
1 TGTCCCGAAGGACCA-TGTATA
6583839 ACCCTCGACT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
18 17 0.52
22 16 0.48
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (21 bp):
TGTCCCGAAGGACCATGTATA
Found at i:6594068 original size:21 final size:21
Alignment explanation
Indices: 6594042--6594098 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
6594032 CATATGAAAT
*
6594042 TTGTCCCGAAGGACCACTGTA
1 TTGTCCCGAAAGACCACTGTA
6594063 TTGTCCCGAAAGACCACTGTA
1 TTGTCCCGAAAGACCACTGTA
* *
6594084 TTATCCCGAATGACC
1 TTGTCCCGAAAGACC
6594099 TATGAAACCC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.25
Consensus pattern (21 bp):
TTGTCCCGAAAGACCACTGTA
Found at i:6595257 original size:12 final size:12
Alignment explanation
Indices: 6595240--6595265 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6595230 AGATGACAAG
6595240 TAAAATTCAACT
1 TAAAATTCAACT
6595252 TAAAATTCAACT
1 TAAAATTCAACT
6595264 TA
1 TA
6595266 TCAACTCTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.15, G:0.00, T:0.35
Consensus pattern (12 bp):
TAAAATTCAACT
Found at i:6597551 original size:2 final size:2
Alignment explanation
Indices: 6597544--6597631 Score: 158
Period size: 2 Copynumber: 44.0 Consensus size: 2
6597534 ATCCAAATTA
* *
6597544 AT AT AT AT AT GT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6597586 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6597628 AT AT
1 AT AT
6597632 TGATTAAGTT
Statistics
Matches: 84, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 84 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6597890 original size:25 final size:25
Alignment explanation
Indices: 6597862--6597915 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
6597852 TATGTTATAA
*
6597862 ATTATTT-TATAATTAATATATAAAT
1 ATTATTTATATAA-TAAAATATAAAT
* *
6597887 ATTATTTATATCATAAAATATTAAT
1 ATTATTTATATAATAAAATATAAAT
6597912 ATTA
1 ATTA
6597916 ATATCAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 21 0.84
26 4 0.16
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (25 bp):
ATTATTTATATAATAAAATATAAAT
Found at i:6597919 original size:22 final size:20
Alignment explanation
Indices: 6597868--6597921 Score: 60
Period size: 19 Copynumber: 2.7 Consensus size: 20
6597858 ATAAATTATT
6597868 TTATAATTAATAT-ATAAATA
1 TTAT-ATTAATATCATAAATA
6597888 TTAT-TT-ATATCATAAAATA
1 TTATATTAATATCAT-AAATA
6597907 TTAATATTAATATCA
1 TT-ATATTAATATCA
6597922 ATATTTTATA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
17 4 0.14
18 4 0.14
19 7 0.24
20 6 0.21
21 2 0.07
22 6 0.21
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (20 bp):
TTATATTAATATCATAAATA
Found at i:6598297 original size:72 final size:72
Alignment explanation
Indices: 6598180--6598313 Score: 223
Period size: 72 Copynumber: 1.9 Consensus size: 72
6598170 ACATATCATC
6598180 TTATTGATCGAATAAAACAATTAAAAATATTATAACGTGAAAATTAAAAATAATAATAATAAATA
1 TTATTGATCGAATAAAACAATTAAAAATATTATAACGTGAAAATTAAAAATAATAATAATAAATA
6598245 GGGTAAA
66 GGGTAAA
* * ** *
6598252 TTATTGGTCGAATGAAACAATTAAAAATATTATATTGTGAAAATTAATAATAATAATAATAA
1 TTATTGATCGAATAAAACAATTAAAAATATTATAACGTGAAAATTAAAAATAATAATAATAA
6598314 TAATAATAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 57 1.00
ACGTcount: A:0.54, C:0.04, G:0.10, T:0.32
Consensus pattern (72 bp):
TTATTGATCGAATAAAACAATTAAAAATATTATAACGTGAAAATTAAAAATAATAATAATAAATA
GGGTAAA
Found at i:6598304 original size:3 final size:3
Alignment explanation
Indices: 6598296--6598331 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
6598286 TTGTGAAAAT
6598296 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
6598332 ATAGGATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:6607084 original size:186 final size:186
Alignment explanation
Indices: 6606843--6607204 Score: 661
Period size: 186 Copynumber: 1.9 Consensus size: 186
6606833 TTTATAATTA
*
6606843 AAAAACAGTTTATAATTAATTTAAATAATATATAATTATAAAATAAAAATTTTATATAAATTTTT
1 AAAAACAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTTATATAAATTTTT
6606908 TAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATATTAAATTATTAATTGGGTTTTAAA
66 TAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATATTAAATTATTAATTGGGTTTTAAA
*
6606973 TTGTTTGGACTGAGCCCATATGTTATATATAATATATTTAATATTTTTTAATTCTG
131 TGGTTTGGACTGAGCCCATATGTTATATATAATATATTTAATATTTTTTAATTCTG
*
6607029 AAAAATAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTTATATAAATTTTT
1 AAAAACAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTTATATAAATTTTT
*
6607094 TAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTAATTGGGTTTTAAA
66 TAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATATTAAATTATTAATTGGGTTTTAAA
** *
6607159 TGGTTTGGGTTGAGCTCATATGTTATATATAATATATTTAATATTT
131 TGGTTTGGACTGAGCCCATATGTTATATATAATATATTTAATATTT
6607205 AAAATTTTAA
Statistics
Matches: 169, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
186 169 1.00
ACGTcount: A:0.41, C:0.03, G:0.10, T:0.47
Consensus pattern (186 bp):
AAAAACAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAATTTTATATAAATTTTT
TAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATATTAAATTATTAATTGGGTTTTAAA
TGGTTTGGACTGAGCCCATATGTTATATATAATATATTTAATATTTTTTAATTCTG
Found at i:6614073 original size:35 final size:34
Alignment explanation
Indices: 6613988--6614074 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
6613978 AATATAATTT
*
6613988 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGG
* *
6614022 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--G-TATTAAATGG
6614060 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
6614075 ACTGAAATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 4 0.09
38 11 0.24
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGG
Found at i:6614315 original size:3 final size:3
Alignment explanation
Indices: 6614309--6614346 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
6614299 ACCATTGTTA
*
6614309 TCG TCG TCG TCG TCG TCA TCG TCG TCG TCG TCG TCG TC
1 TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TCG TC
6614347 CTGAGTAGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.03, C:0.34, G:0.29, T:0.34
Consensus pattern (3 bp):
TCG
Found at i:6616428 original size:18 final size:17
Alignment explanation
Indices: 6616400--6616436 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
6616390 TTATATTAGT
6616400 AAATATTAAATAAAGTA
1 AAATATTAAATAAAGTA
*
6616417 AAATACTTAAATAAATTA
1 AAATA-TTAAATAAAGTA
6616435 AA
1 AA
6616437 TACATAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (17 bp):
AAATATTAAATAAAGTA
Found at i:6616437 original size:17 final size:18
Alignment explanation
Indices: 6616399--6616439 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
6616389 ATTATATTAG
6616399 TAAATA-TTAAATAAAGT
1 TAAATACTTAAATAAAGT
*
6616416 AAAATACTTAAATAAA-T
1 TAAATACTTAAATAAAGT
6616433 TAAATAC
1 TAAATAC
6616440 ATAATATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (18 bp):
TAAATACTTAAATAAAGT
Found at i:6616496 original size:10 final size:10
Alignment explanation
Indices: 6616477--6616507 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
6616467 CTTAAACAGA
*
6616477 GAGAGTATTT
1 GAGAGAATTT
6616487 GAGAGAATTT
1 GAGAGAATTT
6616497 GAGAGAATTT
1 GAGAGAATTT
6616507 G
1 G
6616508 GTGTGATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:6620125 original size:26 final size:26
Alignment explanation
Indices: 6620094--6620143 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
6620084 ATTCCCCATA
*
6620094 TTCTTTTTATTCACTTTTCTTCTTCT
1 TTCTTTCTATTCACTTTTCTTCTTCT
*
6620120 TTCTTTCTCTTCACTTTTCTTCTT
1 TTCTTTCTATTCACTTTTCTTCTT
6620144 TTCTTCTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.06, C:0.26, G:0.00, T:0.68
Consensus pattern (26 bp):
TTCTTTCTATTCACTTTTCTTCTTCT
Found at i:6620156 original size:23 final size:25
Alignment explanation
Indices: 6620094--6620156 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 25
6620084 ATTCCCCATA
*
6620094 TTCTTTTTATTCACTTTTCTTCTTCT
1 TTCTTCTTA-TCACTTTTCTTCTTCT
6620120 TTCTTTCTCT-TCACTTTTCTTC-T-T
1 TTC-TTCT-TATCACTTTTCTTCTTCT
6620144 TTCTTCTTATCAC
1 TTCTTCTTATCAC
6620157 ACACGTTGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
22 1 0.03
23 8 0.24
24 4 0.12
25 1 0.03
26 15 0.45
27 3 0.09
28 1 0.03
ACGTcount: A:0.08, C:0.27, G:0.00, T:0.65
Consensus pattern (25 bp):
TTCTTCTTATCACTTTTCTTCTTCT
Found at i:6623117 original size:17 final size:17
Alignment explanation
Indices: 6623095--6623130 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
6623085 TCACATGCAC
6623095 TCTCGTTTGGTTTTTGT
1 TCTCGTTTGGTTTTTGT
6623112 TCTCGTTTGGTTTTTGT
1 TCTCGTTTGGTTTTTGT
6623129 TC
1 TC
6623131 ATCAGTCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.00, C:0.14, G:0.22, T:0.64
Consensus pattern (17 bp):
TCTCGTTTGGTTTTTGT
Found at i:6624501 original size:35 final size:35
Alignment explanation
Indices: 6624442--6624509 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
6624432 TCAAAACTCC
*
6624442 AAAACACTTCAATTATATTCTAAACCCCAAATTCT
1 AAAACACTTAAATTATATTCTAAACCCCAAATTCT
* * *
6624477 AAAATACTTAAATTATATTTTAAACCCTAAATT
1 AAAACACTTAAATTATATTCTAAACCCCAAATT
6624510 GAAGTATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (35 bp):
AAAACACTTAAATTATATTCTAAACCCCAAATTCT
Found at i:6624546 original size:35 final size:35
Alignment explanation
Indices: 6624505--6624579 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
6624495 TTTAAACCCT
6624505 AAATTGAAGTATTTTAGAATTTAGGGTTTAAAATG
1 AAATTGAAGTATTTTAGAATTTAGGGTTTAAAATG
* * * * *
6624540 TAATTGAATTATTTTGGAATTTGGGGTTTAGAATG
1 AAATTGAAGTATTTTAGAATTTAGGGTTTAAAATG
6624575 AAATT
1 AAATT
6624580 AAGGATTATG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.43
Consensus pattern (35 bp):
AAATTGAAGTATTTTAGAATTTAGGGTTTAAAATG
Found at i:6625394 original size:118 final size:116
Alignment explanation
Indices: 6625060--6625407 Score: 385
Period size: 123 Copynumber: 2.9 Consensus size: 116
6625050 TTATAGTTAG
* *
6625060 TATTTTAAATTTTTAGTGTTTTTAATGTTTAATAAGTAAATAACTATTATGCCATAACTATTTAT
1 TATTTTAAATGTTTAGTATTTTTAATGTTTAATAAGTAAATAACTATTATGCCATAACTATTTAT
*** * * * * * *
6625125 T-AAACTTTTAATTTTATTTTTTTAAATTTATACTTAATTTACACGTTAAAGA
66 TGAAAAAATT-ATTTTATATTTTTAAA-TTATACTAAATTAAAAAGTGAAAGA
* * *
6625177 TGTTTTAAATGTTTAGTATTTTTTTTTACTATGTTTAATAAGTAAAGAACTATTATGTCATAACT
1 TATTTTAAATGTTTAGTA----TTTTTA--ATGTTTAATAAGTAAATAACTATTATGCCATAACT
*
6625242 ATTTATTG-AAAAATTATCTTTATATTTTTAAAATTATACAAAATTAAAAAGTGAAAGA
60 ATTTATTGAAAAAATTAT-TTTATATTTTT-AAATTATACTAAATTAAAAAGTGAAAGA
* * * *
6625300 TATTTTAAATGTTTAGTATATTATAATGTTTGATAAGTATATAACTATTGTGCCATAACTATTTA
1 TATTTTAAATGTTTAGTAT-TTTTAATGTTTAATAAGTAAATAACTATTATGCCATAACTATTTA
**
6625365 TTGAAAAAATTGATTTTATATCCTTAAATTATACTAAATTAAA
65 TTGAAAAAATT-ATTTTATATTTTTAAATTATACTAAATTAAA
6625408 TTATACTTAG
Statistics
Matches: 194, Mismatches: 25, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
117 15 0.08
118 55 0.28
119 17 0.09
120 6 0.03
121 6 0.03
122 2 0.01
123 90 0.46
124 3 0.02
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (116 bp):
TATTTTAAATGTTTAGTATTTTTAATGTTTAATAAGTAAATAACTATTATGCCATAACTATTTAT
TGAAAAAATTATTTTATATTTTTAAATTATACTAAATTAAAAAGTGAAAGA
Found at i:6628671 original size:21 final size:21
Alignment explanation
Indices: 6628647--6628701 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
6628637 ATAGTGTCAT
6628647 AGTACACAAAGTATTACTCCA
1 AGTACACAAAGTATTACTCCA
6628668 AGTACACAAAGTATTACTCCA
1 AGTACACAAAGTATTACTCCA
6628689 AGTACACAAAGTA
1 AGTACACAAAGTA
6628702 CTGGTACGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.45, C:0.22, G:0.11, T:0.22
Consensus pattern (21 bp):
AGTACACAAAGTATTACTCCA
Found at i:6630114 original size:19 final size:20
Alignment explanation
Indices: 6630090--6630135 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
6630080 CAAAATAACC
*
6630090 CAATTTC-ACATTCTAACAT
1 CAATTTCAACACTCTAACAT
6630109 CAATTTCAACACTCTAACAT
1 CAATTTCAACACTCTAACAT
*
6630129 AAATTTC
1 CAATTTC
6630136 CAGCATAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.39, C:0.26, G:0.00, T:0.35
Consensus pattern (20 bp):
CAATTTCAACACTCTAACAT
Found at i:6631966 original size:15 final size:15
Alignment explanation
Indices: 6631948--6631978 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
6631938 AAATTCTAAA
6631948 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
6631963 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
6631978 T
1 T
6631979 CTATTTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:6641576 original size:25 final size:25
Alignment explanation
Indices: 6641548--6641596 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
6641538 GGACGTGGGA
6641548 AATCACGGGGTGAGCAGAGAGATGC
1 AATCACGGGGTGAGCAGAGAGATGC
6641573 AATCACGGGGTGAGCAGAGAGATG
1 AATCACGGGGTGAGCAGAGAGATG
6641597 TTGTTGCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.14, G:0.41, T:0.12
Consensus pattern (25 bp):
AATCACGGGGTGAGCAGAGAGATGC
Found at i:6643574 original size:582 final size:585
Alignment explanation
Indices: 6642466--6643633 Score: 2099
Period size: 582 Copynumber: 2.0 Consensus size: 585
6642456 TTTTATTTTT
6642466 TTATTAAAGTAGATAACATGCAATTGATTATTTGAATAAAACAATGTAATATTTGAGTGTAATAT
1 TTATTAAAGTAGATAACATGCAATTGATTATTTGAATAAAACAATGTAATATTTGAGTGTAATAT
* * *
6642531 TTAATTTTTTTGTGTAGATTTGTTGAAACATGGCAGAAGAAAATGTTCTTTTGAGGTTAGATGGT
66 TTAA-TTTTTTGTGTAGATTTGTTGAAACATGGCAGAACAAAAAGTTCTTTTGAGGCTAGATGGT
*
6642596 CGACACATTTCGAGTCATTTGGGAGAACTGGTAATATGATCGAACTATTTTTTTTATTTGAGAAC
130 CGAAACATTTCGAGTCATTTGGGAGAACTGGTAATATGATCGAACTATTTTTTTTATTTGAGAAC
*
6642661 GGTGAATTAATTCTAATTACATGGATTAACAAATTGCAGGATGACGAACAACGAGTCCTTCATCC
195 GGTGAATTAATTATAATTACATGGATTAACAAATTGCAGGATGACGAACAACGAGTCCTTCATCC
* *
6642726 TCAACTTATCAATTGTGAGATGCCAGATCAACGTATTGTCGATAATTTGAAAATAGTCGGTTTTT
260 TCAACTTATCAATTGTGAGATGCCAAATCAACGTATTGTCGATAATTTGAAAATAGTCGGCTTTT
* *
6642791 ATGATGTCGCTTTTGTAAGAGAATATCGATTGGTACCCGGTTTGATCAGTGCATTAATTGAACGG
325 ATGATATCGCTTTTGAAAGAGAATATCGATTGGTACCCGGTTTGATCAGTGCATTAATTGAACGG
6642856 TGGAGACCAAAAACTCATACTTTTCATCTTCCGTGTGGTGAATGTACGATCACTTTGGAAGATGT
390 TGGAGACCAAAAACTCATACTTTTCATCTTCCGTGTGGTGAATGTACGATCACTTTGGAAGATGT
* *
6642921 GGCTTTACAACTTAGTGTTCCTATAAATGGAATGGTAGTGGTTGGAATTACTGATCTTAACGTGT
455 GGCTTTACAACTCAGTGTTCCTACAAATGGAATGGTAGTGGTTGGAATTACTGATCTTAACGTGT
*
6642986 TTGCAATATGTGTGAATTACCTTGGGAAGGTACCACACAAAGATTTAACAAAAGGGTCACGACTG
520 TTGCAATATGTGAGAATTACCTTGGGAAGGTACCACACAAAGATTTAACAAAAGGGTCACGACTG
6643051 A
585 A
*
6643052 TTATTAAAGTAGATAACATTCAATTGATTATTTGAATAAAACAATGTAATATTTGAGTGTAATAT
1 TTATTAAAGTAGATAACATGCAATTGATTATTTGAATAAAACAATGTAATATTTGAGTGTAATAT
6643117 TTAA-TTTTT-TGTAGATTTGTTGAAACATGGCAGAACAAAAAGTTCTTTTGAGGCTAGATGGTC
66 TTAATTTTTTGTGTAGATTTGTTGAAACATGGCAGAACAAAAAGTTCTTTTGAGGCTAGATGGTC
*
6643180 GAAACATTTCGAGTCATTTGGGAGAACTGGTAATATGATCGAATTA-TTTTTTTATTTGAGAACG
131 GAAACATTTCGAGTCATTTGGGAGAACTGGTAATATGATCGAACTATTTTTTTTATTTGAGAACG
6643244 GTGAATTAATTATAATTACATGGATTAACAAATTGCAGGATGACGAACAACGAGTCCTTCATCCT
196 GTGAATTAATTATAATTACATGGATTAACAAATTGCAGGATGACGAACAACGAGTCCTTCATCCT
* *
6643309 CGACTTATCAATTGTGAGATGTCAAATCAACGTATTGTCGATAATTTGAAAATAGTCGGCTTTTA
261 CAACTTATCAATTGTGAGATGCCAAATCAACGTATTGTCGATAATTTGAAAATAGTCGGCTTTTA
*
6643374 TGATATCGCTTTTGAAAGAGAATATCGGTTGGTACCCGGTTTGATCAGTGCATTAATTGAACGGT
326 TGATATCGCTTTTGAAAGAGAATATCGATTGGTACCCGGTTTGATCAGTGCATTAATTGAACGGT
* *
6643439 GGAGACCAGAAACTCATACTTTTCATCTTCTGTGTGGTGAATGTACGATCACTTTGGAAGATGTG
391 GGAGACCAAAAACTCATACTTTTCATCTTCCGTGTGGTGAATGTACGATCACTTTGGAAGATGTG
* *
6643504 GCTTTACAACTCGGTGTTCCTACAAATGGAATGGTAGTGGTTGGAATTACTGATCTTAGCGTGTT
456 GCTTTACAACTCAGTGTTCCTACAAATGGAATGGTAGTGGTTGGAATTACTGATCTTAACGTGTT
* *
6643569 TGCAATATGTGAGCATTACCTTGGGATGGTACCACACAAAGATTTAACAAAAGGGTCACGACTGA
521 TGCAATATGTGAGAATTACCTTGGGAAGGTACCACACAAAGATTTAACAAAAGGGTCACGACTGA
6643634 GATTATTCTG
Statistics
Matches: 559, Mismatches: 23, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
582 391 0.70
583 95 0.17
584 5 0.01
586 68 0.12
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (585 bp):
TTATTAAAGTAGATAACATGCAATTGATTATTTGAATAAAACAATGTAATATTTGAGTGTAATAT
TTAATTTTTTGTGTAGATTTGTTGAAACATGGCAGAACAAAAAGTTCTTTTGAGGCTAGATGGTC
GAAACATTTCGAGTCATTTGGGAGAACTGGTAATATGATCGAACTATTTTTTTTATTTGAGAACG
GTGAATTAATTATAATTACATGGATTAACAAATTGCAGGATGACGAACAACGAGTCCTTCATCCT
CAACTTATCAATTGTGAGATGCCAAATCAACGTATTGTCGATAATTTGAAAATAGTCGGCTTTTA
TGATATCGCTTTTGAAAGAGAATATCGATTGGTACCCGGTTTGATCAGTGCATTAATTGAACGGT
GGAGACCAAAAACTCATACTTTTCATCTTCCGTGTGGTGAATGTACGATCACTTTGGAAGATGTG
GCTTTACAACTCAGTGTTCCTACAAATGGAATGGTAGTGGTTGGAATTACTGATCTTAACGTGTT
TGCAATATGTGAGAATTACCTTGGGAAGGTACCACACAAAGATTTAACAAAAGGGTCACGACTGA
Found at i:6645245 original size:13 final size:13
Alignment explanation
Indices: 6645227--6645252 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6645217 TTTACTACTA
6645227 AATAATTATTAAT
1 AATAATTATTAAT
6645240 AATAATTATTAAT
1 AATAATTATTAAT
6645253 TCATTATTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AATAATTATTAAT
Found at i:6645266 original size:24 final size:24
Alignment explanation
Indices: 6645231--6645284 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
6645221 CTACTAAATA
*
6645231 ATTATTAATAATAATTATTAA-TTC
1 ATTATTAATAATAATTA-CAATTTC
* *
6645255 ATTATTAGTAATTATTACAATTTC
1 ATTATTAATAATAATTACAATTTC
6645279 ATTATT
1 ATTATT
6645285 TCAAATTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 2 0.08
24 24 0.92
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.52
Consensus pattern (24 bp):
ATTATTAATAATAATTACAATTTC
Found at i:6645382 original size:16 final size:16
Alignment explanation
Indices: 6645361--6645392 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
6645351 TTATTAGTAA
6645361 ATCATTACTAAATCAT
1 ATCATTACTAAATCAT
6645377 ATCATTACTAAATCAT
1 ATCATTACTAAATCAT
6645393 TAAAAATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (16 bp):
ATCATTACTAAATCAT
Found at i:6645406 original size:26 final size:27
Alignment explanation
Indices: 6645353--6645409 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 27
6645343 TAGTATCATT
* *
6645353 ATTAGTAAATCATTACTAAATCATATC
1 ATTACTAAATCATTACAAAATCATATC
6645380 ATTACTAAATCATTA-AAAATCATATC
1 ATTACTAAATCATTACAAAATCATATC
6645406 ATTA
1 ATTA
6645410 AATTAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 14 0.50
27 14 0.50
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (27 bp):
ATTACTAAATCATTACAAAATCATATC
Found at i:6647223 original size:84 final size:84
Alignment explanation
Indices: 6647030--6647227 Score: 306
Period size: 84 Copynumber: 2.4 Consensus size: 84
6647020 GTTTTTTTGT
* *
6647030 TTTTGCTTTTGCTTTGTTTTATGCTGTTTTGTGTTCTGTTTTCGATGGATAATTGCCCATTATCA
1 TTTTGCTTTTGCTTTGTTTTATGTTGTTTTGTGTTCTGTTTTAGATGGATAATTGCCCATTATCA
*
6647095 CATGCATTATTACCCTTTC
66 AATGCATTATTACCCTTTC
* * *
6647114 TTTTGCTTTTGATTTGTTTTATGTTGTTTTGTGTTCTGTTTTAGATGGATTATTGTCCATTATCA
1 TTTTGCTTTTGCTTTGTTTTATGTTGTTTTGTGTTCTGTTTTAGATGGATAATTGCCCATTATCA
6647179 AATGCATTATTACCCTTTC
66 AATGCATTATTACCCTTTC
* * * *
6647198 TTTTACTTTTCCTTTATTTTGTGTTGTTTT
1 TTTTGCTTTTGCTTTGTTTTATGTTGTTTT
6647228 ATGGGACCAA
Statistics
Matches: 103, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 103 1.00
ACGTcount: A:0.14, C:0.14, G:0.15, T:0.57
Consensus pattern (84 bp):
TTTTGCTTTTGCTTTGTTTTATGTTGTTTTGTGTTCTGTTTTAGATGGATAATTGCCCATTATCA
AATGCATTATTACCCTTTC
Found at i:6649325 original size:24 final size:24
Alignment explanation
Indices: 6649293--6649340 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
6649283 TTAAAAACCC
6649293 TCTCCTTCCTCTAGTTCTTCGTCT
1 TCTCCTTCCTCTAGTTCTTCGTCT
6649317 TCTCCTTCCTCTAGTTCTTCGTCT
1 TCTCCTTCCTCTAGTTCTTCGTCT
6649341 GTTTCAGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.04, C:0.38, G:0.08, T:0.50
Consensus pattern (24 bp):
TCTCCTTCCTCTAGTTCTTCGTCT
Found at i:6652373 original size:40 final size:38
Alignment explanation
Indices: 6652310--6652386 Score: 91
Period size: 40 Copynumber: 2.0 Consensus size: 38
6652300 CCAAGTTGGA
*
6652310 TTTTGAAGACGCCGAGACCTCCATGTTTGAATGCAAATTG
1 TTTTGAAGACGCCGAGACATCCA--TTTGAATGCAAATTG
* * * *
6652350 TTTTGAAGACTCCTAGAGATCCATTTGCATGCAAATT
1 TTTTGAAGACGCCGAGACATCCATTTGAATGCAAATT
6652387 TTGCTAAAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
38 13 0.41
40 19 0.59
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (38 bp):
TTTTGAAGACGCCGAGACATCCATTTGAATGCAAATTG
Found at i:6657535 original size:18 final size:18
Alignment explanation
Indices: 6657488--6657540 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
6657478 TTAGTCATTT
*
6657488 CAAAAAATTCAGCCACTG
1 CAAAAAATTCGGCCACTG
* * * *
6657506 CAGATAACTCGGTCACTG
1 CAAAAAATTCGGCCACTG
6657524 CAAAAAATTCGGCCACT
1 CAAAAAATTCGGCCACT
6657541 TCAATCTGTA
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.38, C:0.28, G:0.15, T:0.19
Consensus pattern (18 bp):
CAAAAAATTCGGCCACTG
Found at i:6664202 original size:28 final size:29
Alignment explanation
Indices: 6664171--6664235 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
6664161 GTAAATAGAG
* *
6664171 TTAGATTTACTGTAA-ATAACTAAGTAGT
1 TTAGATATACTGTAACATAACTAAGTAAT
* *
6664199 TTAGATATCCTGTAACTTAACTAAGTAAT
1 TTAGATATACTGTAACATAACTAAGTAAT
6664228 TTAGATAT
1 TTAGATAT
6664236 CCTATAACTC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 13 0.41
29 19 0.59
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.40
Consensus pattern (29 bp):
TTAGATATACTGTAACATAACTAAGTAAT
Found at i:6664230 original size:29 final size:29
Alignment explanation
Indices: 6664187--6664275 Score: 133
Period size: 29 Copynumber: 3.0 Consensus size: 29
6664177 TTACTGTAAA
*
6664187 TAACTAAGTAGTTTAGATATCCTGTAACT
1 TAACTAAGTAGTTTAGATATCCTATAACT
*
6664216 TAACTAAGTAATTTAGATATCCTATAACTCT
1 TAACTAAGTAGTTTAGATATCCTATAA--CT
*
6664247 TAACTAAGCAGTTTAGATATCCTATAACT
1 TAACTAAGTAGTTTAGATATCCTATAACT
6664276 CTTTATCTCT
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
29 27 0.50
31 27 0.50
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (29 bp):
TAACTAAGTAGTTTAGATATCCTATAACT
Found at i:6664252 original size:31 final size:31
Alignment explanation
Indices: 6664187--6664278 Score: 143
Period size: 31 Copynumber: 3.0 Consensus size: 31
6664177 TTACTGTAAA
*
6664187 TAACTAAGTAGTTTAGATATCCTGTAA--CT
1 TAACTAAGTAGTTTAGATATCCTATAACTCT
*
6664216 TAACTAAGTAATTTAGATATCCTATAACTCT
1 TAACTAAGTAGTTTAGATATCCTATAACTCT
*
6664247 TAACTAAGCAGTTTAGATATCCTATAACTCT
1 TAACTAAGTAGTTTAGATATCCTATAACTCT
6664278 T
1 T
6664279 TATCTCTTAA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
29 25 0.44
31 32 0.56
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (31 bp):
TAACTAAGTAGTTTAGATATCCTATAACTCT
Found at i:6670719 original size:87 final size:87
Alignment explanation
Indices: 6670573--6670740 Score: 327
Period size: 87 Copynumber: 1.9 Consensus size: 87
6670563 ACTGCTTGCT
*
6670573 AAGATTCACTATATAAACAAAAAAATGAACTTAAACAATCTAATGCTGGTAAACAAACTAATATT
1 AAGATTCACTATATAAACAAAAAAAGGAACTTAAACAATCTAATGCTGGTAAACAAACTAATATT
6670638 AATAGCATTTATCAAAAAAAAA
66 AATAGCATTTATCAAAAAAAAA
6670660 AAGATTCACTATATAAACAAAAAAAGGAACTTAAACAATCTAATGCTGGTAAACAAACTAATATT
1 AAGATTCACTATATAAACAAAAAAAGGAACTTAAACAATCTAATGCTGGTAAACAAACTAATATT
6670725 AATAGCATTTATCAAA
66 AATAGCATTTATCAAA
6670741 TATCGAATAT
Statistics
Matches: 80, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
87 80 1.00
ACGTcount: A:0.54, C:0.13, G:0.08, T:0.26
Consensus pattern (87 bp):
AAGATTCACTATATAAACAAAAAAAGGAACTTAAACAATCTAATGCTGGTAAACAAACTAATATT
AATAGCATTTATCAAAAAAAAA
Found at i:6673445 original size:15 final size:15
Alignment explanation
Indices: 6673425--6673463 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
6673415 GTAATTGTTG
*
6673425 AACCTACTCTTGTTA
1 AACCTACTCTTGCTA
*
6673440 ACCCTACTCTTGCTA
1 AACCTACTCTTGCTA
6673455 AACCTACTC
1 AACCTACTC
6673464 CCAATAATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.26, C:0.36, G:0.05, T:0.33
Consensus pattern (15 bp):
AACCTACTCTTGCTA
Found at i:6687418 original size:33 final size:33
Alignment explanation
Indices: 6687376--6687439 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
6687366 GGTGTTAATA
*
6687376 GGCTTTAAGGTTCTTGGAGATTCATGGATTTAT
1 GGCTTTAAGGTTCTTGGAGATTCATAGATTTAT
6687409 GGCTTTAAGGTTCTTGGAGATTCATAGATTT
1 GGCTTTAAGGTTCTTGGAGATTCATAGATTT
6687440 TATGAGATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.22, C:0.09, G:0.27, T:0.42
Consensus pattern (33 bp):
GGCTTTAAGGTTCTTGGAGATTCATAGATTTAT
Found at i:6687818 original size:19 final size:19
Alignment explanation
Indices: 6687768--6687818 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 19
6687758 TTTTTGGATT
6687768 TTTAAAAAA-AT-AATAAA
1 TTTAAAAAATATAAATAAA
*** *
6687785 TTTAAATTTTTTAAATAAA
1 TTTAAAAAATATAAATAAA
6687804 TTTAAAAAATATAAA
1 TTTAAAAAATATAAA
6687819 ACTTGACACG
Statistics
Matches: 24, Mismatches: 8, Indels: 2
0.71 0.24 0.06
Matches are distributed among these distances:
17 6 0.25
18 1 0.04
19 17 0.71
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TTTAAAAAATATAAATAAA
Found at i:6688474 original size:42 final size:42
Alignment explanation
Indices: 6688415--6688494 Score: 160
Period size: 42 Copynumber: 1.9 Consensus size: 42
6688405 CGGTGGTAAT
6688415 GAGTTTTGAGATTAAGAATTTGGGTGTATATATATTTATTTA
1 GAGTTTTGAGATTAAGAATTTGGGTGTATATATATTTATTTA
6688457 GAGTTTTGAGATTAAGAATTTGGGTGTATATATATTTA
1 GAGTTTTGAGATTAAGAATTTGGGTGTATATATATTTA
6688495 GTGATTTAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (42 bp):
GAGTTTTGAGATTAAGAATTTGGGTGTATATATATTTATTTA
Found at i:6690895 original size:21 final size:21
Alignment explanation
Indices: 6690869--6690910 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
6690859 GACCATCCAC
6690869 GCTTAGAAGTATTACCTGACT
1 GCTTAGAAGTATTACCTGACT
6690890 GCTTAGAAGTATTACCTGACT
1 GCTTAGAAGTATTACCTGACT
6690911 ACCAATAACG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (21 bp):
GCTTAGAAGTATTACCTGACT
Found at i:6691905 original size:21 final size:21
Alignment explanation
Indices: 6691879--6691933 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
6691869 TGTTTTATAC
6691879 GAGTAAGATCAATCACTTTGG
1 GAGTAAGATCAATCACTTTGG
6691900 GAGTAAGATCAATCACTTTGG
1 GAGTAAGATCAATCACTTTGG
* *
6691921 GAATAAGAACAAT
1 GAGTAAGATCAAT
6691934 AATAGTCTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.25
Consensus pattern (21 bp):
GAGTAAGATCAATCACTTTGG
Found at i:6699642 original size:37 final size:38
Alignment explanation
Indices: 6699562--6699642 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 38
6699552 AATAAGCTGG
* *
6699562 AAAATATTTATATATTTTCTTTAAAAAATTTAAATTCAT
1 AAAA-ATTTATATATTTTCTTTAAAAAATTGAAAATCAT
*
6699601 -AAAATTTATATAATTTT-TTTACAAAATTGAAAAT-AT
1 AAAAATTTATAT-ATTTTCTTTAAAAAATTGAAAATCAT
6699637 AAAAAT
1 AAAAAT
6699643 GTTTAATGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
36 2 0.05
37 27 0.73
38 8 0.22
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (38 bp):
AAAAATTTATATATTTTCTTTAAAAAATTGAAAATCAT
Found at i:6709167 original size:18 final size:19
Alignment explanation
Indices: 6709123--6709167 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
6709113 TAAGGGGGTG
*
6709123 CATCGATGCACTACTTGTA
1 CATCGATGCACTACATGTA
6709142 CATCGATGCACTA-ATG-A
1 CATCGATGCACTACATGTA
6709159 CATTCGATG
1 CA-TCGATG
6709168 TTTGTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 3 0.12
18 8 0.33
19 13 0.54
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (19 bp):
CATCGATGCACTACATGTA
Found at i:6711620 original size:5 final size:5
Alignment explanation
Indices: 6711610--6711637 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
6711600 CATGCATGAA
6711610 CATAT CATAT CATAT CATAT CATAT CAT
1 CATAT CATAT CATAT CATAT CATAT CAT
6711638 GCTATCACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (5 bp):
CATAT
Found at i:6712727 original size:24 final size:23
Alignment explanation
Indices: 6712665--6712728 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 23
6712655 TCCCCTTGAA
*
6712665 GTGCATCGATGCATCC-TACCAT
1 GTGCATCGATGCATCCTTAACAT
*
6712687 GT--ATCAATGCATCCCTTAACAT
1 GTGCATCGATGCAT-CCTTAACAT
6712709 GTGCATCGATGCACTCCTTA
1 GTGCATCGATGCA-TCCTTA
6712729 TGCATCGATG
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
20 9 0.26
21 2 0.06
22 9 0.26
24 13 0.38
25 1 0.03
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.30
Consensus pattern (23 bp):
GTGCATCGATGCATCCTTAACAT
Found at i:6726887 original size:21 final size:21
Alignment explanation
Indices: 6726869--6726912 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
6726859 TTAATTAATT
6726869 TATAGATATTAAACATTAACA
1 TATAGATATTAAACATTAACA
6726890 TATAGATATTAAACATTAACA
1 TATAGATATTAAACATTAACA
6726911 TA
1 TA
6726913 GTAACGTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.52, C:0.09, G:0.05, T:0.34
Consensus pattern (21 bp):
TATAGATATTAAACATTAACA
Found at i:6728972 original size:21 final size:21
Alignment explanation
Indices: 6728946--6729021 Score: 118
Period size: 21 Copynumber: 3.7 Consensus size: 21
6728936 ATGCAATTAG
6728946 TGCATCGATGCATCCTTGCCA
1 TGCATCGATGCATCCTTGCCA
*
6728967 TGCATCGGTGCATCCTTGCCA
1 TGCATCGATGCATCCTTGCCA
*
6728988 TGCATCGATGCCTCC-TGCCA
1 TGCATCGATGCATCCTTGCCA
*
6729008 TGCATCCATGCATC
1 TGCATCGATGCATC
6729022 AAGGCTGCAA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 17 0.34
21 33 0.66
ACGTcount: A:0.17, C:0.36, G:0.20, T:0.28
Consensus pattern (21 bp):
TGCATCGATGCATCCTTGCCA
Found at i:6732336 original size:30 final size:30
Alignment explanation
Indices: 6732267--6732324 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
6732257 AATTTAAGGA
6732267 AAAATGTTTTTGGACTTGAATTGAATTTGC
1 AAAATGTTTTTGGACTTGAATTGAATTTGC
*
6732297 AAAATGTTTTTGGATTTGAATTGAATTT
1 AAAATGTTTTTGGACTTGAATTGAATTT
6732325 ATTCAAAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (30 bp):
AAAATGTTTTTGGACTTGAATTGAATTTGC
Found at i:6732422 original size:21 final size:21
Alignment explanation
Indices: 6732396--6732495 Score: 200
Period size: 21 Copynumber: 4.8 Consensus size: 21
6732386 AGGGTGTCAA
6732396 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
6732417 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
6732438 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
6732459 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
6732480 AGTGCATCCATGCATC
1 AGTGCATCCATGCATC
6732496 TGCACTAATG
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 79 1.00
ACGTcount: A:0.20, C:0.37, G:0.19, T:0.24
Consensus pattern (21 bp):
AGTGCATCCATGCATCCCTGC
Found at i:6732424 original size:13 final size:13
Alignment explanation
Indices: 6732406--6732493 Score: 62
Period size: 13 Copynumber: 7.9 Consensus size: 13
6732396 AGTGCATCCA
6732406 TGCATCCCTGCAG
1 TGCATCCCTGCAG
6732419 TGCAT--C--CA-
1 TGCATCCCTGCAG
6732427 TGCATCCCTGCAG
1 TGCATCCCTGCAG
6732440 TGCAT--C--CA-
1 TGCATCCCTGCAG
6732448 TGCATCCCTGCAG
1 TGCATCCCTGCAG
6732461 TGCAT--C--CA-
1 TGCATCCCTGCAG
6732469 TGCATCCCTGCAG
1 TGCATCCCTGCAG
*
6732482 TGCATCCATGCA
1 TGCATCCCTGCA
6732494 TCTGCACTAA
Statistics
Matches: 59, Mismatches: 1, Indels: 30
0.66 0.01 0.33
Matches are distributed among these distances:
8 15 0.25
9 6 0.10
10 3 0.05
11 3 0.05
12 6 0.10
13 26 0.44
ACGTcount: A:0.19, C:0.38, G:0.19, T:0.24
Consensus pattern (13 bp):
TGCATCCCTGCAG
Found at i:6732590 original size:21 final size:21
Alignment explanation
Indices: 6732558--6732633 Score: 118
Period size: 21 Copynumber: 3.7 Consensus size: 21
6732548 ATGCAATTAG
*
6732558 TGCATTGATGCATCCTTGCCA
1 TGCATCGATGCATCCTTGCCA
*
6732579 TGCATCGGTGCATCCTTGCCA
1 TGCATCGATGCATCCTTGCCA
6732600 TGCATCGATGCATCC-TGCCA
1 TGCATCGATGCATCCTTGCCA
*
6732620 TGCATCCATGCATC
1 TGCATCGATGCATC
6732634 AAGGCTGCAA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
20 18 0.35
21 33 0.65
ACGTcount: A:0.18, C:0.33, G:0.20, T:0.29
Consensus pattern (21 bp):
TGCATCGATGCATCCTTGCCA
Found at i:6733676 original size:64 final size:63
Alignment explanation
Indices: 6733587--6733707 Score: 156
Period size: 64 Copynumber: 1.9 Consensus size: 63
6733577 CATTCTACAG
* *
6733587 TGCATCGATACACAAATTACCTTCGAT-TTT-TTCATTTTAAGGGGATGCATCGATGCACTCCTT
1 TGCATCGATACACAAATTACATTCGATGTTTCTTC--TTTAAAGGG-TGCATCGATGCACTCCTT
6733650 A
63 A
* * *
6733651 TGCATCGATGCACTAATTGCATTCGATGTTTCTTCTTTAAAGGGTGCATCGATGCAC
1 TGCATCGATACACAAATTACATTCGATGTTTCTTCTTTAAAGGGTGCATCGATGCAC
6733708 ATTGAATATG
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
63 13 0.26
64 31 0.62
65 3 0.06
66 3 0.06
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (63 bp):
TGCATCGATACACAAATTACATTCGATGTTTCTTCTTTAAAGGGTGCATCGATGCACTCCTTA
Found at i:6739592 original size:55 final size:55
Alignment explanation
Indices: 6739515--6739814 Score: 313
Period size: 51 Copynumber: 5.6 Consensus size: 55
6739505 GATGAGTCTA
* *
6739515 CTCCCTATTCCTTCAG-GAAGTATAAGACTCGAACAATCTTCATAAAATGTGTCTG
1 CTCCCTATTCCTTCAGAG-AGTATAAGACTCGAACAATCTTCATAAAACGTGTCCG
* * * * *
6739570 CTCTCTATTCATTCAGAGAGTATAAGAATTGAACAATCTTCAATAAAACGGGTCCG
1 CTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTC-ATAAAACGTGTCCG
*
6739626 CTCTCTATTCCTTCAGAGAGTAT-AGAACTCGGAA-AATCTTCA-ATAAACAG-GTCCG
1 CTCCCTATTCCTTCAGAGAGTATAAG-ACTC-GAACAATCTTCATA-AAAC-GTGTCCG
* * *
6739681 CTCTCTATTCCTTCAGAGAGTATAGGACT----CAATCTTTA-ACAAACGTGTCCG
1 CTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCATA-AAACGTGTCCG
* *
6739732 CTCCCTATTCCTTCAGAGAGTATAGGACTCG----ATCTTCATAAAATGTGTCCG
1 CTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCATAAAACGTGTCCG
*
6739783 CTCCCTATTCCTTCAGAGAGTATAGGACTCGA
1 CTCCCTATTCCTTCAGAGAGTATAAGACTCGA
6739815 TCTTCATAAA
Statistics
Matches: 216, Mismatches: 16, Indels: 29
0.83 0.06 0.11
Matches are distributed among these distances:
50 1 0.00
51 92 0.43
52 1 0.00
54 1 0.00
55 73 0.34
56 45 0.21
57 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (55 bp):
CTCCCTATTCCTTCAGAGAGTATAAGACTCGAACAATCTTCATAAAACGTGTCCG
Found at i:6739656 original size:111 final size:106
Alignment explanation
Indices: 6739515--6739825 Score: 352
Period size: 111 Copynumber: 2.9 Consensus size: 106
6739505 GATGAGTCTA
*
6739515 CTCCCTATTCCTTCAG-GAAGTATA-AGACTCGAACAATCTTCATAAAATGTGTCTGCTCTCTAT
1 CTCCCTATTCCTTCAGAG-AGTATAGA-ACTCGAA-AATCTTCATAAAATGTGTCCGCTCTCTAT
* *
6739578 TCATTCAGAGAGTATAAGAATTGAACAATCTTCAATAAAACGGGTCCG
63 TCCTTCAGAGAGTATAAGAACT---CAATCTTCAA-AAAACGGGTCCG
*
6739626 CTCTCTATTCCTTCAGAGAGTATAGAACTCGGAAAATCTTCAATAAACA-G-GTCCGCTCTCTAT
1 CTCCCTATTCCTTCAGAGAGTATAGAACTC-GAAAATCTTC-ATAAA-ATGTGTCCGCTCTCTAT
* * * *
6739689 TCCTTCAGAGAGTAT-AGGACTCAATCTTTAACAAACGTGTCCG
63 TCCTTCAGAGAGTATAAGAACTCAATCTTCAAAAAACGGGTCCG
* *
6739732 CTCCCTATTCCTTCAGAGAGTATAGGACTCG---ATCTTCATAAAATGTGTCCGCTCCCTATTCC
1 CTCCCTATTCCTTCAGAGAGTATAGAACTCGAAAATCTTCATAAAATGTGTCCGCTCTCTATTCC
* * *
6739794 TTCAGAGAGTAT-AGGACTCGATCTTCATAAAA
66 TTCAGAGAGTATAAGAACTCAATCTTCAAAAAA
6739826 TGAGTTTGCT
Statistics
Matches: 178, Mismatches: 15, Indels: 23
0.82 0.07 0.11
Matches are distributed among these distances:
100 1 0.01
101 6 0.03
102 49 0.28
105 1 0.01
106 38 0.21
107 9 0.05
110 4 0.02
111 58 0.33
112 11 0.06
113 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (106 bp):
CTCCCTATTCCTTCAGAGAGTATAGAACTCGAAAATCTTCATAAAATGTGTCCGCTCTCTATTCC
TTCAGAGAGTATAAGAACTCAATCTTCAAAAAACGGGTCCG
Found at i:6739870 original size:37 final size:36
Alignment explanation
Indices: 6739829--6739900 Score: 117
Period size: 37 Copynumber: 2.0 Consensus size: 36
6739819 CATAAAATGA
*
6739829 GTTTGCTTCACTAATCTTTCGTGAAGGCTTACAGATG
1 GTTTGCTTCACTAATCTTCCGTGAAGGCTTA-AGATG
*
6739866 GTTTGCTTCACTACTCTTCCGTGAAGGCTTAAGAT
1 GTTTGCTTCACTAATCTTCCGTGAAGGCTTAAGAT
6739901 TGACCTGTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
36 4 0.12
37 29 0.88
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (36 bp):
GTTTGCTTCACTAATCTTCCGTGAAGGCTTAAGATG
Found at i:6741189 original size:7 final size:7
Alignment explanation
Indices: 6741177--6741219 Score: 50
Period size: 7 Copynumber: 5.7 Consensus size: 7
6741167 ATTTCTCTTT
6741177 TTTTTCA
1 TTTTTCA
*
6741184 TTTTTCTCT
1 -TTTT-TCA
6741193 TTTTTTCA
1 TT-TTTCA
6741201 TTTTTCA
1 TTTTTCA
6741208 TTTTTCA
1 TTTTTCA
6741215 TTTTT
1 TTTTT
6741220 TCTTCATTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
7 17 0.55
8 10 0.32
9 4 0.13
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTCA
Found at i:6741195 original size:16 final size:15
Alignment explanation
Indices: 6741176--6741336 Score: 64
Period size: 15 Copynumber: 10.1 Consensus size: 15
6741166 TATTTCTCTT
6741176 TTTTTTCATTTTTCTC
1 TTTTTTCATTTTT-TC
6741192 TTTTTTTCA-TTTTTC
1 -TTTTTTCATTTTTTC
*
6741207 ATTTTTCATTTTTTC
1 TTTTTTCATTTTTTC
**
6741222 TTCATTTTTTTTCTTTTC
1 TT--TTTTCATT-TTTTC
*
6741240 GTTTTTCCATCATTTTTC
1 -TTTTTTCAT--TTTTTC
*
6741258 ATTTTTCTAATTTTTTTC
1 -TTTTT-TCA-TTTTTTC
6741276 TTCTTTT--TTTTCTTC
1 TT-TTTTCATTTT-TTC
* *
6741291 TCATTTTT-A-TTATTA
1 T--TTTTTCATTTTTTC
6741306 TTTTTTCATTTTTTC
1 TTTTTTCATTTTTTC
* *
6741321 TCTTTT-ATTTCTTC
1 TTTTTTCATTTTTTC
6741335 TT
1 TT
6741337 CAAGCGAAAT
Statistics
Matches: 111, Mismatches: 17, Indels: 35
0.68 0.10 0.21
Matches are distributed among these distances:
13 5 0.05
14 20 0.18
15 25 0.23
16 10 0.09
17 22 0.20
18 24 0.22
19 4 0.04
20 1 0.01
ACGTcount: A:0.10, C:0.16, G:0.01, T:0.74
Consensus pattern (15 bp):
TTTTTTCATTTTTTC
Found at i:6741197 original size:17 final size:18
Alignment explanation
Indices: 6741168--6741206 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
6741158 CCTCCTTTTA
6741168 TTTCTCTTTTTTTTCATT
1 TTTCTCTTTTTTTTCATT
6741186 TTTCTC-TTTTTTTCATT
1 TTTCTCTTTTTTTTCATT
6741203 TTTC
1 TTTC
6741207 ATTTTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTCTCTTTTTTTTCATT
Found at i:6741204 original size:6 final size:7
Alignment explanation
Indices: 6741194--6741219 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6741184 TTTTTCTCTT
6741194 TTTTTCA
1 TTTTTCA
6741201 TTTTTCA
1 TTTTTCA
6741208 TTTTTCA
1 TTTTTCA
6741215 TTTTT
1 TTTTT
6741220 TCTTCATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTCA
Found at i:6741239 original size:33 final size:34
Alignment explanation
Indices: 6741177--6741263 Score: 87
Period size: 33 Copynumber: 2.7 Consensus size: 34
6741167 ATTTCTCTTT
6741177 TTTTTCA-TTTTTC-TC--TTTTTTTCATTTTTCA
1 TTTTTCATTTTTTCTTCATTTTTTTTCA-TTTTCA
*
6741208 TTTTTCATTTTTTCTTCATTTTTTTTC-TTTTCG
1 TTTTTCATTTTTTCTTCATTTTTTTTCATTTTCA
**
6741241 TTTTTCCATCATTT-TTCATTTTT
1 TTTTT-CATTTTTTCTTCATTTTT
6741264 CTAATTTTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
31 7 0.15
32 6 0.12
33 21 0.44
34 6 0.12
35 8 0.17
ACGTcount: A:0.09, C:0.16, G:0.01, T:0.74
Consensus pattern (34 bp):
TTTTTCATTTTTTCTTCATTTTTTTTCATTTTCA
Found at i:6741253 original size:51 final size:52
Alignment explanation
Indices: 6741198--6741298 Score: 152
Period size: 53 Copynumber: 1.9 Consensus size: 52
6741188 TCTCTTTTTT
* *
6741198 TCATTTTTCATTTTTC-A-TTTTTTCTTCATTTTTTTTCTTTTCGTTTTTCCA
1 TCATTTTTCATTTTTCAATTTTTTTCTTC-TTTTTTTTCTTCTCATTTTTCCA
6741249 TCATTTTTCATTTTTCTAATTTTTTTCTTCTTTTTTTTCTTCTCATTTTT
1 TCATTTTTCATTTTTC-AATTTTTTTCTTCTTTTTTTTCTTCTCATTTTT
6741299 ATTATTATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
51 16 0.36
53 19 0.42
54 10 0.22
ACGTcount: A:0.10, C:0.17, G:0.01, T:0.72
Consensus pattern (52 bp):
TCATTTTTCATTTTTCAATTTTTTTCTTCTTTTTTTTCTTCTCATTTTTCCA
Found at i:6741273 original size:18 final size:17
Alignment explanation
Indices: 6741201--6741275 Score: 57
Period size: 18 Copynumber: 4.4 Consensus size: 17
6741191 CTTTTTTTCA
*
6741201 TTTTTCATTTTTCATTT
1 TTTTTCATTTTTCAATT
6741218 TTTCTTCATTTTT---TT
1 TTT-TTCATTTTTCAATT
* * *
6741233 TCTTTTCGTTTTTCCATCA
1 T-TTTTCATTTTTCAAT-T
6741252 TTTTTCATTTTTCTAATT
1 TTTTTCATTTTTC-AATT
6741270 TTTTTC
1 TTTTTC
6741276 TTCTTTTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
15 11 0.24
16 2 0.04
17 3 0.07
18 27 0.59
19 3 0.07
ACGTcount: A:0.11, C:0.16, G:0.01, T:0.72
Consensus pattern (17 bp):
TTTTTCATTTTTCAATT
Found at i:6741318 original size:35 final size:35
Alignment explanation
Indices: 6741256--6741324 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
6741246 CCATCATTTT
* * *
6741256 TCATTTTTCTAATTTTTTTCTTCTTTTTTTTCTTC
1 TCATTTTTATAATTATTTTCTTCTTTTTTCTCTTC
*
6741291 TCATTTTTATTATTATTTT-TTCATTTTTTCTCTT
1 TCATTTTTATAATTATTTTCTTC-TTTTTTCTCTT
6741325 TTATTTCTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 3 0.10
35 26 0.90
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.74
Consensus pattern (35 bp):
TCATTTTTATAATTATTTTCTTCTTTTTTCTCTTC
Found at i:6745344 original size:17 final size:17
Alignment explanation
Indices: 6745322--6745356 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
6745312 ACCAGCTAGT
* *
6745322 CTGGCCTTTCTTATTTC
1 CTGGCCCTTCTTAATTC
6745339 CTGGCCCTTCTTAATTC
1 CTGGCCCTTCTTAATTC
6745356 C
1 C
6745357 CCTCAACTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.34, G:0.11, T:0.46
Consensus pattern (17 bp):
CTGGCCCTTCTTAATTC
Found at i:6750891 original size:45 final size:47
Alignment explanation
Indices: 6750823--6750911 Score: 155
Period size: 45 Copynumber: 1.9 Consensus size: 47
6750813 TGCTTTGTTA
6750823 TTCACAAAAATAAATCCTAACCGCATGATATCTAATTCGCATGCTTG
1 TTCACAAAAATAAATCCTAACCGCATGATATCTAATTCGCATGCTTG
*
6750870 TTCA-AAAAATAAA-CCTAACCGCATGATATCTAGTTCGCATGC
1 TTCACAAAAATAAATCCTAACCGCATGATATCTAATTCGCATGC
6750912 ATTTATTCGA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
45 28 0.68
46 9 0.22
47 4 0.10
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.28
Consensus pattern (47 bp):
TTCACAAAAATAAATCCTAACCGCATGATATCTAATTCGCATGCTTG
Found at i:6760883 original size:94 final size:94
Alignment explanation
Indices: 6760700--6760873 Score: 321
Period size: 94 Copynumber: 1.9 Consensus size: 94
6760690 AACCTGAAAA
6760700 GATATGATTCAACAAGAGTGATAGCAAATCTACAAATGATAACAGCAGAAATACAGTGCAGACAG
1 GATATGATTCAACAAGAGTGATAGCAAATCTACAAATGATAACAGCAGAAATACAGTGCAGACAG
6760765 ATGCCAACTGTGTGTTGGGAGGGGGTGGG
66 ATGCCAACTGTGTGTTGGGAGGGGGTGGG
*
6760794 GATATGATTCAACAAGAGTGATAGCAAATCTACAAATGATAGCAGCAGAAATACAGTGCAGACAG
1 GATATGATTCAACAAGAGTGATAGCAAATCTACAAATGATAACAGCAGAAATACAGTGCAGACAG
* *
6760859 ATTCCAACTTTGTGT
66 ATGCCAACTGTGTGT
6760874 GTGTGGGGGG
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 77 1.00
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (94 bp):
GATATGATTCAACAAGAGTGATAGCAAATCTACAAATGATAACAGCAGAAATACAGTGCAGACAG
ATGCCAACTGTGTGTTGGGAGGGGGTGGG
Found at i:6770623 original size:74 final size:73
Alignment explanation
Indices: 6770533--6770682 Score: 273
Period size: 74 Copynumber: 2.0 Consensus size: 73
6770523 TCCTAACTTA
6770533 AGAGTTTCTAAGTTAAGGTTATAGCTTGTATATAAATATGTAACAAATCTTACAAAATACATATG
1 AGAGTTTCTAAGTTAAGGTTATAGCTTGTATATAAATATGTAACAAATCTTACAAAATACATATG
6770598 AGTTTGAC
66 AGTTTGAC
* *
6770606 AGAGTTTTCTAAGTTAAGGTTATAGCTTGTATATAAATATGTAACCAATCTTACATAATACATAT
1 AGAG-TTTCTAAGTTAAGGTTATAGCTTGTATATAAATATGTAACAAATCTTACAAAATACATAT
6770671 GAGTTTGAC
65 GAGTTTGAC
6770680 AGA
1 AGA
6770683 TAATTACTCT
Statistics
Matches: 74, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
73 4 0.05
74 70 0.95
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (73 bp):
AGAGTTTCTAAGTTAAGGTTATAGCTTGTATATAAATATGTAACAAATCTTACAAAATACATATG
AGTTTGAC
Found at i:6776789 original size:59 final size:59
Alignment explanation
Indices: 6776663--6776790 Score: 136
Period size: 59 Copynumber: 2.2 Consensus size: 59
6776653 TGATCTTTAT
* * * *
6776663 TTTAAATTAATCTTTAATCTTTTGAATATTATAATTTCATCTCTAAATTATGAGTTTCA
1 TTTAAATTAATCTTTAATCTTTAGAACATTATAATTTCATCTCTAAACTATGAGTCTCA
* * *
6776722 TTTCAAATTAATTTTTAAT-TTTAGAACATTTTAATTTCATC-CTTAAACTATG-GCTCTCG
1 TTT-AAATTAATCTTTAATCTTTAGAACATTATAATTTCATCTC-TAAACTATGAG-TCTCA
6776781 TTCTAAATTA
1 TT-TAAATTA
6776791 GTCCCCAAGC
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
58 2 0.03
59 41 0.71
60 15 0.26
ACGTcount: A:0.33, C:0.12, G:0.05, T:0.49
Consensus pattern (59 bp):
TTTAAATTAATCTTTAATCTTTAGAACATTATAATTTCATCTCTAAACTATGAGTCTCA
Found at i:6778671 original size:18 final size:19
Alignment explanation
Indices: 6778648--6778690 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
6778638 CAGTAATCCT
6778648 ATTCC-CTGGTAATCTTAC
1 ATTCCACTGGTAATCTTAC
6778666 ATTCCCACTGGTAATCTTAC
1 ATT-CCACTGGTAATCTTAC
6778686 ATTCC
1 ATTCC
6778691 GTGAACCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 3 0.13
19 4 0.17
20 16 0.70
ACGTcount: A:0.23, C:0.30, G:0.09, T:0.37
Consensus pattern (19 bp):
ATTCCACTGGTAATCTTAC
Found at i:6778678 original size:20 final size:20
Alignment explanation
Indices: 6778653--6778690 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
6778643 ATCCTATTCC
6778653 CTGGTAATCTTACATTCCCA
1 CTGGTAATCTTACATTCCCA
6778673 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
6778691 GTGAACCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.29, G:0.11, T:0.37
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:6783045 original size:72 final size:72
Alignment explanation
Indices: 6782928--6783077 Score: 237
Period size: 72 Copynumber: 2.1 Consensus size: 72
6782918 CCCTATTACA
* *
6782928 CAAGAAAATATGAAGACTTCGGGTGAGAATCTGAATATTAGTGGTGCAACCAATGTGATGATAGC
1 CAAGAAAAGATGAAAACTTCGGGTGAGAATCTGAATATTAGTGGTGCAACCAATGTGATGATAGC
6782993 AAATGAT
66 AAATGAT
* * * *
6783000 CAAGAATAGATGAAAACTTCGGGTGAGAATCTGAATGTTAGTGGTGCAGCCAATGTGATGATATC
1 CAAGAAAAGATGAAAACTTCGGGTGAGAATCTGAATATTAGTGGTGCAACCAATGTGATGATAGC
*
6783065 AACTGAT
66 AAATGAT
6783072 CAAGAA
1 CAAGAA
6783078 CCTGTTAGGG
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (72 bp):
CAAGAAAAGATGAAAACTTCGGGTGAGAATCTGAATATTAGTGGTGCAACCAATGTGATGATAGC
AAATGAT
Found at i:6787728 original size:37 final size:37
Alignment explanation
Indices: 6787678--6787793 Score: 164
Period size: 37 Copynumber: 3.2 Consensus size: 37
6787668 AAAGTCAAGT
* *
6787678 CTTCACCAAAGAGTAATGAAGCAAATCCATTTTGAGC
1 CTTCACCAAAGAGTAGTGAAGCAAATCCATTTTAAGC
*
6787715 CTTCACCAAAGAGTAGTGAAGCAAA-CCATCTTAAGC
1 CTTCACCAAAGAGTAGTGAAGCAAATCCATTTTAAGC
* *
6787751 CTTCACCGAAGAGTAGTGAAG-AATATCCTTTTTAAGC
1 CTTCACCAAAGAGTAGTGAAGCAA-ATCCATTTTAAGC
6787788 CTTCAC
1 CTTCAC
6787794 GGAATAGTGT
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
35 2 0.03
36 30 0.42
37 39 0.55
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (37 bp):
CTTCACCAAAGAGTAGTGAAGCAAATCCATTTTAAGC
Found at i:6788268 original size:54 final size:54
Alignment explanation
Indices: 6788178--6788688 Score: 869
Period size: 54 Copynumber: 9.5 Consensus size: 54
6788168 GTAGTAAAGT
*
6788178 AGAAGAAGATGTTCGAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* *
6788232 AGAAGAAGATGTTCGAGTTTCATACTCTCTAGAGAAAGAGGGAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* *
6788286 AGAAGAAGATGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACTCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
6788340 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* *
6788394 AGAAGAAGATATTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCTGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* *
6788448 AGAAGAATATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCTGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* *
6788502 AGAAGAATATGTTTGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* * *
6788556 AGAAGAAGATGCTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCAAATCCGTA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
* *
6788610 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGATAAAGAGGGAGCGAACCCATA
1 AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
*
6788664 AGAAGAAGATGTTTGAGTTCCATAC
1 AGAAGAAGATGTTCGAGTTCCATAC
6788689 ACTGAAGGAA
Statistics
Matches: 431, Mismatches: 26, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 431 1.00
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19
Consensus pattern (54 bp):
AGAAGAAGATGTTCGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTA
Found at i:6788874 original size:55 final size:55
Alignment explanation
Indices: 6788690--6789083 Score: 515
Period size: 55 Copynumber: 7.3 Consensus size: 55
6788680 GTTCCATACA
* * *
6788690 CTGAAGGAATAGGGAACGGACACGTTTGTTGAAGA----TCGAGTCCTATACTCT
1 CTGAAGGAATAGGGAGCGGACCCGTTTGTTGAAGATTGTTCGAGTTCTATACTCT
* *
6788741 CTGAAGGAATAGGGAGCGGACACGTTTATTGAAGA----TCGAG-TCTTATACTCT
1 CTGAAGGAATAGGGAGCGGACCCGTTTGTTGAAGATTGTTCGAGTTC-TATACTCT
*
6788792 CTGAAGGAATAGGGAGCAGACCCGTTTGTTGAAGATTGTTCGAGTTCTATACTCT
1 CTGAAGGAATAGGGAGCGGACCCGTTTGTTGAAGATTGTTCGAGTTCTATACTCT
* * * *
6788847 CTGAAAGAATAGAGAGCGAACCTGTTTGTTGAAGATTGTTCGAGTTCTATACTCT
1 CTGAAGGAATAGGGAGCGGACCCGTTTGTTGAAGATTGTTCGAGTTCTATACTCT
* *
6788902 CTGAAGGAATAGAGAGCGGACTCGTTTGTTGAAGATTGTTCGAGTTCTATACTCT
1 CTGAAGGAATAGGGAGCGGACCCGTTTGTTGAAGATTGTTCGAGTTCTATACTCT
* *
6788957 CTGAAGGAATAGAGAGCGGACCCGTTT-TATGAAGATTGTTCGAGTTCTATACTCC
1 CTGAAGGAATAGGGAGCGGACCCGTTTGT-TGAAGATTGTTCGAGTTCTATACTCT
* * *
6789012 CTGAACGG-ATAGGGAGCGGACCCGTTTATTGAAGATTGATCGAG-TCTTATACTCC
1 CTGAA-GGAATAGGGAGCGGACCCGTTTGTTGAAGATTGTTCGAGTTC-TATACTCT
6789067 CTGAAGGAATAGGGAGC
1 CTGAAGGAATAGGGAGC
6789084 AGACTTATCA
Statistics
Matches: 313, Mismatches: 19, Indels: 18
0.89 0.05 0.05
Matches are distributed among these distances:
50 1 0.00
51 78 0.25
54 5 0.02
55 224 0.72
56 5 0.02
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (55 bp):
CTGAAGGAATAGGGAGCGGACCCGTTTGTTGAAGATTGTTCGAGTTCTATACTCT
Found at i:6797356 original size:41 final size:41
Alignment explanation
Indices: 6797306--6797529 Score: 113
Period size: 38 Copynumber: 5.7 Consensus size: 41
6797296 TTAAATAAAT
*
6797306 AAATATTTTTTAAAACTATATTTATATATTATTTTTTTTAA
1 AAATATTTTTTAAAACTATATTTATATATTATTTTTTTCAA
* * * *
6797347 AAATGTTTTTCAAAACCATA--TA-ATATAATTTATTTTCAA
1 AAATATTTTTTAAAACTATATTTATATATTATTT-TTTTCAA
* * * *
6797386 AAACATATTTTAAAATTATATATTATATA-TA---TTTTCCA
1 AAATATTTTTTAAAACTATAT-TTATATATTATTTTTTTCAA
* *
6797424 AAATA--TTTTAAATATTATATATTATATA--A--GTTTTCAA
1 AAATATTTTTTAAA-ACTATAT-TTATATATTATTTTTTTCAA
* ** * *
6797461 AAATGTTTTAAAAAACTATA-TAATATA-TA-TATTTTCAA
1 AAATATTTTTTAAAACTATATTTATATATTATTTTTTTCAA
* *
6797499 AAAT-GTTTTAAAAATCTATATATTATATATT
1 AAATATTTTTTAAAA-CTATAT-TTATATATT
6797530 TTCAAAATGT
Statistics
Matches: 144, Mismatches: 24, Indels: 30
0.73 0.12 0.15
Matches are distributed among these distances:
36 14 0.10
37 34 0.24
38 39 0.27
39 27 0.19
40 6 0.04
41 18 0.12
42 3 0.02
43 3 0.02
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (41 bp):
AAATATTTTTTAAAACTATATTTATATATTATTTTTTTCAA
Found at i:6797402 original size:26 final size:26
Alignment explanation
Indices: 6797353--6797402 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
6797343 TTAAAAATGT
* *
6797353 TTTTCAAAACCATATAATATAATTTA
1 TTTTCAAAAACATATAATAAAATTTA
**
6797379 TTTTCAAAAACATATTTTAAAATT
1 TTTTCAAAAACATATAATAAAATT
6797403 ATATATTATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (26 bp):
TTTTCAAAAACATATAATAAAATTTA
Found at i:6797446 original size:37 final size:36
Alignment explanation
Indices: 6797328--6797725 Score: 326
Period size: 37 Copynumber: 11.0 Consensus size: 36
6797318 AAACTATATT
* *
6797328 TATATATTAT-T-TTTTTTAAAAATGTTTTTCAAAAC
1 TATATATTATATATATTTTAAAAATG-TTTTAAAAAC
* * * * *
6797363 CATATAATATAATTTATTTTCAAAAACATATTTT-AAAAT
1 TATATATTAT-ATATATTTT--AAAA-ATGTTTTAAAAAC
* * * *
6797402 TATATATTATATATATTTTCCAAAATATTTTAAATAT
1 TATATATTATATATATTTT-AAAAATGTTTTAAAAAC
6797439 TATATATTATATA-AGTTTTCAAAAATGTTTTAAAAAAC
1 TATATATTATATATA-TTTT-AAAAATGTTTT-AAAAAC
*
6797477 TATATAATATATATATTTTCAAAAATGTTTTAAAAATC
1 TATATATTATATATATTTT-AAAAATGTTTTAAAAA-C
*
6797515 TATATA-T-TATATATTTTCAAAATGTTTTTTAAAAAC
1 TATATATTATATATATTTTAAAAATG--TTTTAAAAAC
*
6797551 --TATA-TA-ATATA---T--AAATGTTTTCAAAAC
1 TATATATTATATATATTTTAAAAATGTTTTAAAAAC
6797578 TATATATTATATA-AGTTTTCAAAAATGTTTTCAAAAAC
1 TATATATTATATATA-TTTT-AAAAATGTTTT-AAAAAC
* * *
6797616 TATATATTATATA-AGTTTTCAAAATGATTTAAAAATT
1 TATATATTATATATA-TTTTAAAAATGTTTTAAAAA-C
*
6797653 TATATATTATATACATTTTTAAAAATGTTTTAAAAAC
1 TATATATTATATATA-TTTTAAAAATGTTTTAAAAAC
* *
6797690 TATATATTATATATATTTTCAAAATATTTTAAAAAC
1 TATATATTATATATATTTTAAAAATGTTTTAAAAAC
6797726 GTATTTTTAA
Statistics
Matches: 306, Mismatches: 29, Indels: 55
0.78 0.07 0.14
Matches are distributed among these distances:
27 9 0.03
29 9 0.03
30 3 0.01
31 4 0.01
34 11 0.04
35 14 0.05
36 43 0.14
37 95 0.31
38 95 0.31
39 13 0.04
40 8 0.03
41 2 0.01
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (36 bp):
TATATATTATATATATTTTAAAAATGTTTTAAAAAC
Found at i:6797588 original size:25 final size:27
Alignment explanation
Indices: 6797541--6797601 Score: 83
Period size: 25 Copynumber: 2.3 Consensus size: 27
6797531 TCAAAATGTT
*
6797541 TTTTAAAAACTATATAATATATA-AATG
1 TTTTCAAAACTATATAATATATATAA-G
6797568 TTTTCAAAACTATAT-AT-TATATAAG
1 TTTTCAAAACTATATAATATATATAAG
6797593 TTTTCAAAA
1 TTTTCAAAA
6797602 ATGTTTTCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 14 0.44
26 4 0.12
27 14 0.44
ACGTcount: A:0.48, C:0.07, G:0.03, T:0.43
Consensus pattern (27 bp):
TTTTCAAAACTATATAATATATATAAG
Found at i:6797590 original size:139 final size:138
Alignment explanation
Indices: 6797439--6797702 Score: 408
Period size: 139 Copynumber: 1.9 Consensus size: 138
6797429 TTTTAAATAT
6797439 TATATATTATATAAGTTTTCAAAAATGTTTTAAAAAACTATATAATATATATA-TTTTCAAAAAT
1 TATATATTATATAAGTTTTCAAAAATGTTTTAAAAAACTATATAATATATA-AGTTTTC-AAAAT
* *
6797503 GTTTTAAAAATCTATATATTATAT-A-TTTTCAAAATGTTTTTTAAAAACTATATAATATATAAA
64 GATTTAAAAATCTATATATTATATAATTTTTAAAAATG--TTTTAAAAACTATATAATATATAAA
6797566 TGTTTTCAAAAC
127 TGTTTTCAAAAC
* *
6797578 TATATATTATATAAGTTTTCAAAAATGTTTTCAAAAACTATATATTATATAAGTTTTCAAAATGA
1 TATATATTATATAAGTTTTCAAAAATGTTTTAAAAAACTATATAATATATAAGTTTTCAAAATGA
* *
6797643 TTTAAAAATTTATATATTATATACATTTTTAAAAATGTTTTAAAAACTATATATTATATA
66 TTTAAAAATCTATATATTATATA-ATTTTTAAAAATGTTTTAAAAACTATATAATATATA
6797703 TATTTTCAAA
Statistics
Matches: 115, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
138 28 0.24
139 76 0.66
140 1 0.01
141 10 0.09
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (138 bp):
TATATATTATATAAGTTTTCAAAAATGTTTTAAAAAACTATATAATATATAAGTTTTCAAAATGA
TTTAAAAATCTATATATTATATAATTTTTAAAAATGTTTTAAAAACTATATAATATATAAATGTT
TTCAAAAC
Found at i:6797600 original size:65 final size:64
Alignment explanation
Indices: 6797499--6797640 Score: 202
Period size: 65 Copynumber: 2.2 Consensus size: 64
6797489 ATATTTTCAA
* *
6797499 AAATGTTTTAAAAATCTATATATTATATATTTTC-AAAATGTTTTTTAAAAACTATATAATATAT
1 AAATGTTTTCAAAATCTATATATTATATATTTTCAAAAATG-TTTTCAAAAACTATATAATATAT
*
6797563 AAATGTTTTCAAAA-CTATATATTATATAAGTTTTCAAAAATGTTTTCAAAAACTATATATTATA
1 AAATGTTTTCAAAATCTATATATTATAT-A-TTTTCAAAAATGTTTTCAAAAACTATATAATATA
6797627 T
64 T
6797628 -AA-GTTTTCAAAAT
1 AAATGTTTTCAAAAT
6797641 GATTTAAAAA
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
63 23 0.32
64 16 0.23
65 26 0.37
66 6 0.08
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.44
Consensus pattern (64 bp):
AAATGTTTTCAAAATCTATATATTATATATTTTCAAAAATGTTTTCAAAAACTATATAATATAT
Found at i:6797762 original size:2 final size:2
Alignment explanation
Indices: 6797751--6797782 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
6797741 ATTTGCAAAC
6797751 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6797783 GTGTGTGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6798336 original size:19 final size:19
Alignment explanation
Indices: 6798312--6798352 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
6798302 AACGGAGGTA
*
6798312 TGAGCTCTATAATGCTGTG
1 TGAGCTCTATAATGCTATG
*
6798331 TGAGCTCTATGATGCTATG
1 TGAGCTCTATAATGCTATG
6798350 TGA
1 TGA
6798353 CCCCAAGCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.37
Consensus pattern (19 bp):
TGAGCTCTATAATGCTATG
Found at i:6799240 original size:15 final size:15
Alignment explanation
Indices: 6799220--6799250 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6799210 ACCATTTGCA
6799220 AGATTAGAGAATAGG
1 AGATTAGAGAATAGG
6799235 AGATTAGAGAATAGG
1 AGATTAGAGAATAGG
6799250 A
1 A
6799251 CATGAAGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.32, T:0.19
Consensus pattern (15 bp):
AGATTAGAGAATAGG
Found at i:6802919 original size:22 final size:22
Alignment explanation
Indices: 6802894--6802943 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
6802884 ATTATAAAAT
6802894 ATTATTTTATTAAGTTTTTTTA
1 ATTATTTTATTAAGTTTTTTTA
* *
6802916 ATTATTTTGTTGAGTTTTTTTA
1 ATTATTTTATTAAGTTTTTTTA
6802938 ATTATT
1 ATTATT
6802944 AAAAATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (22 bp):
ATTATTTTATTAAGTTTTTTTA
Found at i:6804442 original size:35 final size:35
Alignment explanation
Indices: 6804402--6804472 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
6804392 TAACTTCATG
*
6804402 TTTCCGTGTGATTTCAACATATGATGGCTACTTCT
1 TTTCCGTGTGATTTCAACATATGATAGCTACTTCT
*
6804437 TTTCCGTGTGATTTCAACATATGATAGCTTCTTCT
1 TTTCCGTGTGATTTCAACATATGATAGCTACTTCT
6804472 T
1 T
6804473 CTTCATTGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTCCGTGTGATTTCAACATATGATAGCTACTTCT
Found at i:6818965 original size:2 final size:2
Alignment explanation
Indices: 6818958--6819009 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
6818948 ATTCAAAAGG
6818958 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6819000 AT AT AT AT AT
1 AT AT AT AT AT
6819010 TATTACTTTC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6819224 original size:95 final size:95
Alignment explanation
Indices: 6819061--6819275 Score: 272
Period size: 95 Copynumber: 2.2 Consensus size: 95
6819051 TGGCTCCAAA
* * *
6819061 GTATCGATACTTCTACCATGGTACCGATACTTCTATACTATGGTACCAATACCTCCTACCAGTAT
1 GTATCGATACCT-TACCATGGTACCGATACTACCATACTATGGTACCAATACCTCCTACCAGTAT
*
6819126 CGATACCAATATTAGGTTCGATGTTT-CCTG
65 CGATACCAATATTAGATTCGATGTTTGCCTG
* * ** *
6819156 GTATCGATACCCTTACCATGGTATCGATACTACCATACTATGGTACCGATATCC-CCTTGCGGTA
1 GTATCGATA-CCTTACCATGGTACCGATACTACCATACTATGGTACCAATA-CCTCCTACCAGTA
*
6819220 TCGATACCAATATTAGATTCGATGTTTGCTTG
64 TCGATACCAATATTAGATTCGATGTTTGCCTG
* *
6819252 TTATCGATAGCCTTACAATGGTAC
1 GTATCGATA-CCTTACCATGGTAC
6819276 TGTTCTATCA
Statistics
Matches: 103, Mismatches: 14, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
95 76 0.74
96 27 0.26
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.33
Consensus pattern (95 bp):
GTATCGATACCTTACCATGGTACCGATACTACCATACTATGGTACCAATACCTCCTACCAGTATC
GATACCAATATTAGATTCGATGTTTGCCTG
Found at i:6821060 original size:10 final size:10
Alignment explanation
Indices: 6821045--6821069 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
6821035 ACCCATATGG
6821045 AATCCCATCT
1 AATCCCATCT
6821055 AATCCCATCT
1 AATCCCATCT
6821065 AATCC
1 AATCC
6821070 TTACTTATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.40, G:0.00, T:0.28
Consensus pattern (10 bp):
AATCCCATCT
Found at i:6826499 original size:18 final size:17
Alignment explanation
Indices: 6826476--6826525 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
6826466 GGATTATCAA
6826476 TGGTCCTTCGAGATATAG
1 TGGTCCTTCG-GATATAG
*
6826494 TGGTCCTTCGGGACATAG
1 TGGTCCTTC-GGATATAG
* *
6826512 TTGTTCTTCGGATA
1 TGGTCCTTCGGATA
6826526 AATATTCAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 4 0.15
18 22 0.81
19 1 0.04
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (17 bp):
TGGTCCTTCGGATATAG
Found at i:6828444 original size:27 final size:27
Alignment explanation
Indices: 6828411--6828464 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
6828401 CATAAAGATA
6828411 TGGGTATATGTTGTATGCATGAATATC
1 TGGGTATATGTTGTATGCATGAATATC
6828438 TGGGTATATGTTGTATGCATGAATATC
1 TGGGTATATGTTGTATGCATGAATATC
6828465 ATATAGCATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.07, G:0.26, T:0.41
Consensus pattern (27 bp):
TGGGTATATGTTGTATGCATGAATATC
Found at i:6828918 original size:65 final size:65
Alignment explanation
Indices: 6828814--6828967 Score: 236
Period size: 65 Copynumber: 2.4 Consensus size: 65
6828804 ACCCACTTCA
6828814 AATGCATTTTGTGTACCGATGCACAAGCCATGCATCGATGCACTCTTGAATATTTTGAAACATCG
1 AATGCATTTTGTGTACCGATGCACAAGCCATGCATCGATGCACTCTTGAATATTTTGAAACATCG
* * ** *
6828879 AATGCATTTTGTGTATCGTTGCACAAGCCATGCATCGATGCACTCTTGGCTCTTTTGAAACATCG
1 AATGCATTTTGTGTACCGATGCACAAGCCATGCATCGATGCACTCTTGAATATTTTGAAACATCG
* * *
6828944 AATGTAATTAGTGTACCGATGCAC
1 AATGCATTTTGTGTACCGATGCAC
6828968 CCCTAGTGTA
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 79 1.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (65 bp):
AATGCATTTTGTGTACCGATGCACAAGCCATGCATCGATGCACTCTTGAATATTTTGAAACATCG
Found at i:6829963 original size:20 final size:20
Alignment explanation
Indices: 6829938--6829980 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
6829928 ACTAAGAGCC
**
6829938 CATTTAGGATTATATAGATG
1 CATTTAGGAGCATATAGATG
*
6829958 CATTTAGGAGCATATAGTTG
1 CATTTAGGAGCATATAGATG
6829978 CAT
1 CAT
6829981 GTGGTGAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (20 bp):
CATTTAGGAGCATATAGATG
Found at i:6831368 original size:18 final size:18
Alignment explanation
Indices: 6831323--6831374 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
6831313 TTTGATCGCA
6831323 CTACACACATTCCATTTTG
1 CTAC-CACATTCCATTTTG
* *
6831342 CCACAACATATCCA-TTTG
1 CTACCACAT-TCCATTTTG
6831360 CTACCACATTGCCAT
1 CTACCACATT-CCAT
6831375 CGTTCCATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
17 1 0.04
18 18 0.69
19 7 0.27
ACGTcount: A:0.29, C:0.35, G:0.06, T:0.31
Consensus pattern (18 bp):
CTACCACATTCCATTTTG
Done.